PUBLICATIONS

2024

1. Ahmed Y, Nguyen BA, Afrin S, Singh V, Evers B, Singh P, et al. Amyloid fibril polymorphism in the heart of an ATTR amyloidosis patient with polyneuropathy attributed to the V122Delta variant. bioRxiv. 2024.
2. Aiyer S, Baldwin PR, Tan SM, Shan Z, Oh J, Mehrani A, et al. Overcoming resolution attenuation during tilted cryo-EM data collection. Nat Commun. 2024.
3. Aragon M, Bowman SEJ, Chen CH, de la Cruz MJ, Decato DA, Eng ET, et al. Applying 3D ED/MicroED workflows toward the next frontiers. Acta Crystallogr C Struct Chem. 2024.
4. Begley M, Aragon M, Baker RW. A structure-based mechanism for initiation of AP-3 coated vesicle formation.
   bioRxiv. 2024.
5. Bepler T, Barrera MD, Rooney MT, Xiong Y, Kuang H, Goodell E, et al. Antiviral activity of the host defense peptide piscidin 1: investigating a membrane-mediated mode of action. Front Chem. 2024.
6. Bhattacharya S, Jenkins MC, Keshavarz-Joud P, Bourque AR, White K, Alvarez Barkane AM, et al.Heterologous Prime-Boost with Immunologically Orthogonal Protein Nanoparticles for Peptide Immunofocusing. bioRxiv. 2024.
7. Chen X, Guo Y, Zhao T, Lu J, Fang J, Wang Y, et al. Structural basis for the H2AK119ub1-specific DNMT3A-nucleosome interaction. Nat Commun. 2024.
8. Clark J, Hoxie I, Adelsberg DC, Sapse IA, Andreata-Santos R, Yong JS, et al. Protective effect and molecular mechanisms of human non-neutralizing cross-reactive spike antibodies elicited by SARS-CoV-2 mRNA vaccination. bioRxiv. 2024.
9. Decato D, Palatinus L, Stierle A, Stierle D. Absolute structure determination of Berkecoumarin by X-ray and electron diffraction. Acta Crystallogr C Struct Chem. 2024.
10. Ennist NM, Wang S, Kennedy MA, Curti M, Sutherland GA, Vasilev C, et al. De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nat Chem Biol. 2024.
11. Feng S, Aplin C, Nguyen TT, Milano SK, Cerione RA. Filament formation drives catalysis by glutaminase enzymes important in cancer progression. Nat Commun. 2024
12. Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, et al. Kainate receptor channel opening and gating mechanism. Nature. 2024.
13. Gao X, Yeh HI, Yang Z, Fan C, Jiang F, Howard RJ, et al. Allosteric inhibition of CFTR gating by CFTRinh-172 binding in the pore. Nat Commun. 2024.
14. Ghazi Esfahani B, Walia N, Neselu K, Aragon M, Askenasy I, Wei A, et al. Dimerization of assimilatory NADPH-dependent sulfite reductase reveals elements for diflavin reductase binding at a minimal interface.
    bioRxiv. 2024.
15. Gong B, Johnston JD, Thiemicke A, de Marco A, Meyer T. Endoplasmic reticulum-plasma membrane contact gradients direct cell migration. Nature. 2024.
16. Gonzalez-Del Pino GL, Walsh RM, Atanasiu D, Cairns TM, Saw WT, Cohen GH, et al.

    Allosteric mechanism of membrane fusion activation in a herpesvirus. bioRxiv. 2024.

17. Gorman J, Cheung CS, Duan Z, Ou L, Wang M, Chen X, et al. Cleavage-intermediate Lassa virus trimer elicits neutralizing responses, identifies neutralizing nanobodies, and reveals an apex-situated site-of-vulnerability. Nat Commun. 2024.
18. Guttipatti P, Saadallah N, Ji R, Avula UMR, Goulbourne CN, Wan EY. Quantitative 3D electron microscopy characterization of mitochondrial structure, mitophagy, and organelle interactions in murine atrial fibrillation. J Struct Biol. 2024.
19. Hirano S, Altae-Tran H, Kannan S, Macrae RK, Zhang F. Structural determinants of DNA cleavage by a CRISPR HNH-Cascade system. Mol Cell. 2024.
20. Hou K, Ge P, Sawaya MR, Dolinsky JL, Yang Y, Jiang YX, et al. How short peptides can disassemble ultra-stable tau fibrils extracted from Alzheimer’s disease brain by a strain-relief mechanism. bioRxiv. 2024.
21. Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, et al. Blueprinting extendable nanomaterials with standardized protein blocks. Nature. 2024
22. Jaiswal R, Santosh V, Braud B, Washington A, Escalante CR. Cryo-EM Structure of AAV2 Rep68 bound to integration site AAVS1: Insights into the mechanism of DNA melting. bioRxiv. 2024.
23. Jia L, Ruben EA, Suarez HJ, Olsen SK, Wasmuth EV. Single particle cryo-electron microscopy with an enhanced 200 kV cryo-TEM configuration achieves near-atomic resolution. bioRxiv. 2024.
24. Kim ED, Wu X, Lee S, Tibbs GR, Cunningham KP, Di Zanni E, et al. Propofol rescues voltage-dependent gating of HCN1 channel epilepsy mutants. Nature. 2024.
25. Kottur J, Malik R, Aggarwal AK. Nucleic acid mediated activation of a short prokaryotic Argonaute immune system. Nat Commun. 2024.
26. Lampe GD, Liang AR, Zhang DJ, Fernandez IS, Sternberg SH. Structure-guided engineering of type I-F CASTs for targeted gene insertion in human cells. bioRxiv. 2024.
27. Li J, Li Y, Koide A, Kuang H, Torres VJ, Koide S, et al. Proton-coupled transport mechanism of the efflux pump NorA. Nat Commun. 2024.
28. Lv G, Sayles NM, Huang Y, Mancinelli CD, McAvoy K, Shneider NA, et al. Amyloid fibril structures link CHCHD10 and CHCHD2 to neurodegeneration. bioRxiv. 2024.
29. Malik R, Johnson RE, Ubarretxena-Belandia I, Prakash L, Prakash S, Aggarwal AK. Cryo-EM structure of the Rev1-Polzeta holocomplex reveals the mechanism of their cooperativity in translesion DNA synthesis. Nat Struct Mol Biol. 2024.
30. Nguyen BA, Afrin S, Yakubovska A, Singh V, Alicea JV, Kunach P, et al. ATTRv-V30M Type A amyloid fibrils from heart and nerves exhibit structural homogeneity. bioRxiv. 2024.
31. Nguyen BA, Singh V, Afrin S, Singh P, Pekala M, Ahmed Y, et al. Cryo-EM confirms a common fibril fold in the heart of four patients with ATTRwt amyloidosis. Commun Biol. 2024.
32. Olia AS, Prabhakaran M, Harris DR, Cheung CS, Gillespie RA, Gorman J, et al. Anti-idiotype isolation of a broad and potent influenza A virus-neutralizing human antibody. Front Immunol. 2024.
33. Qiu B, Boudker O. Structural basis of the excitatory amino acid transporter 3 substrate recognition.
    bioRxiv. 2024.
34. Rangan R, Feathers R, Khavnekar S, Lerer A, Johnston JD, Kelley R, et al. CryoDRGN-ET: deep reconstructing generative networks for visualizing dynamic biomolecules inside cells. Nat Methods. 2024.
35. Rechkoblit O, Sciaky D, Kreitler DF, Buku A, Kottur J, Aggarwal AK. Activation of CBASS Cap5 endonuclease immune effector by cyclic nucleotides. Nat Struct Mol Biol. 2024.
36. Saecker RM, Mueller AU, Malone B, Chen J, Budell WC, Dandey VP, et al. Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy. bioRxiv. 2024.
37. Serbynovskyi V, Wang J, Chua EY, Ishemgulova A, Alink LM, Budell WC, et al. CryoCycle your grids: Plunge vitrifying and reusing clipped grids to advance cryoEM democratization. bioRxiv. 2024.
38. Sharma S, Luo M, Patel H, Mueller DM, Liao M. Conformational ensemble of yeast ATP synthase at low pH reveals unique intermediates and plasticity in F(1)-F(o) coupling. Nat Struct Mol Biol. 2024.
39. Son Y, Kenny TC, Khan A, Birsoy K, Hite RK. Structural basis of lipid head group entry to the Kennedy pathway by FLVCR1. Nature. 2024.

40. Usmani M, Coudray N, Riggi M, Raghu R, Ramchandani H, Bobe D, et al. Cryo-ET reveals the in situ architecture of the polar tube invasion apparatus from microsporidian parasites. bioRxiv. 2024.

41. Yang R, Ko YH, Li F, Lokareddy RK, Hou CD, Kim C, et al. Structural basis for nuclear import of hepatitis B virus (HBV) nucleocapsid core. Sci Adv. 2024.
42. Wang L, Hoang A, Gil-Iturbe E, Laganowsky A, Quick M, Zhou M. Mechanism of anion exchange and small-molecule inhibition of pendrin. Nat Commun. 2024.
43. Warren AL, Lankri D, Cunningham MJ, Serrano IC, Parise LF, Kruegel AC, et al. Structural pharmacology and therapeutic potential of 5-methoxytryptamines. Nature. 2024.
44. Xu D, Ando N. Miffi: Improving the accuracy of CNN-based cryo-EM micrograph filtering with fine-tuning and Fourier space information. J Struct Biol. 2024.
45. Xu P, Saito M, Faure G, Maguire S, Chau-Duy-Tam Vo S, Wilkinson ME, et al. Structural insights into the diversity and DNA cleavage mechanism of Fanzor. Cell. 2024.
46. Zhao Y, Schubert H, Blakely A, Forbush B, Smith MD, Rinehart J, et al. Structural bases for Na(+)-Cl(-) cotransporter inhibition by thiazide diuretic drugs and activation by kinases.
    Nat Commun. 2024.
47. Zhao Y, Xu C, Chen X, Jin H, Li H. Unveil the Molecular Interplay between Aminoglycosides and Pseudouridine in IRES Translation. bioRxiv. 2024.
48. Zilberg G, Parpounas AK, Warren AL, Yang S, Wacker D. Molecular basis of human trace amine-associated receptor 1 activation. Nat Commun. 2024.
49. Zilberg G, Parpounas AK, Warren AL, Fiorillo B, Provasi D, Filizola M, et al. Structural insights into the unexpected agonism of tetracyclic antidepressants at serotonin receptors 5-HT(1e)R and 5-HT(1F)R. Sci Adv. 2024.
50. Zuo H, Park J, Frangaj A, Ye J, Lu G, Manning JJ, et al. Promiscuous G-protein activation by the calcium-sensing receptor. Nature. 2024.

2023

1. Atanasoff KE, Brambilla L, Adelsberg DC, Kowdle S, Stevens CS, Hung CT, et al. An in vitro experimental pipeline to characterize the binding specificity of SARS-CoV-2 neutralizing antibodies. bioRxiv. 2023.
2. Benoit MPMH, Rao L, Asenjo AB, Gennerich A, Sosa H. High-Resolution structures of microtubule-bound KIF1A and its pathogenic variant P305L. bioRxiv. 2023.
3. Capper MJ, Yang S, Stone AC, Vatansever S, Zilberg G, Mathiharan YK, et al. Substrate binding and inhibition of the anion exchanger 1 transporter. Nat Struct Mol Biol. 2023.
4. Cheng A, Kim PT, Kuang H, Mendez JH, Chua EYD, Maruthi K, et al. Fully automated multi-grid cryoEM screening using Smart Leginon. IUCrJ. 2023.
5. de la Cruz MJ, Eng ET. Scaling up cryo-EM for biology and chemistry: The journey from niche technology to mainstream method. Structure. 2023.
6. de Marco A, Chua E, Alink L, Kopylov M. Square beams for optimal tiling in TEM. Res Sq. 2023.
7. Edman NI, Redler RL, Phal A, Schlichthaerle T, Srivatsan SR, Etemadi A, et al. Modulation of FGF pathway signaling and vascular differentiation using designed oligomeric assemblies. bioRxiv. 2023.
8. Ennist N, Wang S, Kennedy M, Curti M, Sutherland G, Vasilev C, et al. De novo design of energy transfer proteins housing excitonically coupled chlorophyll special pairs. Res Sq. 2023.
9. Fan C, Flood E, Sukomon N, Agarwal S, Allen TW, Nimigean CM. Calcium-gated potassium channel blockade via membrane-facing fenestrations. Nat Chem Biol. 2023.
10. Feng S, Aplin C, Nguyen TT, Cerione RA. Filament formation by glutaminase enzymes drives catalysis. bioRxiv. 2023.
11. Feng Z, Alvarenga OE, Accardi A. Structural basis of closed groove scrambling by a TMEM16 protein. bioRxiv. 2023.
12. Frey SJ, Carreno JM, Bielak D, Arsiwala A, Altomare CG, Varner C, et al. Nanovaccines Displaying the Influenza Virus Hemagglutinin in an Inverted Orientation Elicit an Enhanced Stalk-Directed Antibody Response. Adv Healthc Mater. 2023.
13. Gangwar SP, Yen LY, Yelshanskaya MV, Sobolevsky AI. Positive and negative allosteric modulation of GluK2 kainate receptors by BPAM344 and antiepileptic perampanel. Cell reports. 2023.
14. Gibbs E, Klemm E, Seiferth D, Kumar A, Ilca SL, Biggin PC, et al. Conformational transitions and allosteric modulation in a heteromeric glycine receptor. Nat Commun. 2023.
15. Han BG, Avila-Sakar A, Remis J, Glaeser RM. Challenges in making ideal cryo-EM samples. Curr Opin Struct Biol. 2023.
16. Henderson R, Zhou Y, Stalls V, Wiehe K, Saunders KO, Wagh K, et al. Structural basis for breadth development in the HIV-1 V3-glycan targeting DH270 antibody clonal lineage. Nat Commun. 2023.
17. Hoang Trinh TK, Catalano C, Guo Y. Fabrication of membrane proteins in the form of native cell membrane nanoparticles using novel membrane active polymers. Nanoscale Adv. 2023.
18. Hu Z, Zheng X, Yang J. Conformational trajectory of allosteric gating of the human cone photoreceptor cyclic nucleotide-gated channel. Nat Commun. 2023.
19. Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, et al. Blueprinting expandable nanomaterials with standardized protein building blocks. bioRxiv. 2023.
20. Keshavarz-Joud P, Zhao L, Bobe D, Hernandez C, Kopylov M, Yen LY, et al. Exploring the Landscape of the PP7 Virus-like Particle for Peptide Display. ACS Nano. 2023.
21. Kim PT, Noble AJ, Cheng A, Bepler T. Learning to automate cryo-electron microscopy data collection with Ptolemy. IUCrJ. 2023.
22. Kulczyk AW, Sorzano COS, Grela P, Tchorzewski M, Tumer NE, Li XP. Cryo-EM structure of Shiga toxin 2 in complex with the native ribosomal P-stalk reveals residues involved in the binding interaction. J Biol Chem. 2023.
23. Lansky S, Betancourt JM, Zhang J, Jiang Y, Kim ED, Paknejad N, et al. A pentameric TRPV3 channel with a dilated pore. Nature. 2023.
24. Leonhardt SA, Purdy MD, Grover JR, Yang Z, Poulos S, McIntire WE, et al. Antiviral HIV-1 SERINC restriction factors disrupt virus membrane asymmetry. Nat Commun. 2023.
25. Li F, Hou CD, Lokareddy RK, Yang R, Forti F, Briani F, et al. High-resolution cryo-EM structure of the Pseudomonas bacteriophage E217. Nat Commun. 2023.
26. Lilic M, Holmes NA, Bush MJ, Marti AK, Widdick DA, Findlay KC, et al. Structural basis of dual activation of cell division by the actinobacterial transcription factors WhiA and WhiB. Proc Natl Acad Sci U S A. 2023.
27. Malone BF, Perry JK, Olinares PDB, Lee HW, Chen J, Appleby TC, et al. Structural basis for substrate selection by the SARS-CoV-2 replicase. Nature. 2023.
28. Molodtsov V, Wang C, Firlar E, Kaelber JT, Ebright RH. Structural basis of Rho-dependent transcription termination. Nature. 2023.
29. Monsen RC, Chua EYD, Hopkins JB, Chaires JB, Trent JO. Structure of a 28.5 kDa duplex-embedded G-quadruplex system resolved to 7.4 A resolution with cryo-EM. Nucleic Acids Res. 2023.
30. Mueller AU, Chen J, Wu M, Chiu C, Nixon BT, Campbell EA, et al. A general mechanism for transcription bubble nucleation in bacteria. Proc Natl Acad Sci U S A. 2023.
31. Park JU, Tsai AW, Rizo AN, Truong VH, Wellner TX, Schargel RD, et al. Structures of the holo CRISPR RNA-guided transposon integration complex. Nature. 2023.
32. Patel A, Kumar S, Lai L, Chakravarthy C, Valanparambil R, Reddy ES, et al. Molecular basis of SARS-CoV-2 Omicron variant evasion from shared neutralizing antibody response. Structure. 2023.
33. Qiu B, Boudker O. Symport and antiport mechanisms of human glutamate transporters. Nat Commun. 2023.
34. Santiago-Frangos A, Henriques WS, Wiegand T, Gauvin CC, Buyukyoruk M, Graham AB, et al. Structure reveals why genome folding is necessary for site-specific integration of foreign DNA into CRISPR arrays. Nat Struct Mol Biol. 2023.
35. Schmidpeter PAM, Petroff JT, 2nd, Khajoueinejad L, Wague A, Frankfater C, Cheng WWL, et al.NaMembrane phospholipids control gating of the mechanosensitive potassium leak channel TREK1. Nat Commun. 2023.
36. Watkins MB, Wang H, Burnim A, Ando N. Conformational switching and flexibility in cobalamin-dependent methionine synthase studied by small-angle X-ray scattering and cryo-electron microscopy. bioRxiv. 2023.
37. Weaver JW, Proshkin S, Duan W, Epshtein V, Gowder M, Bharati BK, et al. Control of transcription elongation and DNA repair by alarmone ppGpp. Nat Struct Mol Biol. 2023.
38. Wilbon AS, Shen J, Ruchala P, Zhou M, Pan Y. Structural basis of ferroportin inhibition by minihepcidin PR73. PLoS Biol. 2023.
39. Yang Y, Fritzsching KJ, He S, McDermott AE. Zinc Alters the Supramolecular Organization of Nucleic Acid Complexes with Full-Length TIA1. bioRxiv. 2023.

2022

1. Andrews SF, Raab JE, Gorman J, Gillespie RA, Cheung CSF, Rawi R, Cominsky LY, Boyington JC, Creanga A, Shen CH, Harris DR, Olia AS, Nazzari AF, Zhou T, Houser KV, Chen GL, Mascola JR, Graham BS, Kanekiyo M, Ledgerwood JE, Kwong PD, McDermott AB. A single residue in influenza virus H2 hemagglutinin enhances the breadth of the B cell response elicited by H2 vaccination. Nat Med. 2022;28(2):373-382. PubMed.
2. Ashraf KU, Nygaard R, Vickery ON, Erramilli SK, Herrera CM, McConville TH, Petrou VI, Giacometti SI, Dufrisne MB, Nosol K, Zinkle AP, Graham CLB, Loukeris M, Kloss B, Skorupinska-Tudek K, Swiezewska E, Roper DI, Clarke OB, Uhlemann AC, Kossiakoff AA, Trent MS, Stansfeld PJ, Mancia F. Structural basis of lipopolysaccharide maturation by the O-antigen ligase. Nature. 2022;604(7905):371-376. PubMed.
3. Banach BB, Tripathi P, Da Silva Pereira L, Gorman J, Nguyen TD, Dillon M, et al. Highly protective antimalarial antibodies via precision library generation and yeast display screening. J Exp Med.2022.
4. Bepler T, Borst AJ, Bouvette J, Cannone G, Chen S, Cheng A, et al. Smart data collection for CryoEM. J Struct Biol. 2022.
5. Cao X, Boyaci H, Chen J, Bao Y, Landick R, Campbell EA. Basis of narrow-spectrum activity of fidaxomicin on Clostridioides difficile. Nature. 2022. PubMed.
6. Capper MJ, Yang S, Stone AC, Vatansever S, Zilberg G, Mathiharan YK, Habib R, Hutchinson K, Schlessinger A, Mezei M, Osman R, Zhang B, Wacker D. Substrate Binding and Inhibition of the Anion Exchanger 1 Transporter. bioRxiv. 2022. [preprint].
7. Chang A, Xiang X, Wang J, Lee C, Arakhamia T, Simjanoska M, Wang C, Carlomagno Y, Zhang G, Dhingra S, Thierry M, Perneel J, Heeman B, Forgrave LM, DeTure M, DeMarco ML, Cook CN, Rademakers R, Dickson DW, Petrucelli L, Stowell MHB, Mackenzie IRA, Fitzpatrick AWP. Homotypic fibrillization of TMEM106B across diverse neurodegenerative diseases. Cell. 2022;185(8):1346-1355 e1315. PubMed.
8. Chen J, Wang Q, Malone B, Llewellyn E, Pechersky Y, Maruthi K, Eng ET, Perry JK, Campbell EA, Shaw DE, Darst SA. Ensemble cryo-EM reveals conformational states of the nsp13 helicase in the SARS-CoV-2 helicase replication-transcription complex. Nat Struct Mol Biol. 2022;29(3):250-260. PubMed.
9. Cheng A, Kim P, Kuang H, Mendez JH, Chua EYD, Maruthi K, et al. Fully Automated Multi-Grid Cryo-EM Screening using Smart Leginon. bioRxiv. 2022.
10. Cheung CS, Gorman J, Andrews SF, Rawi R, Reveiz M, Shen CH, Wang Y, Harris DR, Nazzari AF, Olia AS, Raab J, Teng IT, Verardi R, Wang S, Yang Y, Chuang GY, McDermott AB, Zhou T, Kwong PD. Structure of an influenza group 2-neutralizing antibody targeting the hemagglutinin stem supersite. Structure. 2022. PubMed.
11. Chua EYD, Mendez JH, Rapp M, Ilca SL, Zi Tan Y, Maruthi K, Kuang H, Zimanyi CM, Cheng A, Eng ET, Noble AJ, Potter CS, Carragher B. Better, Faster, Cheaper: Recent Advances in Cryo-Electron Microscopy. Annu Rev Biochem. 2022. PubMed.
12. Chua EYD, Serbynovskyi V, Gheorghita R, Alink LM, Podolsky D, Potter CS, et al. Vitrocam: A simple low cost Vitrobot camera for assessing grid quality. bioRxiv. 2022.
13. Chuang JZ, Yang N, Nakajima N, Otsu W, Fu C, Yang HH, Lee MP, Akbar AF, Badea TC, Guo Z, Nuruzzaman A, Hsu KS, Dunaief JL, Sung CH. Retinal pigment epithelium-specific CLIC4 mutant is a mouse model of dry age-related macular degeneration. Nat Commun. 2022;13(1):374. PubMed.
14. De Gasperi R, Mo C, Azulai D, Wang Z, Harlow LM, Du Y, Graham Z, Pan J, Liu Xh, Guo L. Numb is required for optimal contraction of skeletal muscle. Journal of Cachexia, Sarcopenia and Muscle. 2022. PubMed.
15. Delbeau M, Omollo EO, Froom R, Koh S, Mooney RA, Lilic M, et al. Structural and functional basis of the universal transcription factor NusG pro-pausing activity in Mycobacterium tuberculosis bioRxiv. 2022
16. Falzone ME, Feng Z, Alvarenga OE, Pan Y, Lee B, Cheng X, Fortea E, Scheuring S, Accardi A. TMEM16 scramblases thin the membrane to enable lipid scrambling. Nature Communications. 2022;13(1):2604. PubMed.
17. Falzone ME, MacKinnon R. Gβγ Activates PIP2 Hydrolysis by Recruiting and Orienting PLCβ on the Membrane Surface. bioRxiv. 2022.
18. Finkelstein MT, Parker Miller E, Erdman MC, Fera D. Analysis of two cooperating antibodies unveils immune pressure imposed on HIV Env to elicit a V3-glycan supersite broadly neutralizing antibody lineage. Front Immunol. 2022.
19. Gao X, Schmidpeter PAM, Berka V, Durham RJ, Fan C, Jayaraman V, et al. Gating intermediates reveal inhibitory role of the voltage sensor in a cyclic nucleotide-modulated ion channel. Nat Commun. 2022.
20. Gobeil SMC, Henderson R, Stalls V, Janowska K, Huang X, May A, Speakman M, Beaudoin E, Manne K, Li D, Parks R, Barr M, Deyton M, Martin M, Mansouri K, Edwards RJ, Sempowski GD, Saunders KO, Wiehe K, Williams W, Korber B, Haynes BF, Acharya P. Structural diversity of the SARS-CoV-2 Omicron spike. bioRxiv. 2022.
21. Gorman J, Cheung CS-F, Duan Z, Sun Y, Wang P, Boyington JC, Biju A, Bylund T, Cheng C, Ou L, Stephens T, Tsybovsky Y, Verardi R, Wang S, Yang Y, Zhang B, Zheng C, Zhou T, Mascola JR, Ho DD, Ho M, Kwong PD. Prefusion-Stabilized Lassa Virus Trimer Identifies Neutralizing Nanobodies and Reveals an Apex-Situated Site of Vulnerability. bioRxiv. 2022.
22. Gorman J, Wang C, Mason RD, Nazzari AF, Welles HC, Zhou T, et al. Cryo-EM structures of prefusion SIV envelope trimer. Nat Struct Mol Biol. 2022.
23. Guerra P, Gonzalez-Alamos M, Llauro A, Casanas A, Querol-Audi J, de Pablo PJ, Verdaguer N. Symmetry disruption commits vault particles to disassembly. Sci Adv. 2022;8(6):eabj7795. PubMed.
24. Hunter B, Benoit MPMH, Asenjo AB, Doubleday C, Trofimova D, Sosa H, Allingham JS. Kinesin-8-specific loop-2 controls the dual activities of the motor domain according to tubulin protofilament shape. bioRxiv. 2022. [preprint]
25. Han B, Takvorian PM, Weiss LM. The Function and Structure of the Microsporidia Polar Tube. Exp Suppl. 2022;114:179-213. PubMed.
26. Henderson R, Zhou Y, Stalls V, Wiehe K, Saunders KO, Wagh K, et al. Structural basis for breadth development in a HIV-1 neutralizing antibody. bioRxiv. 2022.
27. Hoffmann FT, Kim M, Beh LY, Wang J, Vo PLH, Gelsinger DR, et al. Selective TnsC recruitment enhances the fidelity of RNA-guided transposition. Nature. 2022.
28. Howarth GS, McDermott AE. High-Resolution Magic Angle Spinning NMR of KcsA in Liposomes: The Highly Mobile C-Terminus. Biomolecules. 2022.
29. Hunter B, Benoit M, Asenjo AB, Doubleday C, Trofimova D, Frazer C, et al. Kinesin-8-specific loop-2 controls the dual activities of the motor domain according to tubulin protofilament shape. Nat Commun. 2022.
30. Juette MF, Carelli JD, Rundlet EJ, Brown A, Shao S, Ferguson A, et al. Didemnin B and ternatin-4 differentially inhibit conformational changes in eEF1A required for aminoacyl-tRNA accommodation into mammalian ribosomes. Elife. 2022.
31. Kelley K, Raczkowski AM, Klykov O, Jaroenlak P, Bobe D, Kopylov M, Eng ET, Bhabha G, Potter CS, Carragher B, Noble AJ. Waffle Method: A general and flexible approach for improving throughput in FIB-milling. Nat Commun. 2022;13(1):1857. PubMed.
32. Kendall AK, Chandra M, Xie B, Wan W, Jackson LP. Improved mammalian retromer cryo-EM structures reveal a new assembly interface. bioRxiv. 2022. [preprint]
33. Kieuvongngam V, Chen J. Structures of the peptidase-containing ABC transporter PCAT1 under equilibrium and nonequilibrium conditions. Proc Natl Acad Sci U S A. 2022;119(4). PubMed.
34. Klykov O, Kopylov M, Carragher B, Heck AJR, Noble AJ, Scheltema RA. Label-free visual proteomics: Coupling MS- and EM-based approaches in structural biology. Mol Cell. 2022;82(2):285-303. PubMed.
35. Klykov O, Bobe D, Paraan M, Johnston JD, Potter CS, Carragher B, et al. In situ cryo-FIB/SEM Specimen Preparation Using the Waffle Method. Bio Protoc. 2022.
36. Koo CW, Tucci FJ, He Y, Rosenzweig AC. Recovery of particulate methane monooxygenase structure and activity in a lipid bilayer. Science. 2022;375(6586):1287-1291. PubMed.
37. Laughlin ZT, Nandi S, Dey D, Zelinskaya N, Witek MA, Srinivas P, Nguyen HA, Kuiper EG, Comstock LR, Dunham CM, Conn GL. 50S subunit recognition and modification by the Mycobacterium tuberculosis ribosomal RNA methyltransferase TlyA. Proc Natl Acad Sci U S A. 2022;119(14):e2120352119. PubMed.
38. Leonhardt SA, Purdy MD, Grover JR, Yang Z, Poulos S, McIntire WE, et al. CryoEM Structures of the Human HIV-1 Restriction Factor SERINC3 and Function as a Lipid Transporter. bioRxiv. 2022.
39. Li Y, Majumdar S, Treen R, Sharma MR, Corro J, Gamper HB, et al. Starvation sensing by mycobacterial RelA/SpoT homologue through constitutive surveillance of translation. bioRxiv. 2022.
40. Li Y, Zhang R, Wang C, Forouhar F, Clarke OB, Vorobiev S, et al. Oligomeric interactions maintain active-site structure in a noncooperative enzyme family. The EMBO journal. 2022.
41. Liang WG, Wijaya J, Wei H, Noble AJ, Mancl JM, Mo S, Lee D, Lin King JV, Pan M, Liu C, Koehler CM, Zhao M, Potter CS, Carragher B, Li S, Tang WJ. Structural basis for the mechanisms of human presequence protease conformational switch and substrate recognition. Nat Commun. 2022;13(1):1833. PubMed.
42. Lin MH, Jensen MK, Elrod ND, Huang KL, Welle KA, Wagner EJ, et al. Inositol hexakisphosphate is required for Integrator function. Nat Commun. 2022.
43. Malik R, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK. Cryo-EM structure of translesion DNA synthesis polymerase zeta with a base pair mismatch. Nat Commun. 2022;13(1):1050. PubMed.
44. Malone BF, Perry JK, Olinares PDB, Chen J, Appelby TK, Feng JY, Bilello JP, Ng H, Sotiris J, Ebrahim M, Chua EYD, Mendez JH, Eng ET, Landick R, Chait BT, Campbell EA, Darst SA. Structural basis for substrate selection by the SARS-CoV-2 replicase. bioRxiv. 2022.
45. Mei L, Reynolds MJ, Garbett D, Gong R, Meyer T, Alushin GM. Structural mechanism for bidirectional actin cross-linking by T-plastin. Proc Natl Acad Sci U S A. 2022.
46. Nasiri A, Bepler T. Unsupervised Object Representation Learning using Translation and Rotation Group Equivariant VAE. arXiv preprint arXiv:221012918. 2022.
47. Nguyen BA, Afrin S, Singh V, Ahmed Y, Pedretti R, del Carmen Fernandez-Ramirez M, et al. Structural polymorphism of amyloid fibrils in cardiac ATTR amyloidosis revealed by cryo-electron microscopy. bioRxiv. 2022.
48. Paraan M, Nasef M, Chou-Zheng L, Khweis SA, Schoeffler AJ, Hatoum-Aslan A, et al. The structure of a Type III-A CRISPR-Cas effector complex reveals conserved and idiosyncratic contacts to target RNA and crRNA among Type III-A systems. bioRxiv. 2022.
49. Patel A, Kumar S, Lai L, Chakravarthy C, Valanparambil R, Reddy ES, et al. Molecular basis of SARS-CoV-2 Omicron variant evasion from shared neutralizing antibody response. bioRxiv. 2022.
50. Puno MR, Lima CD. Structural basis for RNA surveillance by the human nuclear exosome targeting (NEXT) complex. Cell. 2022;185(12):2132-2147 e2126. PubMed.
51. Qiu B, Boudker O. Dancing with the ions: symport and antiport mechanisms of human glutamate transporters. bioRxiv. 2022.
52. Ram S, Bepler T. Few Shot Protein Generation. arXiv preprint arXiv:220401168. 2022.
53. Ranaivoson FM, Crozet V, Benoît MPMH, Khalid AAM, Kikuti C, Sirkia H, et al. Nucleotide-free structures of Kif20A illuminate the atypical allostery in this mitotic kinesin-6. bioRxiv. 2022.
54. Rashid A, Tevlin M, Lu Y, Shaham S. A developmental pathway for epithelial-to-motoneuron transformation in C. elegans. bioRxiv. 2022
55. Reddy KD, Ciftci D, Scopelliti AJ, Boudker O. The archaeal glutamate transporter homologue GltPh shows heterogeneous substrate binding. Journal of General Physiology. 2022.
56. Sauer DB, Wang B, Sudar JC, Song J, Marden J, Rice WJ, et al. The ups and downs of elevator-type di-/tricarboxylate membrane transporters. FEBS J. 2022.
57. Schmidpeter PAM, Wu D, Rheinberger J, Riegelhaupt PM, Tang H, Robinson CV, et al. Anionic lipids unlock the gates of select ion channels in the pacemaker family. Nat Struct Mol Biol. 2022.
58. Selvakumar P, Fernández-Mariño AI, Khanra N, He C, Paquette AJ, Wang B, Huang R, Smider VV, Rice WJ, Swartz KJ, Meyerson JR. Structures of the T cell potassium channel Kv1.3 with immunoglobulin modulators. bioRxiv. 2022. [preprint]
59. Smith EM, Ferrell S, Tokars VL, Mondragon A. Structures of an active type III-A CRISPR effector complex. Structure. 2022.
60. Trinh TKH, Catalano C, Guo Y. Membrane-active Polymers: NCMNP13-x, NCMNP21-x and NCMNP21b-x for Membrane Protein Structural Biology. bioRxiv. 2022.
61. Tsai K, Stojkovic V, Lee DJ, Young ID, Szal T, Klepacki D, Vazquez-Laslop N, Mankin AS, Fraser JS, Fujimori DG. Structural basis for context-specific inhibition of translation by oxazolidinone antibiotics. Nat Struct Mol Biol. 2022;29(2):162-171. PubMed.
62. Vallese F, Kim K, Yen LY, Johnston JD, Noble AJ, Calì T, Clarke OB. Architecture of the human erythrocyte ankyrin-1 complex. bioRxiv. 2022. [preprint].
63. Wang C, Polovitskaya MM, Delgado BD, Jentsch TJ, Long SB. Gating choreography and mechanism of the human proton-activated chloride channel ASOR. Sci Adv. 2022;8(5):eabm3942. PubMed.
64. Wasmuth EV, Broeck AV, LaClair JR, Hoover EA, Lawrence KE, Paknejad N, Pappas K, Matthies D, Wang B, Feng W, Watson PA, Zinder JC, Karthaus WR, de la Cruz MJ, Hite RK, Manova-Todorova K, Yu Z, Weintraub ST, Klinge S, Sawyers CL. Allosteric interactions prime androgen receptor dimerization and activation. bioRxiv. 2022. [preprint].
65. Wilbon AS, Shen J, Ruchala P, Zhou M, Pan Y. Structural basis of ferroportin inhibition by minihepcidin PR73. bioRxiv. 2022.
66. Yelshanskaya MV, Patel DS, Kottke CM, Kurnikova MG, Sobolevsky AI. Opening of glutamate receptor channel to subconductance levels. Nature. 2022;605(7908):172-178. PubMed.
67. Yin Y, Zhang F, Feng S, Butay KJ, Borgnia MJ, Im W, et al. Activation mechanism of the mouse cold-sensing TRPM8 channel by cooling agonist and PIP(2). Science. 2022.
68. Yin Z, Bird JG, Kaelber JT, Nickels BE, Ebright RH. Structural basis of transcription antitermination by Qλ: NusA induces refolding of Qλ to form nozzle for RNA polymerase exit channel. bioRxiv. 2022. [preprint]
69. Yu Y, Li S, Ser Z, Kuang H, Than T, Guan D, Zhao X, Patel Dinshaw J. Cryo-EM structure of DNA-bound Smc5/6 reveals DNA clamping enabled by multi-subunit conformational changes. Proceedings of the National Academy of Sciences. 2022;119(23):e2202799119. PubMed.
70. Zhao H, Lee J, Chen J. The hemolysin A secretion system is a multi-engine pump containing three ABC transporters. Cell. 2022.
71. Zhao Y, Roy K, Vidossich P, Cancedda L, De Vivo M, Forbush B, Cao E. Structural basis for inhibition of the Cation-chloride cotransporter NKCC1 by the diuretic drug bumetanide. Nat Commun. 2022;13(1):2747. PubMed.
72. Zhao Y, Shen J, Wang Q, Ruiz Munevar MJ, Vidossich P, De Vivo M, et al. Structure of the human cation-chloride cotransport KCC1 in an outward-open state. Proc Natl Acad Sci U S A. 2022.
73. Zheng X, Hu Z, Li H, Yang J. Structure of the human cone photoreceptor cyclic nucleotide-gated channel. Nat Struct Mol Biol. 2022;29(1):40-46. PubMed.
74. Zheng X, Li H, Hu Z, Su D, Yang J. Structural and functional characterization of an achromatopsia-associated mutation in a phototransduction channel. Commun Biol. 2022;5(1):190. PubMed.
75. Zhou T, Chen L, Gorman J, Wang S, Kwon YD, Lin BC, Louder MK, Rawi R, Stancofski ED, Yang Y, Zhang B, Quigley AF, McCoy LE, Rutten L, Verrips T, Weiss RA, Program VRCP, Doria-Rose NA, Shapiro L, Kwong PD. Structural basis for llama nanobody recognition and neutralization of HIV-1 at the CD4-binding site. Structure. 2022. PubMed.
76. Zhou W, Yadav GP, Yang X, Qin F, Li C, Jiang QX. Cryo-EM structure-based selection of computed ligand poses enables design of MTA-synergic PRMT5 inhibitors of better potency. Commun Biol. 2022.
77. Zhu J, Huang W, Zhao J, Huynh L, Taylor DJ, Harris ME. Structural and mechanistic basis for recognition of alternative tRNA precursor substrates by bacterial ribonuclease P. Nat Commun. 2022.
78. Zimanyi CM, Kopylov M, Potter CS, Carragher B, Eng ET. Broadening access to cryoEM through centralized facilities. Trends Biochem Sci. 2022;47(2):106-116. PubMed.

2021

1. Accardi A, Falzone M, Feng Z, Alvarenga O, Pang Y, Lee B, Cheng X, Fortea E, Scheuring S. TMEM16 scramblases thin the membrane to enable lipid scrambling. Nature Portfolio. 2021. ResearchSquare. [preprint]
2. Alegre KO, Paknejad N, Su M, Lou JS, Huang J, Jordan KD, Eng ET, Meyerson JR, Hite RK, Huang XY. Structural basis and mechanism of activation of two different families of G proteins by the same GPCR. Nat Struct Mol Biol. 2021;28(11):936-944. PubMed.
3. Alink LM, Eng ET, Gheorghita R, Rice W, Cheng A, Carragher B, Potter CS. System Environmental Metrics Collector for EM facilities. bioRxiv. 2021. [preprint]
4. Benoit M, Asenjo AB, Paydar M, Dhakal S, Kwok BH, Sosa H. Structural basis of mechano-chemical coupling by the mitotic kinesin KIF14. Nat Commun. 2021;12(1):3637. PubMed.
5. Bepler T, Berger B. Learning the protein language: Evolution, structure, and function. Cell Systems. 2021;12(6):654-669.e653. Science Direct.
6. Budell WC, Allegri L, Dandey V, Potter CS, Carragher B. Cryo-Electron Microscopic Grid Preparation for Time-Resolved Studies using a Novel Robotic System, Spotiton. J Vis Exp. 2021(168):e62271. PubMed.
7. Catalano C, Ben-Hail D, Qiu W, Blount P, des Georges A, Guo Y. Cryo-EM Structure of Mechanosensitive Channel YnaI Using SMA2000: Challenges and Opportunities. Membranes. 2021;11(11):849.
8. Cater RJ, Chua GL, Erramilli SK, Keener JE, Choy BC, Tokarz P, Chin CF, Quek DQY, Kloss B, Pepe JG, Parisi G, Wong BH, Clarke OB, Marty MT, Kossiakoff AA, Khelashvili G, Silver DL, Mancia F. Structural basis of omega-3 fatty acid transport across the blood–brain barrier. Nature. 2021. PubMed.
9. Cerutti G, Guo Y, Zhou T, Gorman J, Lee M, Rapp M, Reddem ER, Yu J, Bahna F, Bimela J, Huang Y, Katsamba PS, Liu L, Nair MS, Rawi R, Olia AS, Wang P, Zhang B, Chuang GY, Ho DD, Sheng Z, Kwong PD, Shapiro L. Potent SARS-CoV-2 neutralizing antibodies directed against spike N-terminal domain target a single supersite. Cell Host Microbe. 2021:2021.2001.2010.426120. PubMed.
10. Cerutti G, Rapp M, Guo Y, Bahna F, Bimela J, Reddem ER, Yu J, Wang P, Liu L, Huang Y, Ho DD, Kwong PD, Sheng Z, Shapiro L. Structural basis for accommodation of emerging B.1.351 and B.1.1.7 variants by two potent SARS-CoV-2 neutralizing antibodies. Structure. 2021;29(7):655-663 e654. PubMed.
11. Chen Y, Xu K, Piccoli L, Foglierini M, Tan J, Jin W, Gorman J, Tsybovsky Y, Zhang B, Traore B, Silacci-Fregni C, Daubenberger C, Crompton PD, Geiger R, Sallusto F, Kwong PD, Lanzavecchia A. Structural basis of malaria RIFIN binding by LILRB1-containing antibodies. Nature. 2021;592(7855):639-643. PubMed.
12. Chen K-E, Guo Q, Cui Y, Kendall AK, Hill TA, Hall RJ, Sacharz J, Norwood SJ, Xie B, Leneva N, Yang Z, Ghai R, Stroud DA, Fairlie D, Suga H, Jackson LP, Teasdale RD, Passioura T, Collins BM. De novo macrocyclic peptides for inhibiting, stabilising and probing the function of the Retromer endosomal trafficking complex. bioRxiv. 2021. [preprint].
13. Cheng A, Negro C, Bruhn JF, Rice WJ, Dallakyan S, Eng ET, Waterman DG, Potter CS, Carragher B. Leginon: New features and applications. Protein Sci. 2021;30(1):136-150. PubMed.
14. Chuang G-Y, Shen C-H, Cheung CS-F, Gorman J, Creanga A, Joyce MG, Leung K, Rawi R, Wang L, Yang ES, Yang Y, Zhang B, Zhang Y, Kanekiyo M, Zhou T, DeKosky BJ, Graham BS, Mascola JR, Kwong PD. Sequence-Signature Optimization Enables Improved Identification of Human HV6-1-Derived Class Antibodies That Neutralize Diverse Influenza A Viruses. Frontiers in Immunology. 2021;12(1725). PubMed.
15. Feldman J, Bals J, Altomare CG, St Denis K, Lam EC, Hauser BM, Ronsard L, Sangesland M, Bracamonte Moreno T, Okonkwo V, Hartojo N, Balazs AB, Bajic G, Lingwood D, Schmidt AG. Naive human B cells engage the receptor binding domain of SARS-CoV-2, variants of concern, and related sarbecoviruses. Sci Immunol. 2021:eabl5842. PubMed.
16. Gobeil SM, Janowska K, McDowell S, Mansouri K, Parks R, Manne K, Stalls V, Kopp MF, Henderson R, Edwards RJ, Haynes BF, Acharya P. D614G Mutation Alters SARS-CoV-2 Spike Conformation and Enhances Protease Cleavage at the S1/S2 Junction. Cell reports. 2021;34(2):108630. PubMed.
17. Gobeil SM, Janowska K, McDowell S, Mansouri K, Parks R, Stalls V, Kopp MF, Manne K, Saunders K, Edwards RJ, Haynes BF, Henderson RC, Acharya P. Effect of natural mutations of SARS-CoV-2 on spike structure, conformation and antigenicity. bioRxiv. 2021:2021.2003.2011.435037. [preprint]. PubMed.
18. Grau D, Zhang Y, Lee CH, Valencia-Sanchez M, Zhang J, Wang M, Holder M, Svetlov V, Tan D, Nudler E, Reinberg D, Walz T, Armache KJ. Structures of monomeric and dimeric PRC2:EZH1 reveal flexible modules involved in chromatin compaction. Nat Commun. 2021;12(1):714. PubMed.
19. Grossman-Haham I, Coudray N, Yu Z, Wang F, Zhang N, Bhabha G, Vale RD. Structure of the radial spoke head and insights into its role in mechanoregulation of ciliary beating. Nat Struct Mol Biol. 2021;28(1):20-28. PubMed.
20. He Y, Wang Y, Liu B, Helmling C, Sušac L, Cheng R, Zhou ZH, Feigon J. Structures of telomerase at several steps of telomere repeat synthesis. Nature. 2021;593(7859):454-459. PubMed.
21. Herrera NG, Morano NC, Celikgil A, Georgiev GI, Malonis RJ, Lee JH, Tong K, Vergnolle O, Massimi AB, Yen LY, Noble AJ, Kopylov M, Bonanno JB, Garrett-Thomson SC, Hayes DB, Bortz RH, 3rd, Wirchnianski AS, Florez C, Laudermilch E, Haslwanter D, Fels JM, Dieterle ME, Jangra RK, Barnhill J, Mengotto A, Kimmel D, Daily JP, Pirofski LA, Chandran K, Brenowitz M, Garforth SJ, Eng ET, Lai JR, Almo SC. Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis. ACS Omega. 2021;6(1):85-102. PubMed.
22. Hsia Y, Mout R, Sheffler W, Edman NI, Vulovic I, Park YJ, Redler RL, Bick MJ, Bera AK, Courbet A, Kang A, Brunette TJ, Nattermann U, Tsai E, Saleem A, Chow CM, Ekiert D, Bhabha G, Veesler D, Baker D. Design of multi-scale protein complexes by hierarchical building block fusion. Nat Commun. 2021;12(1):2294. PubMed.
23. Jiang Y, Benz TL, Long SB. Substrate and product complexes reveal mechanisms of Hedgehog acylation by HHAT. Science. 2021;372(6547):1215-1219. PubMed.
24. Khanra N, Brown PM, Perozzo AM, Bowie D, Meyerson JR. Architecture and structural dynamics of the heteromeric GluK2/K5 kainate receptor. Elife. 2021;10. PubMed.
25. Kim K, Kopylov M, Bobe D, Kelley K, Eng ET, Arvan P, Clarke OB. The structure of natively iodinated bovine thyroglobulin. Acta Crystallogr D Struct Biol. 2021;77 (Pt 11):1451-1459. PubMed.
26. Kim PT, Noble AJ, Cheng A, Bepler T. Learning to automate cryo-electron microscopy data collection with Ptolemy. arXiv preprint arXiv:211201534. 2021.
27. Klykov O, Gangwar SP, Yelshanskaya MV, Yen L, Sobolevsky AI. Structure and desensitization of AMPA receptor complexes with type II TARP gamma5 and GSG1L. Mol Cell. 2021. PubMed.
28. Koripella RK, Deep A, Agrawal EK, Keshavan P, Banavali NK, Agrawal RK. Distinct mechanisms of the human mitoribosome recycling and antibiotic resistance. Nat Commun. 2021;12(1):3607. PubMed.
29. Kumar P, Cymes GD, Grosman C. Structure and function at the lipid-protein interface of a pentameric ligand-gated ion channel. Proc Natl Acad Sci U S A. 2021;118(23):e2100164118. PubMed.
30. Kwon YD, Asokan M, Gorman J, Zhang B, Liu Q, Louder MK, Lin BC, McKee K, Pegu A, Verardi R, Yang ES, Program VP, Carlton K, Doria-Rose NA, Lusso P, Mascola JR, Kwong PD. A matrix of structure-based designs yields improved VRC01-class antibodies for HIV-1 therapy and prevention. MAbs. 2021;13(1):1946918. PubMed.
31. Lee IH, Procko C, Lu Y, Shaham S. Stress-Induced Neural Plasticity Mediated by Glial GPCR REMO-1 Promotes C. elegans Adaptive Behavior. Cell reports. 2021;34(2):108607. PubMed.
32. Lee M, Changela A, Gorman J, Rawi R, Bylund T, Chao CW, Lin BC, Louder MK, Olia AS, Zhang B, Doria-Rose NA, Zolla-Pazner S, Shapiro L, Chuang GY, Kwong PD. Extended antibody-framework-to-antigen distance observed exclusively with broad HIV-1-neutralizing antibodies recognizing glycan-dense surfaces. Nat Commun. 2021;12(1):6470. PubMed.
33. Li D, Edwards RJ, Manne K, Martinez DR, Schafer A, Alam SM, Wiehe K, Lu X, Parks R, Sutherland LL, Oguin TH, 3rd, McDanal C, Perez LG, Mansouri K, Gobeil SMC, Janowska K, Stalls V, Kopp M, Cai F, Lee E, Foulger A, Hernandez GE, Sanzone A, Tilahun K, Jiang C, Tse LV, Bock KW, Minai M, Nagata BM, Cronin K, Gee-Lai V, Deyton M, Barr M, Von Holle T, Macintyre AN, Stover E, Feldman J, Hauser BM, Caradonna TM, Scobey TD, Rountree W, Wang Y, Moody MA, Cain DW, DeMarco CT, Denny TN, Woods CW, Petzold EW, Schmidt AG, Teng IT, Zhou T, Kwong PD, Mascola JR, Graham BS, Moore IN, Seder R, Andersen H, Lewis MG, Montefiori DC, Sempowski GD, Baric RS, Acharya P, Haynes BF, Saunders KO. In vitro and in vivo functions of SARS-CoV-2 infection-enhancing and neutralizing antibodies. Cell. 2021. PubMed.
34. Lilic M, Darst SA, Campbell EA. Structural basis of transcriptional activation by the Mycobacterium tuberculosis intrinsic antibiotic-resistance transcription factor WhiB7. Mol Cell. 2021;81(14):2875-2886 e2875. PubMed.
35. Liou SH, Singh SK, Singer RH, Coleman RA, Liu WL. Structure of the p53/RNA polymerase II assembly. Commun Biol. 2021;4(1):397. PubMed.
36. Malone B, Chen J, Wang Q, Llewellyn E, Choi YJ, Olinares PDB, Cao X, Hernandez C, Eng ET, Chait BT, Shaw DE, Landick R, Darst SA, Campbell EA. Structural basis for backtracking by the SARS-CoV-2 replication-transcription complex. Proc Natl Acad Sci U S A. 2021;118(19). PubMed.
37. Mei L, Reynolds MJ, Garbett D, Gong R, Meyer T, Alushin GM. Structural mechanism for bi-directional actin crosslinking by T-plastin. bioRxiv. 2021. [preprint]
38. Moghadamchargari Z, Shirzadeh M, Liu C, Schrecke S, Packianathan C, Russell DH, Zhao M, Laganowsky A. Molecular assemblies of the catalytic domain of SOS with KRas and oncogenic mutants. Proc Natl Acad Sci U S A. 2021;118(12). PubMed.
39. Nadezhdin KD, Neuberger A, Nikolaev YA, Murphy LA, Gracheva EO, Bagriantsev SN, Sobolevsky AI. Extracellular cap domain is an essential component of the TRPV1 gating mechanism. Nat Commun. 2021;12(1):2154. PubMed.
40. Nadezhdin KD, Neuberger A, Trofimov YA, Krylov NA, Sinica V, Kupko N, Vlachova V, Zakharian E, Efremov RG, Sobolevsky AI. Structural mechanism of heat-induced opening of a temperature-sensitive TRP channel. Nat Struct Mol Biol. 2021;28(7):564-572. PubMed.
41. Olinares PDB, Kang JY, Llewellyn E, Chiu C, Chen J, Malone B, Saecker RM, Campbell EA, Darst SA, Chait BT. Native Mass Spectrometry-Based Screening for Optimal Sample Preparation in Single-Particle Cryo-EM. Structure. 2021;29(2):186-195 e186. PubMed.
42. Park J, Zuo H, Frangaj A, Fu Z, Yen LY, Zhang Z, Mosyak L, Slavkovich VN, Liu J, Ray KM, Cao B, Vallese F, Geng Y, Chen S, Grassucci R, Dandey VP, Tan YZ, Eng E, Lee Y, Kloss B, Liu Z, Hendrickson WA, Potter CS, Carragher B, Graziano J, Conigrave AD, Frank J, Clarke OB, Fan QR. Symmetric activation and modulation of the human calcium-sensing receptor. Proceedings of the National Academy of Sciences. 2021;118(51):e2115849118. PubMed.
43. Rangarajan ES, Izard T. The Cryogenic Electron Microscopy Structure of the Cell Adhesion Regulator Metavinculin Reveals an Isoform-Specific Kinked Helix in Its Cytoskeleton Binding Domain. Int J Mol Sci. 2021;22(2). PubMed.
44. Rapp M, Guo Y, Reddem ER, Yu J, Liu L, Wang P, Cerutti G, Katsamba P, Bimela JS, Bahna FA, Mannepalli SM, Zhang B, Kwong PD, Huang Y, Ho DD, Shapiro L, Sheng Z. Modular basis for potent SARS-CoV-2 neutralization by a prevalent VH1-2-derived antibody class. Cell reports. 2021;35(1):108950. PubMed.
45. Reddy KD, Ciftci D, Scopelliti A, Boudker O. Heterogeneous substrate binding in a glutamate transporter homologue. bioRxiv. 2021:2021.2007.2008.451670.
46. Roark RS, Li H, Williams WB, Chug H, Mason RD, Gorman J, Wang S, Lee FH, Rando J, Bonsignori M, Hwang KK, Saunders KO, Wiehe K, Moody MA, Hraber PT, Wagh K, Giorgi EE, Russell RM, Bibollet-Ruche F, Liu W, Connell J, Smith AG, DeVoto J, Murphy AI, Smith J, Ding W, Zhao C, Chohan N, Okumura M, Rosario C, Ding Y, Lindemuth E, Bauer AM, Bar KJ, Ambrozak D, Chao CW, Chuang GY, Geng H, Lin BC, Louder MK, Nguyen R, Zhang B, Lewis MG, Raymond DD, Doria-Rose NA, Schramm CA, Douek DC, Roederer M, Kepler TB, Kelsoe G, Mascola JR, Kwong PD, Korber BT, Harrison SC, Haynes BF, Hahn BH, Shaw GM. Recapitulation of HIV-1 Env-antibody coevolution in macaques leading to neutralization breadth. Science. 2021;371(6525):2020.2008.2005.237693. PubMed.
47. Ruijgrok PV, Ghosh RP, Zemsky S, Nakamura M, Gong R, Ning L, Chen R, Vachharajani VT, Chu AE, Anand N, Eguchi RR, Huang PS, Lin MZ, Alushin GM, Liphardt JT, Bryant Z. Optical control of fast and processive engineered myosins in vitro and in living cells. Nat Chem Biol. 2021. PubMed.
48. Saecker RM, Chen J, Chiu CE, Malone B, Sotiris J, Ebrahim M, Yen LY, Eng ET, Darst SA. Structural origins of Escherichia coli RNA polymerase open promoter complex stability. bioRxiv. 2021. [preprint].
49. Saponaro A, Bauer D, Giese MH, Swuec P, Porro A, Gasparri F, Sharifzadeh AS, Chaves-Sanjuan A, Alberio L, Parisi G, Cerutti G, Clarke OB, Hamacher K, Colecraft HM, Mancia F, Hendrickson WA, Siegelbaum SA, DiFrancesco D, Bolognesi M, Thiel G, Santoro B, Moroni A. Gating movements and ion permeation in HCN4 pacemaker channels. Mol Cell. 2021;81(14):2929-2943 e2926. PubMed.
50. Sauer DB, Song J, Wang B, Hilton JK, Karpowich NK, Mindell JA, Rice WJ, Wang DN. Structure and inhibition mechanism of the human citrate transporter NaCT. Nature. 2021. PubMed.
51. Sauer DB, Wang B, Sudar JC, Song J, Marden J, Rice WJ, Wang DN. The ups and downs of elevator-type di-/tricarboxylate membrane transporters. FEBS J. 2021. PubMed.
52. Schmitz AJ, Turner JS, Liu Z, Zhou JQ, Aziati ID, Chen RE, Joshi A, Bricker TL, Darling TL, Adelsberg DC, Altomare CG, Alsoussi WB, Case JB, VanBlargan LA, Lei T, Thapa M, Amanat F, Jeevan T, Fabrizio T, O’Halloran JA, Shi PY, Presti RM, Webby RJ, Krammer F, Whelan SPJ, Bajic G, Diamond MS, Boon ACM, Ellebedy AH. A vaccine-induced public antibody protects against SARS-CoV-2 and emerging variants. Immunity. 2021;54(9):2159-2166 e2156. PubMed.
53. Selvakumar P, Lee J, Khanra N, He C, Munguba H, Kiese L, Broichhagen J, Reiner A, Levitz J, Meyerson JR. Structural and compositional diversity in the kainate receptor family. Cell reports. 2021;37(4):109891. PubMed.
54. Sharif H, Hollingsworth LR, Griswold AR, Hsiao JC, Wang Q, Bachovchin DA, Wu H. Dipeptidyl peptidase 9 sets a threshold for CARD8 inflammasome formation by sequestering its active C-terminal fragment. Immunity. 2021. PubMed.
55. Stewart-Jones GBE, Gorman J, Ou L, Zhang B, Joyce MG, Yang L, Cheng C, Chuang GY, Foulds KE, Kong WP, Olia AS, Sastry M, Shen CH, Todd JP, Tsybovsky Y, Verardi R, Yang Y, Collins PL, Corti D, Lanzavecchia A, Scorpio DG, Mascola JR, Buchholz UJ, Kwong PD. Interprotomer disulfide-stabilized variants of the human metapneumovirus fusion glycoprotein induce high titer-neutralizing responses. Proc Natl Acad Sci U S A. 2021;118(39). PubMed.
56. Sun D, Sang Z, Kim YJ, Xiang Y, Cohen T, Belford AK, Huet A, Conway JF, Sun J, Taylor DJ, Schneidman-Duhovny D, Zhang C, Huang W, Shi Y. Potent neutralizing nanobodies resist convergent circulating variants of SARS-CoV-2 by targeting novel and conserved epitopes. bioRxiv. 2021:2021.2003.2009.434592. [preprint]. PubMed.
57. Sweet ME, Larsen C, Zhang X, Schlame M, Pedersen BP, Stokes DL. Structural basis for potassium transport in prokaryotes by KdpFABC. Proc Natl Acad Sci U S A. 2021;118(29). PubMed.
58. Tan ZY, Cai S, Noble AJ, Chen JK, Shi J, Gan L. Heterogeneous non-canonical nucleosomes predominate in yeast cells in situ. bioRxiv. 2021:2021.2004.2004.438362. [preprint].
59. Tarasova E, Dhindwal S, Popp M, Hussain S, Khayat R. Mechanism of DNA Interaction and Translocation by the Replicase of a Circular Rep-Encoding Single-Stranded DNA Virus. mBio. 2021:e0076321. PubMed.
60. Tarasova E, Okimoto N, Feng S, Nerukh D, Khayat R, Taiji M. Constant Ph Molecular Dynamics of Porcine Circovirus 2 Capsid Protein Reveals a Mechanism for Capsid Assembly. Physical Chemistry Chemical Physics. 2021.
61. Valencia-Sanchez MI, Abini-Agbomson S, Wang M, Lee R, Vasilyev N, Zhang J, De Ioannes P, La Scola B, Talbert P, Henikoff S, Nudler E, Erives A, Armache KJ. The structure of a virus-encoded nucleosome. Nat Struct Mol Biol. 2021. PubMed.
62. van Eeuwen T, Shim Y, Kim HJ, Zhao T, Basu S, Garcia BA, Kaplan CD, Min JH, Murakami K. Cryo-EM structure of TFIIH/Rad4-Rad23-Rad33 in damaged DNA opening in nucleotide excision repair. Nat Commun. 2021;12(1):3338. PubMed.
63. Wang JC, Chen L. Structural basis for the structural dynamics of human mitochondrial chaperonin mHsp60. Sci Rep. 2021;11(1):14809. PubMed.
64. Wang S, Wang R, Peralta C, Yaseen A, Pavletich NP. Structure of the FA core ubiquitin ligase closing the ID clamp on DNA. Nat Struct Mol Biol. 2021;28(3):300-309. PubMed.
65. Williams WB, Meyerhoff RR, Edwards RJ, Li H, Manne K, Nicely NI, Henderson R, Zhou Y, Janowska K, Mansouri K, Gobeil S, Evangelous T, Hora B, Berry M, Abuahmad AY, Sprenz J, Deyton M, Stalls V, Kopp M, Hsu AL, Borgnia MJ, Stewart-Jones GBE, Lee MS, Bronkema N, Moody MA, Wiehe K, Bradley T, Alam SM, Parks RJ, Foulger A, Oguin T, Sempowski GD, Bonsignori M, LaBranche CC, Montefiori DC, Seaman M, Santra S, Perfect J, Francica JR, Lynn GM, Aussedat B, Walkowicz WE, Laga R, Kelsoe G, Saunders KO, Fera D, Kwong PD, Seder RA, Bartesaghi A, Shaw GM, Acharya P, Haynes BF. Fab-dimerized glycan-reactive antibodies are a structural category of natural antibodies. Cell. 2021;184(11):2955-2972 e2925. PubMed.
66. Xiang X, Arakhamia T, Carlomagno Y, Dhingra S, Thierry M, DeTure M, Cook CN, Dickson DW, Petrucelli L, Fitzpatrick AWP. Role of molecular polymorphism in defining tau filament structures in neurodegenerative diseases. bioRxiv. 2021. [preprint].
67. Yang D, Gouaux E. Illumination of serotonin transporter mechanism and role of the allosteric site. Sci Adv. 2021;7(49):eabl3857. PubMed.
68. Yu Y, Li S, Ser Z, Sanyal T, Choi K, Wan B, Kuang H, Sali A, Kentsis A, Patel DJ, Zhao X. Integrative analysis reveals unique structural and functional features of the Smc5/6 complex. Proc Natl Acad Sci U S A. 2021;118(19). PubMed.

2020

1. Acharya P, Williams W, Henderson R, Janowska K, Manne K, Parks R, Deyton M, Sprenz J, Stalls V, Kopp M, Mansouri K, Edwards RJ, Meyerhoff RR, Oguin T, Sempowski G, Saunders K, Haynes BF. A glycan cluster on the SARS-CoV-2 spike ectodomain is recognized by Fab-dimerized glycan-reactive antibodies. bioRxiv. 2020. [preprint]
2. Arakhamia T, Lee CE, Carlomagno Y, Duong DM, Kundinger SR, Wang K, Williams D, DeTure M, Dickson DW, Cook CN, Seyfried NT, Petrucelli L, Fitzpatrick AWP. Posttranslational Modifications Mediate the Structural Diversity of Tauopathy Strains. Cell. 2020. PubMed.
3. Belote RL, Simon SM. Ca2+ transients in melanocyte dendrites and dendritic spine-like structures evoked by cell-to-cell signaling. J Cell Biol. 2020;219(1). PubMed.
4. Bepler T, Kelley K, Noble AJ, Berger B. Topaz-Denoise: general deep Pudenoising models for cryoEM and cryoET. Nat Commun. 2020;11(1):5208. PubMed.
5. Bhardwaj R, Lindinger S, Neuberger A, Nadezhdin KD, Singh AK, Cunha MR, Derler I, Gyimesi G, Reymond JL, Hediger MA, Romanin C, Sobolevsky AI. Inactivation-mimicking block of the epithelial calcium channel TRPV6. Sci Adv. 2020;6(48). PubMed.
6. Carter SD, Hampton CM, Langlois R, Melero R, Farino ZJ, Calderon MJ, Li W, Wallace CT, Tran NH, Grassucci RA, Siegmund SE, Pemberton J, Morgenstern TJ, Eisenman L, Aguilar JI, Greenberg NL, Levy ES, Yi E, Mitchell WG, Rice WJ, Wigge C, Pilli J, George EW, Aslanoglou D, Courel M, Freyberg RJ, Javitch JA, Wills ZP, Area-Gomez E, Shiva S, Bartolini F, Volchuk A, Murray SA, Aridor M, Fish KN, Walter P, Balla T, Fass D, Wolf SG, Watkins SC, Carazo JM, Jensen GJ, Frank J, Freyberg Z. Ribosome-associated vesicles: A dynamic subcompartment of the endoplasmic reticulum in secretory cells. Sci Adv. 2020;6(14):eaay9572. PubMed.
7. Chen J, Malone B, Llewellyn E, Grasso M, Shelton PMM, Olinares PDB, Maruthi K, Eng ET, Vatandaslar H, Chait BT, Kapoor TM, Darst SA, Campbell EA. Structural Basis for Helicase-Polymerase Coupling in the SARS-CoV-2 Replication-Transcription Complex. Cell. 2020;182(6):1560-1573 e1513. PubMed.
8. Coudray N, Isom GL, MacRae MR, Saiduddin MN, Bhabha G, Ekiert DC. Structure of bacterial phospholipid transporter MlaFEDB with substrate bound. Elife. 2020;9. PubMed.
9. Dandey VP, Budell WC, Wei H, Bobe D, Maruthi K, Kopylov M, Eng ET, Kahn PA, Hinshaw JE, Kundu N, Nimigean CM, Fan C, Sukomon N, Darst SA, Saecker RM, Chen J, Malone B, Potter CS, Carragher B. Time-resolved cryo-EM using Spotiton. Nature Methods. 2020. PubMed.
10. Durie CL, Sheedlo MJ, Chung JM, Byrne BG, Su M, Knight T, Swanson M, Lacy DB, Ohi MD. Structural analysis of the Legionella pneumophila Dot/Icm type IV secretion system core complex. Elife. 2020;9. PubMed.
11. Fan C, Sukomon N, Flood E, Rheinberger J, Allen TW, Nimigean CM. Ball-and-chain inactivation in a calcium-gated potassium channel. Nature. 2020. [Epub ahead of print]. Nature.
12. Feaga HA, Kopylov M, Kim JK, Jovanovic M, Dworkin J. Ribosome dimerization protects the small subunit. J Bacteriol. 2020. JBAC.
13. Ferranti C, Cheng J, Thompson C, Zhang J, Rotolo J, Buddaseth S, Fuks Z, Kolesnick R. Fusion of lysosomes to plasma membrane initiates radiation-induced apoptosis. Journal of Cell Biology. 2020;219(4):e201903177. (In Process) JCB.
14. Fritzsching KJ, Yang Y, Pogue EM, Rayman JB, Kandel ER, McDermott AE. Micellar TIA1 with folded RNA binding domains as a model for reversible stress granule formation. Proc Natl Acad Sci U S A. 2020;117(50):31832-31837. PubMed.
15. Gomez-Llorente Y, Jebara F, Patra M, Malik R, Nisemblat S, Chomsky-Hecht O, Parnas A, Azem A, Hirsch JA, Ubarretxena-Belandia I. Structural basis for active single and double ring complexes in human mitochondrial Hsp60-Hsp10 chaperonin. Nat Commun. 2020;11(1):1916. PubMed.
16. Gorman J, Chuang GY, Lai YT, Shen CH, Boyington JC, Druz A, Geng H, Louder MK, McKee K, Rawi R, Verardi R, Yang Y, Zhang B, Doria-Rose NA, Lin B, Moore PL, Morris L, Shapiro L, Mascola JR, Kwong PD. Structure of Super-Potent Antibody CAP256-VRC26.25 in Complex with HIV-1 Envelope Reveals a Combined Mode of Trimer-Apex Recognition. Cell reports. 2020;31(1):107488. PubMed.
17. Halpin-Healy TS, Klompe SE, Sternberg SH, Fernández IS. Structural basis of DNA targeting by a transposon-encoded CRISPR–Cas system. Nature. 2020;577(7789):271-274. PubMed.
18. Harrison OJ, Brasch J, Katsamba PS, Ahlsen G, Noble AJ, Dan H, Sampogna RV, Potter CS, Carragher B, Honig B, Shapiro L. Family-wide Structural and Biophysical Analysis of Binding Interactions among Non-clustered delta-Protocadherins. Cell reports. 2020;30(8):2655-2671 e2657. PubMed.
19. Hashimoto H, Kafkova L, Raczkowski A, Jordan KD, Read LK, Debler EW. Structural Basis of Protein Arginine Methyltransferase Activation by a Catalytically Dead Homolog (Prozyme). J Mol Biol. 2019;432(2):410-426. PubMed.
20. Henderson R, Edwards RJ, Mansouri K, Janowska K, Stalls V, Gobeil SMC, Kopp M, Li D, Parks R, Hsu AL, Borgnia MJ, Haynes BF, Acharya P. Controlling the SARS-CoV-2 spike glycoprotein conformation. Nat Struct Mol Biol. 2020. PubMed.
21. Kendall AK, Xie B, Xu P, Wang J, Burcham R, Frazier MN, Binshtein E, Wei H, Graham TR, Nakagawa T, Jackson LP. Mammalian Retromer Is an Adaptable Scaffold for Cargo Sorting from Endosomes. Structure. 2020;28(4):393-405 e394. PubMed.
22. Koripella RK, Sharma MR, Bhargava K, Datta PP, Kaushal PS, Keshavan P, Spremulli LL, Banavali NK, Agrawal RK. Structures of the human mitochondrial ribosome bound to EF-G1 reveal distinct features of mitochondrial translation elongation. Nat Commun. 2020;11(1):3830. PubMed.
23. Koripella RK, Deep A, Agrawal EK, Keshavan P, Banavali NK, Agrawal RK. Structures of the human mitochondrial ribosome recycling complexes reveal distinct mechanisms of recycling and antibiotic resistance. bioRxiv. 2020. [Preprint]
24. Kumar P, Wang Y, Zhang Z, Zhao Z, Cymes GD, Tajkhorshid E, Grosman C. Cryo-EM structures of a lipid-sensitive pentameric ligand-gated ion channel embedded in a phosphatidylcholine-only bilayer. Proceedings of the National Academy of Sciences. 2020:201906823. PNAS.
25. Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB. Synthetic group A streptogramin antibiotics that overcome Vat resistance. Nature. 2020;586(7827):145-150. PubMed.
26. Lilic M, Chen J, Boyaci H, Braffman N, Hubin EA, Herrmann J, Muller R, Mooney R, Landick R, Darst SA, Campbell EA. The antibiotic sorangicin A inhibits promoter DNA unwinding in a Mycobacterium tuberculosis rifampicin-resistant RNA polymerase. Proc Natl Acad Sci U S A. 2020;117(48):30423-30432. PubMed.
27. Liu L, Wang P, Nair MS, Yu J, Rapp M, Wang Q, Luo Y, Chan JF, Sahi V, Figueroa A, Guo XV, Cerutti G, Bimela J, Gorman J, Zhou T, Chen Z, Yuen KY, Kwong PD, Sodroski JG, Yin MT, Sheng Z, Huang Y, Shapiro L, Ho DD. Potent neutralizing antibodies against multiple epitopes on SARS-CoV-2 spike. Nature. 2020;584(7821):450-456. PubMed.
28. Malik R, Kopylov M, Gomez-Llorente Y, Jain R, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK. Structure and mechanism of B-family DNA polymerase zeta specialized for translesion DNA synthesis. Nat Struct Mol Biol. 2020;27(10):913-924. Nature.
29. Marcink TC, Wang T, des Georges A, Porotto M, Moscona A. Human parainfluenza virus fusion complex glycoproteins imaged in action on authentic viral surfaces. PLoS Pathog. 2020;16(9):e1008883. PubMed.
30. Maruthi K, Kopylov M, Carragher B. Automating Decision Making in the Cryo-EM Pre-processing Pipeline. Structure. 2020;28(7):727-729. PubMed.
31. Murphy EL, Singh KV, Avila B, Kleffmann T, Gregory ST, Murray BE, Krause KL, Khayat R, Jogl G. Cryo-electron microscopy structure of the 70S ribosome from Enterococcus faecalis. Scientific Reports. 2020;10(1):16301. PubMed.
32. Neupane R, Pisareva VP, Rodriguez CF, Pisarev AV, Fernández IS. A complex IRES at the 5′-UTR of a viral mRNA assembles a functional 48S complex via an uAUG intermediate. eLife. 2020;9:e54575. PubMed.
33. Owji AP, Zhao Q, Ji C, Kittredge A, Hopiavuori A, Fu Z, Ward N, Clarke OB, Shen Y, Zhang Y, Hendrickson WA, Yang T. Structural and functional characterization of the bestrophin-2 anion channel. Nat Struct Mol Biol. 2020;27(4):382-391. PubMed.
34. Park J, Fu Z, Frangaj A, Liu J, Mosyak L, Shen T, Slavkovich VN, Ray KM, Taura J, Cao B, Geng Y, Zuo H, Kou Y, Grassucci R, Chen S, Liu Z, Lin X, Williams JP, Rice WJ, Eng ET, Huang RK, Soni RK, Kloss B, Yu Z, Javitch JA, Hendrickson WA, Slesinger PA, Quick M, Graziano J, Yu H, Fiehn O, Clarke OB, Frank J, Fan QR. Structure of human GABAB receptor in an inactive state. Nature. 2020;584(7820):304-309. PubMed.
35. Passos DO, Li M, Jóźwik IK, Zhao XZ, Santos-Martins D, Yang R, Smith SJ, Jeon Y, Forli S, Hughes SH, Burke TR, Craigie R, Lyumkis D. Structural basis for strand transfer inhibitor binding to HIV intasomes. Science. 2020:eaay8015. PubMed.
36. Rapp M, Carragher B. Better, faster, and even cheap. Science. 2020;370(6513):171. PubMed.
37. Schmidpeter PAM, Rheinberger J, Nimigean CM. Prolyl isomerization controls activation kinetics of a cyclic nucleotide-gated ion channel. Nat Commun. 2020;11(1):6401. PubMed.
38. Schrecker M, Korobenko J, Hite RK. Cryo-EM structure of the lysosomal chloride-proton exchanger CLC-7 in complex with OSTM1. Elife. 2020;9. PubMed.
39. Sheedlo MJ, Chung JM, Sawhney N, Durie CL, Cover TL, Ohi MD, Lacy DB. Cryo-EM reveals species-specific components within the Helicobacter pylori Cag type IV secretion system core complex. eLife. 2020;9:e59495. PubMed.
40. Su M, Zhu L, Zhang Y, Paknejad N, Dey R, Huang J, Lee MY, Williams D, Jordan KD, Eng ET, Ernst OP, Meyerson JR, Hite RK, Walz T, Liu W, Huang XY. Structural Basis of the Activation of Heterotrimeric Gs-Protein by Isoproterenol-Bound beta1-Adrenergic Receptor. Mol Cell. 2020;80(1):59-71 e54. PubMed.
41. Sun Y, Zhang Y, Aik WS, Yang X-C, Marzluff WF, Walz T, Dominski Z, Tong L. Structure of an active human histone pre-mRNA 3′-end processing machinery. Science. 2020;367(6478):700. PubMed.
42. Takvorian PM, Han B, Cali A, Rice WJ, Gunther L, Macaluso F, Weiss LM. An Ultrastructural Study of the Extruded Polar Tube of Anncaliia algerae (Microsporidia). J Eukaryot Microbiol. 2019;67(1):28-44. PubMed.
43. Tan YZ, Carragher B. Seeing Atoms: Single-Particle Cryo-EM Breaks the Atomic Barrier. Mol Cell. 2020;80(6):938-939. PubMed.
44. Tan YZ, Rodrigues J, Keener JE, Zheng RB, Brunton R, Kloss B, Giacometti SI, Rosario AL, Zhang L, Niederweis M, Clarke OB, Lowary TL, Marty MT, Archer M, Potter CS, Carragher B, Mancia F. Cryo-EM structure of arabinosyltransferase EmbB from Mycobacterium smegmatis. Nat Commun. 2020;11(1):3396. PubMed.
45. Tan YZ, Zhang L, Rodrigues J, Zheng RB, Giacometti SI, Rosario AL, Kloss B, Dandey VP, Wei H, Brunton R, Raczkowski AM, Athayde D, Catalao MJ, Pimentel M, Clarke OB, Lowary TL, Archer M, Niederweis M, Potter CS, Carragher B, Mancia F. Cryo-EM Structures and Regulation of Arabinofuranosyltransferase AftD from Mycobacteria. Mol Cell. 2020;78(4):683-699 e611. PubMed.
46. Verardi R, Lindesmith LC, Tsybovsky Y, Gorman J, Chuang GY, Edwards CE, Brewer-Jensen PD, Mallory ML, Ou L, Schon A, Shi W, Tully ES, Georgiou G, Baric RS, Kwong PD. Disulfide stabilization of human norovirus GI.1 virus-like particles focuses immune response toward blockade epitopes. NPJ Vaccines. 2020;5(1):110. PubMed.
47. Vien TN, Wang J, Ng LCT, Cao E, DeCaen PG. Molecular dysregulation of ciliary polycystin-2 channels caused by variants in the TOP domain. Proc Natl Acad Sci U S A. 2020;117(19):10329-10338. PubMed.
48. Wang C, Molodtsov V, Firlar E, Kaelber JT, Blaha G, Su M, Ebright RH. Structural basis of transcription-translation coupling. Science. 2020;369(6509):1359-1365. PubMed.
49. Wang J, Anastasia A, Bains H, Giza JI, Clossey DG, Deng J, Neubert TA, Rice WJ, Lee FS, Hempstead BL, Bracken C. Zinc induced structural changes in the intrinsically disordered BDNF Met prodomain confer synaptic elimination. Metallomics. 2020;12(8):1208-1219. PubMed.
50. Wang X, Boudker O. Large domain movements through the lipid bilayer mediate substrate release and inhibition of glutamate transporters. Elife. 2020;9:e58417. PubMed.
51. Wei H, Kurti D, Budell WC, Dandey VP, Potter CS, Carragher B. Optimizing Self-wicking Grids for Chameleon. Microscopy and Microanalysis. 2020;26(S2):334-335.
52. Wonder E, Ewert KK, Liu C, Steffes VM, Kwak J, Qahar V, Majzoub R, Zhang Z, Carragher B, Potter CS, Li Y, Qiao W, Safinya CR. Assembly of Building Blocks by Double-End-Anchored Polymers in the Dilute Regime Mediated by Hydrophobic Interactions at Controlled Distances. ACS Applied Materials & Interfaces. 2020. PubMed.
53. Xu X, Godoy-Ruiz R, Adipietro KA, Peralta C, Ben-Hail D, Varney KM, Cook ME, Roth BM, Wilder PT, Cleveland T, Grishaev A, Neu HM, Michel SLJ, Yu W, Beckett D, Rustandi RR, Lancaster C, Loughney JW, Kristopeit A, Christanti S, Olson JW, MacKerell AD, Georges AD, Pozharski E, Weber DJ. Structure of the cell-binding component of the Clostridium difficile binary toxin reveals a di-heptamer macromolecular assembly. Proc Natl Acad Sci U S A. 2020;117(2):1049-1058. PubMed.
54. Yang H, Zhou C, Dhar A, Pavletich NP. Mechanism of strand exchange from RecA-DNA synaptic and D-loop structures. Nature. 2020;586(7831):801-806. PubMed.
55. Yoder N, Gouaux E. The His-Gly motif of acid-sensing ion channels resides in a reentrant ‘loop’ implicated in gating and ion selectivity. Elife. 2020;9:e56527. PubMed.
56. Zhang Y, Sun Y, Shi Y, Walz T, Tong L. Structural Insights into the Human Pre-mRNA 3′-End Processing Machinery. Mol Cell. 2020;77(4):800-809 e806. Molecular Cell.
57. Zheng X, Fu Z, Su D, Zhang Y, Li M, Pan Y, Li H, Li S, Grassucci RA, Ren Z, Hu Z, Li X, Zhou M, Li G, Frank J, Yang J. Mechanism of ligand activation of a eukaryotic cyclic nucleotide-gated channel. Nat Struct Mol Biol. 2020. Nature.
58. Zhou T, Teng IT, Olia AS, Cerutti G, Gorman J, Nazzari A, Shi W, Tsybovsky Y, Wang L, Wang S, Zhang B, Zhang Y, Katsamba PS, Petrova Y, Banach BB, Fahad AS, Liu L, Lopez Acevedo SN, Madan B, Oliveira de Souza M, Pan X, Wang P, Wolfe JR, Yin M, Ho DD, Phung E, DiPiazza A, Chang LA, Abiona OM, Corbett KS, DeKosky BJ, Graham BS, Mascola JR, Misasi J, Ruckwardt T, Sullivan NJ, Shapiro L, Kwong PD. Structure-Based Design with Tag-Based Purification and In-Process Biotinylation Enable Streamlined Development of SARS-CoV-2 Spike Molecular Probes. Cell reports. 2020;33(4):108322. PubMed.
59. Zhou T, Tsybovsky Y, Gorman J, Rapp M, Cerutti G, Chuang GY, Katsamba PS, Sampson JM, Schon A, Bimela J, Boyington JC, Nazzari A, Olia AS, Shi W, Sastry M, Stephens T, Stuckey J, Teng IT, Wang P, Wang S, Zhang B, Friesner RA, Ho DD, Mascola JR, Shapiro L, Kwong PD. Cryo-EM Structures of SARS-CoV-2 Spike without and with ACE2 Reveal a pH-Dependent Switch to Mediate Endosomal Positioning of Receptor-Binding Domains. Cell Host Microbe. 2020;28(6):867-879 e865. PubMed.

2019

1. Acosta-Reyes F, Neupane R, Frank J, Fernandez IS. The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs. The EMBO journal. 2019;38(21):e102226. PubMed.
2. Akella JS, Silva M, Morsci NS, Nguyen KC, Rice WJ, Hall DH, Barr MM. Cell type-specific structural plasticity of the ciliary transition zone in C. elegans. Biol Cell. 2019; 111(4):95-107. PubMed.
3. Belote RL, Simon SM. Ca2+ transients in melanocyte dendrites and dendritic spine-like structures evoked by cell-to-cell signaling. J Cell Biol. 2020;219(1). PubMed.
4. Bepler T, Morin A, Rapp M, Brasch J, Shapiro L, Noble AJ, Berger B. Positive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs. Nat Methods. 2019. PubMed.
5. Boyaci H, Chen J, Jansen R, Darst SA, Campbell EA. Structures of an RNA polymerase promoter melting intermediate elucidate DNA unwinding. Nature. 2019;565(7739):382-385. PubMed.
6. Brasch J, Goodman KM, Noble AJ, Rapp M, Mannepalli S, Bahna F, Dandey VP, Bepler T, Berger B, Maniatis T, Potter CS, Carragher B, Honig B, Shapiro L.Visualization of clustered protocadherin neuronal self-recognition complexes. Nature. 2019;569(7755):280-283. PubMed.
7. Carragher B, Cheng Y, Frost A, Glaeser RM, Lander GC, Nogales E, Wang HW. Current outcomes when optimizing ‘standard’ sample preparation for single-particle cryo-EM. J Microsc. 2019;276(1):39-45. PubMed.
8. Chen J, Noble AJ, Kang JY, Darst SA. Eliminating effects of particle adsorption to the air/water interface in single-particle cryo-electron microscopy: Bacterial RNA polymerase and CHAPSO. Journal of Structural Biology: X. 2019;1:100005. ScienceDirect.
9. Chuang GY, Zhou J, Acharya P, Rawi R, Shen CH, Sheng Z, Zhang B, Zhou T, Bailer RT, Dandey VP, Doria-Rose NA, Louder MK, McKee K, Mascola JR, Shapiro L, Kwong PD.Structural Survey of Broadly Neutralizing Antibodies Targeting the HIV-1 Env Trimer Delineates Epitope Categories and Characteristics of Recognition. Structure. 2019;27(1):196-206 e196. PubMed.
10. Chung JM, Sheedlo MJ, Campbell AM, Sawhney N, Frick-Cheng AE, Lacy DB, Cover TL, Ohi MD. Structure of the Helicobacter pylori Cag Type IV secretion system. Elife. 2019;8. PubMed.
11. Dhindwal S, Avila B, Feng S, Khayat R.Porcine circovirus 2 uses a multitude of weak binding sites to interact with heparan sulfate, and the interactions do not follow the symmetry of the capsid. J Virol. 2019;93(6) e02222-18. PubMed.
12. Dhindwal S, Feng S, Khayat R. The Arginines in the N-Terminus of the Porcine Circovirus 2 Virus-like Particles Are Responsible for Disrupting the Membranes at Neutral and Acidic pH. Journal of Molecular Biology. 2019;431(17):3261-3274. PubMed.
13. Eng ET, Kopylov M, Negro CJ, Dallaykan S, Rice WJ, Jordan KD, Kelley K, Carragher B, Potter CS. Reducing cryoEM file storage using lossy image formats. J Struct Biol. 2019;207(1):49-55. PubMed.
14. Falzone ME, Rheinberger J, Lee BC, Peyear T, Sasset L, Raczkowski AM, Eng ET, Di Lorenzo A, Andersen OS, Nimigean CM, Accardi A.Structural basis of Ca(2+)-dependent activation and lipid transport by a TMEM16 scramblase. Elife. 2019;8. PubMed.
15. Hamachi LS, Yang H, Jen-La Plante I, Saenz N, Qian K, Campos MP, Cleveland GT, Rreza I, Oza A, Walravens W, Chan EM, Hens Z, Crowther AC, Owen JS. Precursor reaction kinetics control compositional grading and size of CdSe1−xSx nanocrystal heterostructures. Chemical Science. 2019;10(26):6539-6552. ChemSci.
16. Han H, Fulcher JM, Dandey VP, Iwasa JH, Sundquist WI, Kay MS, Shen PS, Hill CP. Structure of Vps4 with circular peptides and implications for translocation of two polypeptide chains by AAA+ ATPases. eLife. 2019;8:e44071. PubMed.
17. Jain R, Rice WJ, Malik R, Johnson RE, Prakash L, Prakash S, Ubarretxena-Belandia I, Aggarwal AK. Cryo-EM structure and dynamics of eukaryotic DNA polymerase delta holoenzyme. Nat Struct Mol Biol. 2019;26(10):955-962. PubMed.
18. Jia N, Mo CY, Wang C, Eng ET, Marraffini LA, Patel DJ.Type III-A CRISPR-Cas Csm Complexes: Assembly, Periodic RNA Cleavage, DNase Activity Regulation, and Autoimmunity. Mol Cell. 2019;73(2):264-277 e265. PubMed.
19. Kern DM, Oh S, Hite RK, Brohawn SG.Cryo-EM structures of the DCPIB-inhibited volume-regulated anion channel LRRC8A in lipid nanodiscs. Elife. 2019;8. PubMed.
20. Khayat R, Wen K, Alimova A, Gavrilov B, Katz A, Galarza JM, Gottlieb P. Structural characterization of the PCV2d virus-like particle at 3.3 Å resolution reveals differences to PCV2a and PCV2b capsids, a tetranucleotide, and an N-terminus near the icosahedral 3-fold axes. Virology. 2019;537:186-197. PubMed.
21. Khelashvili G, Falzone ME, Cheng X, Lee BC, Accardi A, Weinstein H. Dynamic modulation of the lipid translocation groove generates a conductive ion channel in Ca(2+)-bound nhTMEM16. Nat Commun. 2019;10(1):4972. PubMed.
22. Kim J, Tan YZ, Wicht KJ, Erramilli SK, Dhingra SK, Okombo J, Vendome J, Hagenah LM, Giacometti SI, Warren AL, Nosol K, Roepe PD, Potter CS, Carragher B, Kossiakoff AA, Quick M, Fidock DA, Mancia F. Structure and drug resistance of the Plasmodium falciparum transporter PfCRT. Nature. 2019;576(7786):315-320. PubMed.
23. Koh F, Narita A, Lee LJ, Tanaka K, Tan YZ, Dandey VP, Popp D, Robinson RC. The structure of a 15-stranded actin-like filament from Clostridium botulinum. Nature Communications. 2019;10(1):2856. PubMed.
24. Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O’Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK. Antibody Lineages with Vaccine-Induced Antigen-Binding Hotspots Develop Broad HIV Neutralization. 2019;178(3):567-584 e519. PubMed.
25. Koripella RK, Sharma MR, Haque ME, Risteff P, Spremulli LL, Agrawal RK.Structure of Human Mitochondrial Translation Initiation Factor 3 Bound to the Small Ribosomal Subunit. iScience. 2019;12:76-86. PubMed.
26. Koripella RK, Sharma MR, Risteff P, Keshavan P, Agrawal RK. Structural insights into unique features of the human mitochondrial ribosome recycling. Proceedings of the National Academy of Sciences. 2019;116(17):8283-8288. PubMed.
27. Lee PD, Wei H, Tan D, Harrison SC. Structure of the Centromere Binding Factor 3 Complex from Kluyveromyces lactis. J Mol Biol. 2019;431(22):4444-4454. PubMed.
28. Liu Y, Zhou K, Zhang N, Wei H, Tan YZ, Zhang Z, Carragher B, Potter CS, D’Arcy S, Luger K. FACT caught in the act of manipulating the nucleosome. Nature. 2020;577(7790):426-431. Nature.
29. McGoldrick LL, Singh AK, Demirkhanyan L, Lin TY, Casner RG, Zakharian E, Sobolevsky AI. Structure of the thermo-sensitive TRP channel TRP1 from the alga Chlamydomonas reinhardtii. Nat Commun. 2019;10(1):4180. PubMed.
30. Miller AN, Vaisey G, Long SB.Molecular mechanisms of gating in the calcium-activated chloride channel bestrophin. Elife. 2019;8. PubMed.
31. Nguyen AH, Thomsen ARB, Cahill TJ, Huang R, Huang L-Y, Marcink T, Clarke OB, Heissel S, Masoudi A, Ben-Hail D, Samaan F, Dandey VP, Tan YZ, Hong C, Mahoney JP, Triest S, Little J, Chen X, Sunahara R, Steyaert J, Molina H, Yu Z, des Georges A, Lefkowitz RJ. Structure of an endosomal signaling GPCR–G protein–β-arrestin megacomplex. Nature Structural & Molecular Biology. 2019;26(12):1123-1131. PubMed.
32. Niekamp S, Coudray N, Zhang N, Vale RD, Bhabha G. Coupling of ATPase activity, microtubule binding, and mechanics in the dynein motor domain. The EMBO journal. 2019;38(13):e101414. PubMed.
33. Otsu W, Hsu YC, Chuang JZ, Sung CH.The Late Endosomal Pathway Regulates the Ciliary Targeting of Tetraspanin Protein Peripherin 2. J Neurosci. 2019;39(18):3376-3393. PubMed.
35. Singh AK, McGoldrick LL, Demirkhanyan L, Leslie M, Zakharian E, Sobolevsky AI. Structural basis of temperature sensation by the TRP channel TRPV3. Nature Structural & Molecular Biology. 2019;26(11):994-998. PubMed.
36. Steffes VM, Zhang Z, MacDonald S, Crowe J, Ewert KK, Carragher B, Potter CS, Safinya CR. PEGylation of Paclitaxel-Loaded Cationic Liposomes Drives Steric Stabilization of Bicelles and Vesicles thereby Enhancing Delivery and Cytotoxicity to Human Cancer Cells. ACS Applied Materials & Interfaces. 2020;12(1):151-162. PubMed.
37. Stoddard CI, Feng S, Campbell MG, Liu W, Wang H, Zhong X, Bernatavichute Y, Cheng Y, Jacobsen SE, Narlikar GJ.A Nucleosome Bridging Mechanism for Activation of a Maintenance DNA Methyltransferase. Mol Cell. 2019;73(1):73-83 e76. PubMed.
38. Wei J, Leit S, Kuai J, Therrien E, Rafi S, Harwood HJ, Jr., DeLaBarre B, Tong L.An allosteric mechanism for potent inhibition of human ATP-citrate lyase. Nature. 2019;568(7753):566-570. PubMed.
39. Zhao L, Kopylov M, Potter CS, Carragher B, Finn MG.Engineering the PP7 Virus Capsid as a Peptide Display Platform. ACS Nano. 2019;13(4):4443-4454. PubMed.

2018

1. Benoit M, Asenjo AB, Sosa H.Cryo-EM reveals the structural basis of microtubule depolymerization by kinesin-13s. Nat Commun. 2018;9(1):1662. PubMed.
2. Bepler T, Morin A, Noble AJ, Brasch J, Shapiro L, Berger B.Positive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs. Res Comput Mol Biol. 2018;10812:245-247. PubMed
3. Boyaci H, Chen J, Lilic M, Palka M, Mooney RA, Landick R, Darst SA, Campbell EA.Fidaxomicin jams Mycobacterium tuberculosis RNA polymerase motions needed for initiation via RbpA contacts. Elife. 2018;7. PubMed.
4. Cao S, Zhou K, Zhang Z, Luger K, Straight AF.Constitutive centromere-associated network contacts confer differential stability on CENP-A nucleosomes in vitro and in the cell. Mol Biol Cell. 2018;29(6):751-762. PubMed.
5. Chase J, Catalano A, Noble AJ, Eng ET, Olinares PDB, Molloy K, Pakotiprapha D, Samuels M, Chait B, des Georges A, Jeruzalmi D.Mechanisms of opening and closing of the bacterial replicative helicase. Elife. 2018;7. PubMed.
6. Cheng A, Eng ET, Alink L, Rice WJ, Jordan KD, Kim LY, Potter CS, Carragher B.High resolution single particle cryo-electron microscopy using beam-image shift. J Struct Biol. 2018;204(2):270-275. PubMed.
7. Dandey VP, Wei H, Zhang Z, Tan YZ, Acharya P, Eng ET, Rice WJ, Kahn PA, Potter CS, Carragher B.Spotiton: New features and applications. J Struct Biol. 2018;202(2):161-169. PubMed.
8. Dingens AS, Acharya P, Haddox HK, Rawi R, Xu K, Chuang GY, Wei H, Zhang B, Mascola JR, Carragher B, Potter CS, Overbaugh J, Kwong PD, Bloom JD.Complete functional mapping of infection- and vaccine-elicited antibodies against the fusion peptide of HIV. PLoS Pathog. 2018;14(7):e1007159. PubMed.
9. Dionne G, Qiu X, Rapp M, Liang X, Zhao B, Peng G, Katsamba PS, Ahlsen G, Rubinstein R, Potter CS, Carragher B, Honig B, Muller U, Shapiro L.Mechanotransduction by PCDH15 Relies on a Novel cis-Dimeric Architecture. Neuron. 2018;99(3):480-492 e485. PubMed.
10. Kang JY, Mooney RA, Nedialkov Y, Saba J, Mishanina TV, Artsimovitch I, Landick R, Darst SA.Structural Basis for Transcript Elongation Control by NusG Family Universal Regulators. Cell. 2018;173(7):1650-1662 e1614. PubMed.
11. Kim LY, Rice WJ, Eng ET, Kopylov M, Cheng A, Raczkowski AM, Jordan KD, Bobe D, Potter CS, Carragher B.Benchmarking cryo-EM Single Particle Analysis Workflow. Front Mol Biosci. 2018;5:50. PubMed.
12. Kong L, Sochacki KA, Wang H, Fang S, Canagarajah B, Kehr AD, Rice WJ, Strub MP, Taraska JW, Hinshaw JE.Cryo-EM of the dynamin polymer assembled on lipid membrane. Nature. 2018;560(7717):258-262. PubMed.
13. Li Y, Sharma MR, Koripella RK, Yang Y, Kaushal PS, Lin Q, Wade JT, Gray TA, Derbyshire KM, Agrawal RK, Ojha AK.Zinc depletion induces ribosome hibernation in mycobacteria. Proc Natl Acad Sci U S A. 2018;115(32):8191-8196. PubMed.
14. Liao PC, Boldogh IR, Siegmund SE, Freyberg Z, Pon LA.Isolation of mitochondria from Saccharomyces cerevisiae using magnetic bead affinity purification. PLoS One. 2018;13(4):e0196632. PubMed.
15. Lin W, Das K, Degen D, Mazumder A, Duchi D, Wang D, Ebright YW, Ebright RY, Sineva E, Gigliotti M, Srivastava A, Mandal S, Jiang Y, Liu Y, Yin R, Zhang Z, Eng ET, Thomas D, Donadio S, Zhang H, Zhang C, Kapanidis AN, Ebright RH.Structural Basis of Transcription Inhibition by Fidaxomicin (Lipiarmycin A3). Mol Cell. 2018;70(1):60-71 e15. PubMed.
16. Lopez-Redondo ML, Coudray N, Zhang Z, Alexopoulos J, Stokes DL.Structural basis for the alternating access mechanism of the cation diffusion facilitator YiiP. Proc Natl Acad Sci U S A. 2018;115(12):3042-3047. PubMed
17. Ma X, Lu M, Gorman J, Terry DS, Hong X, Zhou Z, Zhao H, Altman RB, Arthos J, Blanchard SC, Kwong PD, Munro JB, Mothes W.HIV-1 Env trimer opens through an asymmetric intermediate in which individual protomers adopt distinct conformations. Elife. 2018;7. PubMed.
18. Malvezzi M, Andra KK, Pandey K, Lee BC, Falzone ME, Brown A, Iqbal R, Menon AK, Accardi A. Out-of-the-groove transport of lipids by TMEM16 and GPCR scramblases. Proc Natl Acad Sci U S A. 2018;115(30):E7033-E7042. PubMed.
19. McGoldrick LL, Singh AK, Saotome K, Yelshanskaya MV, Twomey EC, Grassucci RA, Sobolevsky AI.Opening of the human epithelial calcium channel TRPV6. Nature. 2018;553(7687):233-237. PubMed.
20. Noble AJ, Dandey VP, Wei H, Brasch J, Chase J, Acharya P, Tan YZ, Zhang Z, Kim LY, Scapin G, Rapp M, Eng ET, Rice WJ, Cheng A, Negro CJ, Shapiro L, Kwong PD, Jeruzalmi D, des Georges A, Potter CS, Carragher B.Routine single particle CryoEM sample and grid characterization by tomography. Elife. 2018;7. PubMed.
21. Noble AJ, Wei H, Dandey VP, Zhang Z, Tan YZ, Potter CS, Carragher B.Reducing effects of particle adsorption to the air-water interface in cryo-EM. Nat Methods. 2018;15(10):793-795. PubMed.
22. Oliveira LM, Ye Z, Katz A, Alimova A, Wei H, Herman GT, Gottlieb P.Component tree analysis of cystovirus phi6 nucleocapsid Cryo-EM single particle reconstructions. PLoS One. 2018;13(1):e0188858. PubMed.
23. Paknejad N, Hite RK. Structural basis for the regulation of inositol trisphosphate receptors by Ca(2+) and IP3. Nat Struct Mol Biol. 2018;25(8):660-668. PubMed.
24. Pisareva VP, Pisarev AV, Fernandez IS.Dual tRNA mimicry in the Cricket Paralysis Virus IRES uncovers an unexpected similarity with the Hepatitis C Virus IRES. Elife. 2018;7. PubMed.
25. Qiu W, Fu Z, Xu GG, Grassucci RA, Zhang Y, Frank J, Hendrickson WA, Guo Y.Structure and activity of lipid bilayer within a membrane-protein transporter. Proc Natl Acad Sci U S A. 2018;115(51):12985-12990. PubMed.
26. Rheinberger J, Gao X, Schmidpeter PA, Nimigean CM.Ligand discrimination and gating in cyclic nucleotide-gated ion channels from apo and partial agonist-bound cryo-EM structures. Elife. 2018;7:e39775. PubMed.
27. Rice WJ, Cheng A, Noble AJ, Eng ET, Kim LY, Carragher B, Potter CS.Routine determination of ice thickness for cryo-EM grids. J Struct Biol. 2018;204(1):38-44. PubMed.
28. Ru H, Mi W, Zhang P, Alt FW, Schatz DG, Liao M, Wu H.DNA melting initiates the RAG catalytic pathway. Nat Struct Mol Biol. 2018;25(8):732-742. PubMed.
29. Scapin G, Dandey VP, Zhang Z, Prosise W, Hruza A, Kelly T, Mayhood T, Strickland C, Potter CS, Carragher B.Structure of the insulin receptor-insulin complex by single-particle cryo-EM analysis. Nature. 2018;556(7699):122-125. PubMed.
30. Scapin G, Potter CS, Carragher B.Cryo-EM for Small Molecules Discovery, Design, Understanding, and Application. Cell Chem Biol. 2018;25(11):1318-1325.
31. Schmidpeter PAM, Gao X, Uphadyay V, Rheinberger J, Nimigean CM.Ligand binding and activation properties of the purified bacterial cyclic nucleotide-gated channel SthK. J Gen Physiol. 2018;150(6):821-834. PubMed.
32. Siegmund SE, Grassucci R, Carter SD, Barca E, Farino ZJ, Juanola-Falgarona M, Zhang P, Tanji K, Hirano M, Schon EA, Frank J, Freyberg Z.Three-Dimensional Analysis of Mitochondrial Crista Ultrastructure in a Patient with Leigh Syndrome by In Situ Cryoelectron Tomography. iScience. 2018;6:83-91. PunMed.
33. Singh AK, McGoldrick LL, Sobolevsky AI.Structure and gating mechanism of the transient receptor potential channel TRPV3. Nat Struct Mol Biol. 2018;25(9):805-813. PubMed.
34. Singh AK, McGoldrick LL, Twomey EC, Sobolevsky AI.Mechanism of calmodulin inactivation of the calcium-selective TRP channel TRPV6. Sci Adv. 2018;4(8):eaau6088. PubMed.
35. Stewart-Jones GBE, Chuang GY, Xu K, Zhou T, Acharya P, Tsybovsky Y, Ou L, Zhang B, Fernandez-Rodriguez B, Gilardi V, Silacci-Fregni C, Beltramello M, Baxa U, Druz A, Kong WP, Thomas PV, Yang Y, Foulds KE, Todd JP, Wei H, Salazar AM, Scorpio DG, Carragher B, Potter CS, Corti D, Mascola JR, Lanzavecchia A, Kwong PD.Structure-based design of a quadrivalent fusion glycoprotein vaccine for human parainfluenza virus types 1-4. Proc Natl Acad Sci U S A. 2018;115(48):12265-12270. PubMed.
36. Sun C, Benlekbir S, Venkatakrishnan P, Wang Y, Hong S, Hosler J, Tajkhorshid E, Rubinstein JL, Gennis RB.Structure of the alternative complex III in a supercomplex with cytochrome oxidase. Nature. 2018;557(7703):123-126. PubMed.
37. Sun Y, Zhang Y, Hamilton K, Manley JL, Shi Y, Walz T, Tong L.Molecular basis for the recognition of the human AAUAAA polyadenylation signal. Proc Natl Acad Sci U S A. 2018;115(7):E1419-E1428. PubMed.
38. Tan YZ, Aiyer S, Mietzsch M, Hull JA, McKenna R, Grieger J, Samulski RJ, Baker TS, Agbandje-McKenna M, Lyumkis D.Sub-2 A Ewald curvature corrected structure of an AAV2 capsid variant. Nat Commun. 2018;9(1):3628. PubMed.
39. Twomey EC, Yelshanskaya MV, Vassilevski AA, Sobolevsky AI.Mechanisms of Channel Block in Calcium-Permeable AMPA Receptors. Neuron. 2018;99(5):956-968 e954. PubMed.
40. Wang L, Fu TM, Zhou Y, Xia S, Greka A, Wu H.Structures and gating mechanism of human TRPM2. Science. 2018;362(6421):eaav4809. PubMed.
41. Wei H, Dandey VP, Zhang Z, Raczkowski A, Rice WJ, Carragher B, Potter CS.Optimizing “self-wicking” nanowire grids. J Struct Biol. 2018;202(2):170-174. PubMed.
42. Weick EM, Puno MR, Januszyk K, Zinder JC, DiMattia MA, Lima CD.Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex. Cell. 2018;173(7):1663-1677 e1621. PubMed.
43. Xu K, Acharya P, Kong R, Cheng C, Chuang GY, Liu K, Louder MK, O’Dell S, Rawi R, Sastry M, Shen CH, Zhang B, Zhou T, Asokan M, Bailer RT, Chambers M, Chen X, Choi CW, Dandey VP, Doria-Rose NA, Druz A, Eng ET, Farney SK, Foulds KE, Geng H, Georgiev IS, Gorman J, Hill KR, Jafari AJ, Kwon YD, Lai YT, Lemmin T, McKee K, Ohr TY, Ou L, Peng D, Rowshan AP, Sheng Z, Todd JP, Tsybovsky Y, Viox EG, Wang Y, Wei H, Yang Y, Zhou AF, Chen R, Yang L, Scorpio DG, McDermott AB, Shapiro L, Carragher B, Potter CS, Mascola JR, Kwong PD.Epitope-based vaccine design yields fusion peptide-directed antibodies that neutralize diverse strains of HIV-1. Nat Med. 2018;24(6):857-867. PubMed.
44. Zhang Z, Liang WG, Bailey LJ, Tan YZ, Wei H, Wang A, Farcasanu M, Woods VA, McCord LA, Lee D, Shang W, Deprez-Poulain R, Deprez B, Liu DR, Koide A, Koide S, Kossiakoff AA, Li S, Carragher B, Potter CS, Tang WJ.Ensemble cryoEM elucidates the mechanism of insulin capture and degradation by human insulin degrading enzyme. Elife. 2018;7. PubMed.

2017

1. Alewijnse B, Ashton AW, Chambers MG, Chen S, Cheng A, Ebrahim M, Eng ET, Hagen WJH, Koster AJ, Lopez CS, Lukoyanova N, Ortega J, Renault L, Reyntjens S, Rice WJ, Scapin G, Schrijver R, Siebert A, Stagg SM, Grum-Tokars V, Wright ER, Wu S, Yu Z, Zhou ZH, Carragher B, Potter CS. Best practices for managing large CryoEM facilities. Journal of structural biology. 2017;199(3):225-36. PMCID: PMC5605453. http://www.ncbi.nlm.nih.gov/pubmed/28827185
2. Baldwin PR, Tan YZ, Eng ET, Rice WJ, Noble AJ, Negro CJ, Cianfrocco MA, Potter CS, Carragher B. Big data in cryoEM: automated collection, processing and accessibility of EM data. Curr Opin Microbiol. 2017;43:1-8. http://www.ncbi.nlm.nih.gov/pubmed/29100109
3. Campos MP, Hendricks MP, Beecher AN, Walravens W, Swain RA, Cleveland GT, Hens Z, Sfeir MY, Owen JS. A Library of Selenourea Precursors to PbSe Nanocrystals with Size Distributions near the Homogeneous Limit. J Am Chem Soc. 2017;139(6):2296-305. http://www.ncbi.nlm.nih.gov/pubmed/28103035
4. Chen PE, Anderson NC, Norman ZM, Owen JS. Tight Binding of Carboxylate, Phosphonate, and Carbamate Anions to Stoichiometric CdSe Nanocrystals. J Am Chem Soc. 2017;139(8):3227-36. http://www.ncbi.nlm.nih.gov/pubmed/28125780
5. Coleman RA, Qiao Z, Singh SK, Peng CS, Cianfrocco M, Zhang Z, Piasecka A, Aldeborgh H, Basishvili G, Liu WL. p53 Dynamically Directs TFIID Assembly on Target Gene Promoters. Mol Cell Biol. 2017;37(13). PMCID: 5472829. http://www.ncbi.nlm.nih.gov/pubmed/28416636
6. Garcia-Marin V, Kelly JG, Hawken MJ. Major Feedforward Thalamic Input Into Layer 4C of Primary Visual Cortex in Primate. Cereb Cortex. 2017:1-16. http://www.ncbi.nlm.nih.gov/pubmed/29190326
7. Guo H, Bueler SA, Rubinstein JL. Atomic model for the dimeric FO region of mitochondrial ATP synthase. Science. 2017. http://www.ncbi.nlm.nih.gov/pubmed/29074581
8. Guo TW, Bartesaghi A, Yang H, Falconieri V, Rao P, Merk A, Eng ET, Raczkowski AM, Fox T, Earl LA, Patel DJ, Subramaniam S. Cryo-EM Structures Reveal Mechanism and Inhibition of DNA Targeting by a CRISPR-Cas Surveillance Complex. Cell. 2017;171(2):414-26 e12. http://www.ncbi.nlm.nih.gov/pubmed/28985564
9. Hamachi LS, Jen-La Plante I, Coryell AC, De Roo J, Owen JS. Kinetic Control over CdS Nanocrystal Nucleation Using a Library of Thiocarbonates, Thiocarbamates, and Thioureas. Chemistry of Materials. 2017;29(20):8711-9. http://dx.doi.org/10.1021/acs.chemmater.7b02861
10. Han H, Monroe N, Sundquist WI, Shen PS, Hill CP. The AAA ATPase Vps4 binds ESCRT-III substrates through a repeating array of dipeptide-binding pockets. eLife. 2017;6. PMCID: PMC5716660. http://www.ncbi.nlm.nih.gov/pubmed/29165244
11. Hirabayashi Y, Kwon SK, Paek H, Pernice WM, Paul MA, Lee J, Erfani P, Raczkowski A, Petrey DS, Pon LA, Polleux F. ER-mitochondria tethering by PDZD8 regulates Ca2+ dynamics in mammalian neurons. Science. 2017;358(6363):623-30. http://www.ncbi.nlm.nih.gov/pubmed/29097544
12. James ZM, Borst AJ, Haitin Y, Frenz B, DiMaio F, Zagotta WN, Veesler D. CryoEM structure of a prokaryotic cyclic nucleotide-gated ion channel. Proceedings of the National Academy of Sciences of the United States of America. 2017;114(17):4430-5. http://www.ncbi.nlm.nih.gov/pubmed/28396445
13. Lin W, Das K, Degen D, Mazumder A, Duchi D, Wang D, Ebright YW, Ebright RY, Sineva E, Gigliotti M, Srivastava A, Mandal S, Jiang Y, Liu Y, Yin R, Zhang Z, Eng E, Thomas D, Donadio S, Zhang H, Zhang C, Kapanidis A, Ebright RH. Structural basis of transcription inhibition by fidaxomicin (lipiarmycin A3). bioRxiv. 2017. https://www.biorxiv.org/content/biorxiv/early/2017/12/20/237123.full.pdf
14. Liu Q, Acharya P, Dolan MA, Zhang P, Guzzo C, Lu J, Kwon A, Gururani D, Miao H, Bylund T, Chuang GY, Druz A, Zhou T, Rice WJ, Wigge C, Carragher B, Potter CS, Kwong PD, Lusso P. Quaternary contact in the initial interaction of CD4 with the HIV-1 envelope trimer. Nat Struct Mol Biol. 2017;24(4):370-8. http://www.ncbi.nlm.nih.gov/pubmed/28218750
15. Malyutin AG, Musalgaonkar S, Patchett S, Frank J, Johnson AW. Nmd3 is a structural mimic of eIF5A, and activates the cpGTPase Lsg1 during 60S ribosome biogenesis. EMBO J. 2017;36(7):854-68. PMCID: 5376978. http://www.ncbi.nlm.nih.gov/pubmed/28179369
16. Noble AJ, Dandey VP, Wei H, Brasch J, Chase J, Acharya P, Tan YZ, Zhang Z, Kim LY, Scapin G, Rapp M, Eng ET, Rice WJ, Cheng A, Negro CJ, Shapiro L, Kwong PD, Jeruzalmi D, des Georges A, Potter CS, Carragher B. Routine Single Particle CryoEM Sample and Grid Characterization by Tomography. bioRxiv. 2017. https://www.biorxiv.org/content/biorxiv/early/2017/12/11/230276.full.pdf
17. Pentakota S, Zhou K, Smith C, Maffini S, Petrovic A, Morgan GP, Weir JR, Vetter IR, Musacchio A, Luger K. Decoding the centromeric nucleosome through CENP-N. eLife. 2017;6:e33442. https://doi.org/10.7554/eLife.33442
18. Piasecka A, Czapinska H, Vielberg MT, Szczepanowski R, Kiefersauer R, Reed S, Groll M, Bochtler M. The Y. bercovieri Anbu crystal structure sheds light on the evolution of highly (pseudo)symmetric multimers. J Mol Biol. 2017. http://www.ncbi.nlm.nih.gov/pubmed/29258816
19. Ren Y, Schmiege P, Blobel G. Structural and biochemical analyses of the DEAD-box ATPase Sub2 in association with THO or Yra1. eLife. 2017;6. PMCID: PMC5218534. http://www.ncbi.nlm.nih.gov/pubmed/28059701
20. Scapin G, Prosise WW, Wismer MK, Strickland C. A novel storage system for cryoEM samples. Journal of structural biology. 2017. http://www.ncbi.nlm.nih.gov/pubmed/28433496
21. Silva M, Morsci N, Nguyen KCQ, Rizvi A, Rongo C, Hall DH, Barr MM. Cell-Specific alpha-Tubulin Isotype Regulates Ciliary Microtubule Ultrastructure, Intraflagellar Transport, and Extracellular Vesicle Biology. Curr Biol. 2017;27(7):968-80. PMCID: 5688951. http://www.ncbi.nlm.nih.gov/pubmed/28318980
22. Tan YZ, Baldwin PR, Davis JH, Williamson JR, Potter CS, Carragher B, Lyumkis D. Addressing preferred specimen orientation in single-particle cryo-EM through tilting. Nat Methods. 2017;14(8):793-6. PMCID: PMC5533649. http://www.ncbi.nlm.nih.gov/pubmed/28671674
23. Twomey EC, Yelshanskaya MV, Grassucci RA, Frank J, Sobolevsky AI. Channel opening and gating mechanism in AMPA-subtype glutamate receptors. Nature. 2017;549(7670):60-5. http://www.ncbi.nlm.nih.gov/pubmed/28737760
24. Upla P, Kim SJ, Sampathkumar P, Dutta K, Cahill SM, Chemmama IE, Williams R, Bonanno JB, Rice WJ, Stokes DL, Cowburn D, Almo SC, Sali A, Rout MP, Fernandez-Martinez J. Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex. Structure. 2017;25(3):434-45. PMCID: PMC5342941. http://www.ncbi.nlm.nih.gov/pubmed/28162953
25. Wang L, Eng ET, Law K, Gordon RE, Rice WJ, Chen BK. Visualization of HIV T Cell Virological Synapses and Virus-Containing Compartments by Three-Dimensional Correlative Light and Electron Microscopy. J Virol. 2017;91(2). PMCID: PMC5215336. http://www.ncbi.nlm.nih.gov/pubmed/27847357
26. Yang H, Jiang X, Li B, Yang HJ, Miller M, Yang A, Dhar A, Pavletich NP. Mechanisms of mTORC1 activation by RHEB and inhibition by PRAS40. Nature. 2017. http://www.ncbi.nlm.nih.gov/pubmed/29236692
27. Yuan Z, Riera A, Bai L, Sun J, Nandi S, Spanos C, Chen ZA, Barbon M, Rappsilber J, Stillman B, Speck C, Li H. Structural basis of Mcm2-7 replicative helicase loading by ORC-Cdc6 and Cdt1. Nat Struct Mol Biol. 2017;24(3):316-24. http://www.ncbi.nlm.nih.gov/pubmed/28191893

2016

1. Cheng A, Tan YZ, Dandey VP, Potter CS, Carragher B. Strategies for Automated CryoEM Data Collection Using Direct Detectors. Methods Enzymol. 2016;579:87-102. http://www.ncbi.nlm.nih.gov/pubmed/27572724
2. Davis JH, Tan YZ, Carragher B, Potter CS, Lyumkis D, Williamson JR. Modular Assembly of the Bacterial Large Ribosomal Subunit. Cell. 2016;167(6):1610-22 e15. PMCID: PMC5145266. http://www.ncbi.nlm.nih.gov/pubmed/27912064
3. Domanski M, Upla P, Rice WJ, Molloy KR, Ketaren NE, Stokes DL, Jensen TH, Rout MP, LaCava J. Purification and analysis of endogenous human RNA exosome complexes. RNA. 2016;22(9):1467-75. PMCID: 4986900. http://www.ncbi.nlm.nih.gov/pubmed/27402899
4. Fernandez-Martinez J, Kim SJ, Shi Y, Upla P, Pellarin R, Gagnon M, Chemmama IE, Wang J, Nudelman I, Zhang W, Williams R, Rice WJ, Stokes DL, Zenklusen D, Chait BT, Sali A, Rout MP. Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform. Cell. 2016;167(5):1215-28 e25. PMCID: 5130164. http://www.ncbi.nlm.nih.gov/pubmed/27839866
5. Haka AS, Barbosa-Lorenzi VC, Lee HJ, Falcone DJ, Hudis CA, Dannenberg AJ, Maxfield FR. Exocytosis of macrophage lysosomes leads to digestion of apoptotic adipocytes and foam cell formation. J Lipid Res. 2016;57(6):980-92. PMCID: 4878183. http://www.ncbi.nlm.nih.gov/pubmed/27044658
6. Leo-Macias A, Agullo-Pascual E, Sanchez-Alonso JL, Keegan S, Lin X, Arcos T, Feng Xia L, Korchev YE, Gorelik J, Fenyo D, Rothenberg E, Delmar M. Nanoscale visualization of functional adhesion/excitability nodes at the intercalated disc. Nat Commun. 2016;7:10342. PMCID: PMC4735805. http://www.ncbi.nlm.nih.gov/pubmed/26787348
7. Peng X, Yuan XZ, Somasundaran P, Patra P. Assessment of micro-polarity anisotropy as a function of surfactant packing in sodium dodecyl sulphonate-hexane reverse micelles. Soft Matter. 2016;12(1):22-5. http://www.ncbi.nlm.nih.gov/pubmed/26446876
8. Razinkov I, Dandey V, Wei H, Zhang Z, Melnekoff D, Rice WJ, Wigge C, Potter CS, Carragher B. A new method for vitrifying samples for cryoEM. Journal of structural biology. 2016;195(2):190-8. PMCID: 5464370. http://www.ncbi.nlm.nih.gov/pubmed/27288865
9. Singh RK, Barbosa-Lorenzi VC, Lund FW, Grosheva I, Maxfield FR, Haka AS. Degradation of aggregated LDL occurs in complex extracellular sub-compartments of the lysosomal synapse. J Cell Sci. 2016;129(5):1072-82. PMCID: PMC4813320. http://www.ncbi.nlm.nih.gov/pubmed/26801085
10. Singh SK, Qiao Z, Song L, Jani V, Rice W, Eng E, Coleman RA, Liu WL. Structural visualization of the p53/RNA polymerase II assembly. Genes & development. 2016;30(22):2527-37. PMCID: 5159667. http://www.ncbi.nlm.nih.gov/pubmed/27920087
11. Singhvi A, Liu B, Friedman CJ, Fong J, Lu Y, Huang XY, Shaham S. A Glial K/Cl Transporter Controls Neuronal Receptive Ending Shape by Chloride Inhibition of an rGC. Cell. 2016;165(4):936-48. PMCID: PMC4860081. http://www.ncbi.nlm.nih.gov/pubmed/27062922
12. Tan YZ, Cheng A, Potter CS, Carragher B. Automated data collection in single particle electron microscopy. Microscopy (Oxf). 2016;65(1):43-56. PMCID: PMC4749047. http://www.ncbi.nlm.nih.gov/pubmed/26671944

2015

1. Chuang JZ, Hsu YC, Sung CH. Ultrastructural visualization of trans-ciliary rhodopsin cargoes in mammalian rods. Cilia. 2015;4:4. PMCID: PMC4320831. http://www.ncbi.nlm.nih.gov/pubmed/25664179
2. Hall DH, Rice WJ. Electron Tomography Methods for C. elegans. Methods Mol Biol. 2015;1327:141-58. http://www.ncbi.nlm.nih.gov/pubmed/26423973
3. Hsu YC, Chuang JZ, Sung CH. Light regulates the ciliary protein transport and outer segment disc renewal of mammalian photoreceptors. Dev Cell. 2015;32(6):731-42. PMCID: PMC4374123. http://www.ncbi.nlm.nih.gov/pubmed/25805137
4. Hurd TR, Sanchez CG, Teixeira FK, Petzold C, Dancel-Manning K, Wang JY, Lehmann R, Liang FX. Ultrastructural Analysis of Drosophila Ovaries by Electron Microscopy. Methods Mol Biol. 2015;1328:151-62. PMCID: 4727969. http://www.ncbi.nlm.nih.gov/pubmed/26324436
5. Kang Y, Zhou XE, Gao X, He Y, Liu W, Ishchenko A, Barty A, White TA, Yefanov O, Han GW, Xu Q, de Waal PW, Ke J, Tan MH, Zhang C, Moeller A, West GM, Pascal BD, Van Eps N, Caro LN, Vishnivetskiy SA, Lee RJ, Suino-Powell KM, Gu X, Pal K, Ma J, Zhi X, Boutet S, Williams GJ, Messerschmidt M, Gati C, Zatsepin NA, Wang D, James D, Basu S, Roy-Chowdhury S, Conrad CE, Coe J, Liu H, Lisova S, Kupitz C, Grotjohann I, Fromme R, Jiang Y, Tan M, Yang H, Li J, Wang M, Zheng Z, Li D, Howe N, Zhao Y, Standfuss J, Diederichs K, Dong Y, Potter CS, Carragher B, Caffrey M, Jiang H, Chapman HN, Spence JC, Fromme P, Weierstall U, Ernst OP, Katritch V, Gurevich VV, Griffin PR, Hubbell WL, Stevens RC, Cherezov V, Melcher K, Xu HE. Crystal structure of rhodopsin bound to arrestin by femtosecond X-ray laser. Nature. 2015;523(7562):561-7. PMCID: PMC4521999. http://www.ncbi.nlm.nih.gov/pubmed/26200343
6. Lasala R, Coudray N, Abdine A, Zhang Z, Lopez-Redondo M, Kirshenbaum R, Alexopoulos J, Zolnai Z, Stokes DL, Ubarretxena-Belandia I. Sparse and incomplete factorial matrices to screen membrane protein 2D crystallization. Journal of structural biology. 2015;189(2):123-34. PMCID: PMC4419781. http://www.ncbi.nlm.nih.gov/pubmed/25478971
7. Leo-Macias A, Liang FX, Delmar M. Ultrastructure of the intercellular space in adult murine ventricle revealed by quantitative tomographic electron microscopy. Cardiovasc Res. 2015;107(4):442-52. PMCID: PMC4540145. http://www.ncbi.nlm.nih.gov/pubmed/26113266
8. Neel BA, Zong H, Backer JM, Pessin JE. Identification of Atypical Peri-Nuclear Multivesicular Bodies in Oxidative and Glycolytic Skeletal Muscle of Aged and Pompe’s Disease Mouse Models. Front Physiol. 2015;6:393. PMCID: 4685069. http://www.ncbi.nlm.nih.gov/pubmed/26733885
9. Totland C, Martinez-Santiago J, Ananthapadmanabhan KP, Somasundaran P. Composition and structural transitions of polyelectrolyte-surfactant complexes in the presence of fatty acid studied by NMR and cryo-SEM. Langmuir. 2015;31(5):1623-31. http://www.ncbi.nlm.nih.gov/pubmed/25590530

2014

1. Block KA, Trusiak A, Katz A, Gottlieb P, Alimova A, Wei H, Morales J, Rice WJ, Steiner JC. Disassembly of the cystovirus varphi6 envelope by montmorillonite clay. Microbiologyopen. 2014;3(1):42-51. PMCID: PMC3937728. http://www.ncbi.nlm.nih.gov/pubmed/24357622
2. Choudhuri K, Llodra J, Roth EW, Tsai J, Gordo S, Wucherpfennig KW, Kam LC, Stokes DL, Dustin ML. Polarized release of T-cell-receptor-enriched microvesicles at the immunological synapse. Nature. 2014;507(7490):118-23. PMCID: PMC3949170. http://www.ncbi.nlm.nih.gov/pubmed/24487619
3. Fu X, Himes BA, Ke D, Rice WJ, Ning J, Zhang P. Controlled bacterial lysis for electron tomography of native cell membranes. Structure. 2014;22(12):1875-82. PMCID: PMC4255137. http://www.ncbi.nlm.nih.gov/pubmed/25456413
4. Katz G, Benkarroum Y, Wei H, Rice WJ, Bucher D, Alimova A, Katz A, Klukowska J, Herman GT, Gottlieb P. Morphology of influenza B/Lee/40 determined by cryo-electron microscopy. PloS one. 2014;9(2):e88288. PMCID: PMC3916419. http://www.ncbi.nlm.nih.gov/pubmed/24516628
5. Kaushal PS, Sharma MR, Booth TM, Haque EM, Tung CS, Sanbonmatsu KY, Spremulli LL, Agrawal RK. Cryo-EM structure of the small subunit of the mammalian mitochondrial ribosome. Proceedings of the National Academy of Sciences of the United States of America. 2014;111(20):7284-9. PMCID: PMC4034187. http://www.ncbi.nlm.nih.gov/pubmed/24799711
6. Nguyen PA, Liou W, Hall DH, Leroux MR. Ciliopathy proteins establish a bipartite signaling compartment in a C. elegans thermosensory neuron. J Cell Sci. 2014;127(Pt 24):5317-30. PMCID: PMC4265742. http://www.ncbi.nlm.nih.gov/pubmed/25335890
7. Orlando BJ, McDougle DR, Lucido MJ, Eng ET, Graham LA, Schneider C, Stokes DL, Das A, Malkowski MG. Cyclooxygenase-2 catalysis and inhibition in lipid bilayer nanodiscs. Arch Biochem Biophys. 2014;546:33-40. PMCID: PMC3967765. http://www.ncbi.nlm.nih.gov/pubmed/24503478
8. Wang J, Silva M, Haas LA, Morsci NS, Nguyen KC, Hall DH, Barr MM. C. elegans ciliated sensory neurons release extracellular vesicles that function in animal communication. Curr Biol. 2014;24(5):519-25. PMCID: PMC4659354. http://www.ncbi.nlm.nih.gov/pubmed/24530063
9. Yakubovskaya E, Guja KE, Eng ET, Choi WS, Mejia E, Beglov D, Lukin M, Kozakov D, Garcia-Diaz M. Organization of the human mitochondrial transcription initiation complex. Nucleic Acids Res. 2014;42(6):4100-12. PMCID: PMC3973321. http://www.ncbi.nlm.nih.gov/pubmed/24413562

2013

1. Allen GS, Stokes DL. Modeling, docking, and fitting of atomic structures to 3D maps from cryo-electron microscopy. Methods Mol Biol. 2013;955:229-41. PMCID: PMC3645293. http://www.ncbi.nlm.nih.gov/pubmed/23132064
2. Asenjo AB, Chatterjee C, Tan D, DePaoli V, Rice WJ, Diaz-Avalos R, Silvestry M, Sosa H. Structural model for tubulin recognition and deformation by kinesin-13 microtubule depolymerases. Cell Rep. 2013;3(3):759-68. http://www.ncbi.nlm.nih.gov/pubmed/23434508
3. Catanese MT, Uryu K, Kopp M, Edwards TJ, Andrus L, Rice WJ, Silvestry M, Kuhn RJ, Rice CM. Ultrastructural analysis of hepatitis C virus particles. Proceedings of the National Academy of Sciences of the United States of America. 2013;110(23):9505-10. PMCID: PMC3677472. http://www.ncbi.nlm.nih.gov/pubmed/23690609
4. Choi WS, Rice WJ, Stokes DL, Coller BS. Three-dimensional reconstruction of intact human integrin alphaIIbbeta3: new implications for activation-dependent ligand binding. Blood. 2013;122(26):4165-71. PMCID: PMC3868924. http://www.ncbi.nlm.nih.gov/pubmed/24136164
5. Coudray N, Valvo S, Hu M, Lasala R, Kim C, Vink M, Zhou M, Provasi D, Filizola M, Tao J, Fang J, Penczek PA, Ubarretxena-Belandia I, Stokes DL. Inward-facing conformation of the zinc transporter YiiP revealed by cryoelectron microscopy. Proceedings of the National Academy of Sciences of the United States of America. 2013;110(6):2140-5. PMCID: PMC3568326. http://www.ncbi.nlm.nih.gov/pubmed/23341604
6. Khan LA, Zhang H, Abraham N, Sun L, Fleming JT, Buechner M, Hall DH, Gobel V. Intracellular lumen extension requires ERM-1-dependent apical membrane expansion and AQP-8-mediated flux. Nat Cell Biol. 2013;15(2):143-56. PMCID: PMC4091717. http://www.ncbi.nlm.nih.gov/pubmed/23334498
7. Pieper U, Schlessinger A, Kloppmann E, Chang GA, Chou JJ, Dumont ME, Fox BG, Fromme P, Hendrickson WA, Malkowski MG, Rees DC, Stokes DL, Stowell MH, Wiener MC, Rost B, Stroud RM, Stevens RC, Sali A. Coordinating the impact of structural genomics on the human alpha-helical transmembrane proteome. Nat Struct Mol Biol. 2013;20(2):135-8. PMCID: PMC3645303. http://www.ncbi.nlm.nih.gov/pubmed/23381628
8. Sampathkumar P, Kim SJ, Upla P, Rice WJ, Phillips J, Timney BL, Pieper U, Bonanno JB, Fernandez-Martinez J, Hakhverdyan Z, Ketaren NE, Matsui T, Weiss TM, Stokes DL, Sauder JM, Burley SK, Sali A, Rout MP, Almo SC. Structure, dynamics, evolution, and function of a major scaffold component in the nuclear pore complex. Structure. 2013;21(4):560-71. PMCID: PMC3755625. http://www.ncbi.nlm.nih.gov/pubmed/23499021
9. Stokes DL, Ubarretxena-Belandia I, Gonen T, Engel A. High-throughput methods for electron crystallography. Methods Mol Biol. 2013;955:273-96. PMCID: PMC3644976. http://www.ncbi.nlm.nih.gov/pubmed/23132066
10. Yang S, Huang FK, Huang J, Chen S, Jakoncic J, Leo-Macias A, Diaz-Avalos R, Chen L, Zhang JJ, Huang XY. Molecular mechanism of fascin function in filopodial formation. J Biol Chem. 2013;288(1):274-84. PMCID: PMC3537022. http://www.ncbi.nlm.nih.gov/pubmed/23184945

2012

1. Cerrone M, Noorman M, Lin X, Chkourko H, Liang FX, van der Nagel R, Hund T, Birchmeier W, Mohler P, van Veen TA, van Rijen HV, Delmar M. Sodium current deficit and arrhythmogenesis in a murine model of plakophilin-2 haploinsufficiency. Cardiovasc Res. 2012;95(4):460-8. PMCID: PMC3422082. http://www.ncbi.nlm.nih.gov/pubmed/22764151
2. Delmar M, Liang FX. Connexin43 and the regulation of intercalated disc function. Heart Rhythm. 2012;9(5):835-8. PMCID: PMC3289726. http://www.ncbi.nlm.nih.gov/pubmed/22056332
3. Durand-Heredia J, Rivkin E, Fan G, Morales J, Janakiraman A. Identification of ZapD as a cell division factor that promotes the assembly of FtsZ in Escherichia coli. J Bacteriol. 2012;194(12):3189-98. PMCID: PMC3370873. http://www.ncbi.nlm.nih.gov/pubmed/22505682
4. Fernandez-Martinez J, Phillips J, Sekedat MD, Diaz-Avalos R, Velazquez-Muriel J, Franke JD, Williams R, Stokes DL, Chait BT, Sali A, Rout MP. Structure-function mapping of a heptameric module in the nuclear pore complex. J Cell Biol. 2012;196(4):419-34. PMCID: PMC3283990. http://www.ncbi.nlm.nih.gov/pubmed/22331846
5. Hom N, Mehta KR, Chou T, Foraker AB, Brodsky FM, Kirshenbaum K, Montclare JK. Anisotropic nanocrystal arrays organized on protein lattices formed by recombinant clathrin fragments. J Mater Chem. 2012;22(44):23335-9. PMCID: PMC3702375. http://www.ncbi.nlm.nih.gov/pubmed/23836951
6. Katz G, Wei H, Alimova A, Katz A, Morgan DG, Gottlieb P. Protein P7 of the cystovirus phi6 is located at the three-fold axis of the unexpanded procapsid. PloS one. 2012;7(10):e47489. PMCID: PMC3471842. http://www.ncbi.nlm.nih.gov/pubmed/23077625
7. Phoon CK, Acehan D, Schlame M, Stokes DL, Edelman-Novemsky I, Yu D, Xu Y, Viswanathan N, Ren M. Tafazzin knockdown in mice leads to a developmental cardiomyopathy with early diastolic dysfunction preceding myocardial noncompaction. J Am Heart Assoc. 2012;1(2). PMCID: PMC3487377. http://www.ncbi.nlm.nih.gov/pubmed/23130124
8. Schlame M, Acehan D, Berno B, Xu Y, Valvo S, Ren M, Stokes DL, Epand RM. The physical state of lipid substrates provides transacylation specificity for tafazzin. Nat Chem Biol. 2012;8(10):862-9. PMCID: PMC3699345. http://www.ncbi.nlm.nih.gov/pubmed/22941046
9. Topalidou I, Keller C, Kalebic N, Nguyen KC, Somhegyi H, Politi KA, Heppenstall P, Hall DH, Chalfie M. Genetically separable functions of the MEC-17 tubulin acetyltransferase affect microtubule organization. Curr Biol. 2012;22(12):1057-65. PMCID: PMC3382010. http://www.ncbi.nlm.nih.gov/pubmed/22658602
10. Ubarretxena-Belandia I, Stokes DL. Membrane protein structure determination by electron crystallography. Curr Opin Struct Biol. 2012;22(4):520-8. PMCID: PMC3423591. http://www.ncbi.nlm.nih.gov/pubmed/22572457

2011

1. Acehan D, Malhotra A, Xu Y, Ren M, Stokes DL, Schlame M. Cardiolipin affects the supramolecular organization of ATP synthase in mitochondria. Biophys J. 2011;100(9):2184-92. PMCID: PMC3150712. http://www.ncbi.nlm.nih.gov/pubmed/21539786
2. Allen GS, Wu CC, Cardozo T, Stokes DL. The architecture of CopA from Archeaoglobus fulgidus studied by cryo-electron microscopy and computational docking. Structure. 2011;19(9):1219-32. PMCID: PMC3168071. http://www.ncbi.nlm.nih.gov/pubmed/21820315
3. Banerjee S, Nimigean CM. Non-vesicular transfer of membrane proteins from nanoparticles to lipid bilayers. J Gen Physiol. 2011;137(2):217-23. PMCID: PMC3032376. http://www.ncbi.nlm.nih.gov/pubmed/21282400
4. De Carlo S, Harris JR. Negative staining and cryo-negative staining of macromolecules and viruses for TEM. Micron. 2011;42(2):117-31. PMCID: PMC2978762. http://www.ncbi.nlm.nih.gov/pubmed/20634082
5. Durand-Heredia JM, Yu HH, De Carlo S, Lesser CF, Janakiraman A. Identification and characterization of ZapC, a stabilizer of the FtsZ ring in Escherichia coli. J Bacteriol. 2011;193(6):1405-13. PMCID: PMC3067613. http://www.ncbi.nlm.nih.gov/pubmed/21216995
6. Leo-Macias A, Katz G, Wei H, Alimova A, Katz A, Rice WJ, Diaz-Avalos R, Hu GB, Stokes DL, Gottlieb P. Toroidal surface complexes of bacteriophage varphi12 are responsible for host-cell attachment. Virology. 2011;414(2):103-9. PMCID: PMC3095694. http://www.ncbi.nlm.nih.gov/pubmed/21489589
7. Nans A, Einheber S, Salzer JL, Stokes DL. Electron tomography of paranodal septate-like junctions and the associated axonal and glial cytoskeletons in the central nervous system. J Neurosci Res. 2011;89(3):310-9. PMCID: PMC3128832. http://www.ncbi.nlm.nih.gov/pubmed/21259318
8. Nans A, Mohandas N, Stokes DL. Native ultrastructure of the red cell cytoskeleton by cryo-electron tomography. Biophys J. 2011;101(10):2341-50. PMCID: PMC3218374. http://www.ncbi.nlm.nih.gov/pubmed/22098732
9. Renzi F, Zhang X, Rice WJ, Torres-Arancivia C, Gomez-Llorente Y, Diaz R, Ahn K, Yu C, Li YM, Sisodia SS, Ubarretxena-Belandia I. Structure of gamma-secretase and its trimeric pre-activation intermediate by single-particle electron microscopy. J Biol Chem. 2011;286(24):21440-9. PMCID: PMC3122203. http://www.ncbi.nlm.nih.gov/pubmed/21454611
10. Tian Y, Simanshu DK, Ascano M, Diaz-Avalos R, Park AY, Juranek SA, Rice WJ, Yin Q, Robinson CV, Tuschl T, Patel DJ. Multimeric assembly and biochemical characterization of the Trax-translin endonuclease complex. Nat Struct Mol Biol. 2011;18(6):658-64. PMCID: PMC3109869. http://www.ncbi.nlm.nih.gov/pubmed/21552261
11. Wehman AM, Poggioli C, Schweinsberg P, Grant BD, Nance J. The P4-ATPase TAT-5 inhibits the budding of extracellular vesicles in C. elegans embryos. Curr Biol. 2011;21(23):1951-9. PMCID: PMC3237752. http://www.ncbi.nlm.nih.gov/pubmed/22100064

2010

1. Diaz R, Rice WJ, Stokes DL. Fourier-Bessel reconstruction of helical assemblies. Methods Enzymol. 2010;482:131-65. PMCID: PMC3128834. http://www.ncbi.nlm.nih.gov/pubmed/20888960
2. Filimonenko M, Isakson P, Finley KD, Anderson M, Jeong H, Melia TJ, Bartlett BJ, Myers KM, Birkeland HC, Lamark T, Krainc D, Brech A, Stenmark H, Simonsen A, Yamamoto A. The selective macroautophagic degradation of aggregated proteins requires the PI3P-binding protein Alfy. Molecular cell. 2010;38(2):265-79. PMCID: PMC2867245. http://www.ncbi.nlm.nih.gov/pubmed/20417604
3. Hu M, Vink M, Kim C, Derr K, Koss J, D’Amico K, Cheng A, Pulokas J, Ubarretxena-Belandia I, Stokes D. Automated electron microscopy for evaluating two-dimensional crystallization of membrane proteins. Journal of structural biology. 2010;171(1):102-10. PMCID: PMC2904827. http://www.ncbi.nlm.nih.gov/pubmed/20197095
4. Ji H, Coleman J, Yang R, Melia TJ, Rothman JE, Tareste D. Protein determinants of SNARE-mediated lipid mixing. Biophys J. 2010;99(2):553-60. PMCID: PMC2905075. http://www.ncbi.nlm.nih.gov/pubmed/20643074
5. Kim C, Vink M, Hu M, Love J, Stokes DL, Ubarretxena-Belandia I. An automated pipeline to screen membrane protein 2D crystallization. J Struct Funct Genomics. 2010;11(2):155-66. PMCID: PMC3128831. http://www.ncbi.nlm.nih.gov/pubmed/20349145
6. Leal-Pinto E, Gomez-Llorente Y, Sundaram S, Tang QY, Ivanova-Nikolova T, Mahajan R, Baki L, Zhang Z, Chavez J, Ubarretxena-Belandia I, Logothetis DE. Gating of a G protein-sensitive mammalian Kir3.1 prokaryotic Kir channel chimera in planar lipid bilayers. J Biol Chem. 2010;285(51):39790-800. PMCID: PMC3000960. http://www.ncbi.nlm.nih.gov/pubmed/20937804
7. Li G, Margueron R, Hu G, Stokes D, Wang YH, Reinberg D. Highly compacted chromatin formed in vitro reflects the dynamics of transcription activation in vivo. Molecular cell. 2010;38(1):41-53. PMCID: PMC3641559. http://www.ncbi.nlm.nih.gov/pubmed/20385088
8. Melcher M, Muhle RA, Henrich PP, Kraemer SM, Avril M, Vigan-Womas I, Mercereau-Puijalon O, Smith JD, Fidock DA. Identification of a role for the PfEMP1 semi-conserved head structure in protein trafficking to the surface of Plasmodium falciparum infected red blood cells. Cell Microbiol. 2010;12(10):1446-62. PMCID: PMC2939972. http://www.ncbi.nlm.nih.gov/pubmed/20438573
9. Opalka N, Brown J, Lane WJ, Twist KA, Landick R, Asturias FJ, Darst SA. Complete structural model of Escherichia coli RNA polymerase from a hybrid approach. PLoS Biol. 2010;8(9). PMCID: PMC2939025. http://www.ncbi.nlm.nih.gov/pubmed/20856905
10. Owen GR, Stokes DL. Exploring the Nature of Desmosomal Cadherin Associations in 3D. Dermatol Res Pract. 2010;2010:930401. PMCID: PMC2905946. http://www.ncbi.nlm.nih.gov/pubmed/20672011
11. Stokes DL, Rice WJ, Hu M, Kim C, Ubarretxena-Belandia I. Two-dimensional crystallization of integral membrane proteins for electron crystallography. Methods Mol Biol. 2010;654:187-205. PMCID: PMC3128833. http://www.ncbi.nlm.nih.gov/pubmed/20665267
12. Tucker JD, Siebert CA, Escalante M, Adams PG, Olsen JD, Otto C, Stokes DL, Hunter CN. Membrane invagination in Rhodobacter sphaeroides is initiated at curved regions of the cytoplasmic membrane, then forms both budded and fully detached spherical vesicles. Mol Microbiol. 2010;76(4):833-47. http://www.ncbi.nlm.nih.gov/pubmed/20444085
13. Ubarretxena-Belandia I, Stokes DL. Present and future of membrane protein structure determination by electron crystallography. Adv Protein Chem Struct Biol. 2010;81:33-60. PMCID: PMC3121533. http://www.ncbi.nlm.nih.gov/pubmed/21115172

2009

1. Acehan D, Khuchua Z, Houtkooper RH, Malhotra A, Kaufman J, Vaz FM, Ren M, Rockman HA, Stokes DL, Schlame M. Distinct effects of tafazzin deletion in differentiated and undifferentiated mitochondria. Mitochondrion. 2009;9(2):86-95. PMCID: PMC2660382. http://www.ncbi.nlm.nih.gov/pubmed/19114128
2. Haka AS, Grosheva I, Chiang E, Buxbaum AR, Baird BA, Pierini LM, Maxfield FR. Macrophages create an acidic extracellular hydrolytic compartment to digest aggregated lipoproteins. Molecular biology of the cell. 2009;20(23):4932-40. PMCID: PMC2785736. http://www.ncbi.nlm.nih.gov/pubmed/19812252
3. Jeong H, Then F, Melia TJ, Jr., Mazzulli JR, Cui L, Savas JN, Voisine C, Paganetti P, Tanese N, Hart AC, Yamamoto A, Krainc D. Acetylation targets mutant huntingtin to autophagosomes for degradation. Cell. 2009;137(1):60-72. PMCID: PMC2940108. http://www.ncbi.nlm.nih.gov/pubmed/19345187
4. Kampmann M, Blobel G. Three-dimensional structure and flexibility of a membrane-coating module of the nuclear pore complex. Nat Struct Mol Biol. 2009;16(7):782-8. PMCID: PMC2706296. http://www.ncbi.nlm.nih.gov/pubmed/19503077
5. Mansilla-Soto J, Yoon-Robarts M, Rice WJ, Arya S, Escalante CR, Linden RM. DNA structure modulates the oligomerization properties of the AAV initiator protein Rep68. PLoS Pathog. 2009;5(7):e1000513. PMCID: PMC2702170. http://www.ncbi.nlm.nih.gov/pubmed/19593381
6. Nagy V, Hsia KC, Debler EW, Kampmann M, Davenport AM, Blobel G, Hoelz A. Structure of a trimeric nucleoporin complex reveals alternate oligomerization states. Proceedings of the National Academy of Sciences of the United States of America. 2009;106(42):17693-8. PMCID: PMC2764879. http://www.ncbi.nlm.nih.gov/pubmed/19805193
7. Rath U, Rogers GC, Tan D, Gomez-Ferreria MA, Buster DW, Sosa HJ, Sharp DJ. The Drosophila kinesin-13, KLP59D, impacts Pacman- and Flux-based chromosome movement. Molecular biology of the cell. 2009;20(22):4696-705. PMCID: PMC2777100. http://www.ncbi.nlm.nih.gov/pubmed/19793918
8. Shi Y, Di Giammartino DC, Taylor D, Sarkeshik A, Rice WJ, Yates JR, 3rd, Frank J, Manley JL. Molecular architecture of the human pre-mRNA 3′ processing complex. Molecular cell. 2009;33(3):365-76. PMCID: PMC2946185. http://www.ncbi.nlm.nih.gov/pubmed/19217410
9. Wei H, Cheng RH, Berriman J, Rice WJ, Stokes DL, Katz A, Morgan DG, Gottlieb P. Three-dimensional structure of the enveloped bacteriophage phi12: an incomplete T = 13 lattice is superposed on an enclosed T = 1 shell. PloS one. 2009;4(9):e6850. PMCID: PMC2733035. http://www.ncbi.nlm.nih.gov/pubmed/19727406

2008

1. Acehan D, Petzold C, Gumper I, Sabatini DD, Muller EJ, Cowin P, Stokes DL. Plakoglobin is required for effective intermediate filament anchorage to desmosomes. J Invest Dermatol. 2008;128(11):2665-75. http://www.ncbi.nlm.nih.gov/pubmed/18496566
2. Banerjee S, Huber T, Sakmar TP. Rapid incorporation of functional rhodopsin into nanoscale apolipoprotein bound bilayer (NABB) particles. J Mol Biol. 2008;377(4):1067-81. http://www.ncbi.nlm.nih.gov/pubmed/18313692
3. Eryilmaz E, Benach J, Su M, Seetharaman J, Dutta K, Wei H, Gottlieb P, Hunt JF, Ghose R. Structure and dynamics of the P7 protein from the bacteriophage phi 12. J Mol Biol. 2008;382(2):402-22. PMCID: PMC2744460. http://www.ncbi.nlm.nih.gov/pubmed/18647606
4. Georgescu RE, Yurieva O, Kim SS, Kuriyan J, Kong XP, O’Donnell M. Structure of a small-molecule inhibitor of a DNA polymerase sliding clamp. Proceedings of the National Academy of Sciences of the United States of America. 2008;105(32):11116-21. PMCID: PMC2495014. http://www.ncbi.nlm.nih.gov/pubmed/18678908
5. Hu GB, Rice WJ, Drose S, Altendorf K, Stokes DL. Three-dimensional structure of the KdpFABC complex of Escherichia coli by electron tomography of two-dimensional crystals. Journal of structural biology. 2008;161(3):411-8. PMCID: PMC2322856. http://www.ncbi.nlm.nih.gov/pubmed/17945510
6. Hu GB, Wei H, Rice WJ, Stokes DL, Gottlieb P. Electron cryo-tomographic structure of cystovirus phi 12. Virology. 2008;372(1):1-9. PMCID: PMC2692713. http://www.ncbi.nlm.nih.gov/pubmed/18022662
7. Milstein O, Tseng SY, Starr T, Llodra J, Nans A, Liu M, Wild MK, van der Merwe PA, Stokes DL, Reisner Y, Dustin ML. Nanoscale increases in CD2-CD48-mediated intermembrane spacing decrease adhesion and reorganize the immunological synapse. J Biol Chem. 2008;283(49):34414-22. PMCID: PMC2590684. http://www.ncbi.nlm.nih.gov/pubmed/18826951
8. Owen GR, Acehan D, Derr KD, Rice WJ, Stokes DL. Cryoelectron tomography of isolated desmosomes. Biochem Soc Trans. 2008;36(Pt 2):173-9. http://www.ncbi.nlm.nih.gov/pubmed/18363558
9. Tan D, Rice WJ, Sosa H. Structure of the kinesin13-microtubule ring complex. Structure. 2008;16(11):1732-9. PMCID: PMC4826039. http://www.ncbi.nlm.nih.gov/pubmed/19000825
10. Tareste D, Shen J, Melia TJ, Rothman JE. SNAREpin/Munc18 promotes adhesion and fusion of large vesicles to giant membranes. Proceedings of the National Academy of Sciences of the United States of America. 2008;105(7):2380-5. PMCID: PMC2268145. http://www.ncbi.nlm.nih.gov/pubmed/18268324
11. Wu CC, Rice WJ, Stokes DL. Structure of a copper pump suggests a regulatory role for its metal-binding domain. Structure. 2008;16(6):976-85. PMCID: PMC2705936. http://www.ncbi.nlm.nih.gov/pubmed/18547529

2007

1. Acehan D, Xu Y, Stokes DL, Schlame M. Comparison of lymphoblast mitochondria from normal subjects and patients with Barth syndrome using electron microscopic tomography. Lab Invest. 2007;87(1):40-8. PMCID: PMC2215767. http://www.ncbi.nlm.nih.gov/pubmed/17043667
2. Chuang CF, Vanhoven MK, Fetter RD, Verselis VK, Bargmann CI. An innexin-dependent cell network establishes left-right neuronal asymmetry in C. elegans. Cell. 2007;129(4):787-99. http://www.ncbi.nlm.nih.gov/pubmed/17512411
3. Del Rio A, Dutta K, Chavez J, Ubarretxena-Belandia I, Ghose R. Solution structure and dynamics of the N-terminal cytosolic domain of rhomboid intramembrane protease from Pseudomonas aeruginosa: insights into a functional role in intramembrane proteolysis. J Mol Biol. 2007;365(1):109-22. http://www.ncbi.nlm.nih.gov/pubmed/17059825
4. Pomfret AJ, Rice WJ, Stokes DL. Application of the iterative helical real-space reconstruction method to large membranous tubular crystals of P-type ATPases. Journal of structural biology. 2007;157(1):106-16. PMCID: PMC4040983. http://www.ncbi.nlm.nih.gov/pubmed/16879984
5. Shen J, Tareste DC, Paumet F, Rothman JE, Melia TJ. Selective activation of cognate SNAREpins by Sec1/Munc18 proteins. Cell. 2007;128(1):183-95. http://www.ncbi.nlm.nih.gov/pubmed/17218264
6. Stokes DL. Desmosomes from a structural perspective. Curr Opin Cell Biol. 2007;19(5):565-71. PMCID: PMC2211412. http://www.ncbi.nlm.nih.gov/pubmed/17945476
7. Vanamee ES, Berriman J, Aggarwal AK. An EM view of the FokI synaptic complex by single particle analysis. J Mol Biol. 2007;370(2):207-12. PMCID: PMC2703192. http://www.ncbi.nlm.nih.gov/pubmed/17524420
8. Vink M, Derr K, Love J, Stokes DL, Ubarretxena-Belandia I. A high-throughput strategy to screen 2D crystallization trials of membrane proteins. Journal of structural biology. 2007;160(3):295-304. PMCID: PMC2211413. http://www.ncbi.nlm.nih.gov/pubmed/17951070
9. Yakubovskaya E, Lukin M, Chen Z, Berriman J, Wall JS, Kobayashi R, Kisker C, Bogenhagen DF. The EM structure of human DNA polymerase gamma reveals a localized contact between the catalytic and accessory subunits. EMBO J. 2007;26(19):4283-91. PMCID: PMC2230839. http://www.ncbi.nlm.nih.gov/pubmed/17762861

2006

1. Barre P, Eliezer D. Folding of the repeat domain of tau upon binding to lipid surfaces. J Mol Biol. 2006;362(2):312-26. http://www.ncbi.nlm.nih.gov/pubmed/16908029
2. Chen Z, Akin BL, Stokes DL, Jones LR. Cross-linking of C-terminal residues of phospholamban to the Ca2+ pump of cardiac sarcoplasmic reticulum to probe spatial and functional interactions within the transmembrane domain. J Biol Chem. 2006;281(20):14163-72. http://www.ncbi.nlm.nih.gov/pubmed/16554295
3. Ferguson N, Becker J, Tidow H, Tremmel S, Sharpe TD, Krause G, Flinders J, Petrovich M, Berriman J, Oschkinat H, Fersht AR. General structural motifs of amyloid protofilaments. Proceedings of the National Academy of Sciences of the United States of America. 2006;103(44):16248-53. PMCID: PMC1637568. http://www.ncbi.nlm.nih.gov/pubmed/17060612
4. Greig SL, Berriman JA, O’Brien JA, Taylor JA, Bellamy AR, Yeager MJ, Mitra AK. Structural determinants of rotavirus subgroup specificity mapped by cryo-electron microscopy. J Mol Biol. 2006;356(1):209-21. http://www.ncbi.nlm.nih.gov/pubmed/16359700
5. Rice WJ, Kovalishin A, Stokes DL. Role of metal-binding domains of the copper pump from Archaeoglobus fulgidus. Biochem Biophys Res Commun. 2006;348(1):124-31. http://www.ncbi.nlm.nih.gov/pubmed/16876128
6. Stokes DL, Pomfret AJ, Rice WJ, Glaves JP, Young HS. Interactions between Ca2+-ATPase and the pentameric form of phospholamban in two-dimensional co-crystals. Biophys J. 2006;90(11):4213-23. PMCID: PMC1459492. http://www.ncbi.nlm.nih.gov/pubmed/16533842

2005

1. Alimova A, Katz A, Podder R, Minko G, Wei H, Berriman J, Alfano RR, Gottlieb P. Virus particles and receptor interaction monitored by fluorescence spectroscopy. Photochem Photobiol. 2005;81(4):879-83. http://www.ncbi.nlm.nih.gov/pubmed/15819601
2. Eliezer D, Barre P, Kobaslija M, Chan D, Li X, Heend L. Residual structure in the repeat domain of tau: echoes of microtubule binding and paired helical filament formation. Biochemistry. 2005;44(3):1026-36. http://www.ncbi.nlm.nih.gov/pubmed/15654759
3. Stokes DL, Delavoie F, Rice WJ, Champeil P, McIntosh DB, Lacapere JJ. Structural studies of a stabilized phosphoenzyme intermediate of Ca2+-ATPase. J Biol Chem. 2005;280(18):18063-72. http://www.ncbi.nlm.nih.gov/pubmed/15734741
4. Wood MA, Meredith DO, Owen GR, Richards RG, Riehle MO. Utilizing atomic number contrast for FESEM imaging of colloidal nanotopography underlying biological cells. Nanotechnology. 2005;16(9):1433. http://stacks.iop.org/0957-4484/16/i=9/a=002

2003

1. He W, Cowin P, Stokes DL. Untangling desmosomal knots with electron tomography. Science. 2003;302(5642):109-13. http://www.ncbi.nlm.nih.gov/pubmed/14526082

MEMC
“Some of this work was performed at the Simons Electron Microscopy Center  at the New York Structural Biology Center, with major support from the Simons Foundation (SF349247)”

NCCAT
“Some of this work was performed at the National Center for CryoEM Access and Training (NCCAT) and the Simons Electron Microscopy Center located at the New York Structural Biology Center, supported by the NIH Common Fund Transformative High Resolution Cryo-Electron Microscopy program (U24 GM129539,) and by grants from the Simons Foundation (SF349247) and NY State Assembly.”

NCITU
“Some of this work was performed at the National Center for In-Situ Tomographic Ultramicroscopy (NCITU) and the Simons Electron Microscopy Center located at the New York Structural Biology Center, supported by the NIH Common Fund Transformative High Resolution Cryo-Electron Microscopy program (U24 GM129539,) and by grants from the Simons Foundation (SF349247) and NY State Assembly.”

SMLC
“Some of this work was performed at the Simons Electron Microscopy Center  at the New York Structural Biology Center, with major support from the Simons Foundation (SF349247)”

SRAMM
“Some of this work was performed at the Simons Electron Microscopy Center  at the New York Structural Biology Center, with major support from the Simons Foundation (SF349247)”