SEMC Publications


  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. 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.
  4. 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].
  5. 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.
  6. 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.
  7. 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.
  8. 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.
  9. 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.
  10. 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.
  11. 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.
  12. 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.
  13. 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. 2022:2022.2004.2021.488985. [preprint]
  14. 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.
  15. 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]
  16. Han B, Takvorian PM, Weiss LM. The Function and Structure of the Microsporidia Polar Tube. Exp Suppl. 2022;114:179-213. PubMed.
  17. 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.
  18. Kendall AK, Chandra M, Xie B, Wan W, Jackson LP. Improved mammalian retromer cryo-EM structures reveal a new assembly interface. bioRxiv. 2022. [preprint]
  19. 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.
  20. 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.
  21. 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.
  22. 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.
  23. 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.
  24. 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.
  25. 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. 2022:2022.2005.2020.492815. [preprint]
  26. 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.
  27. Ram S, Bepler T. Few Shot Protein Generation. arXiv preprint arXiv:220401168. 2022. [preprint]
  28. Rashid A, Tevlin M, Lu Y, Shaham S. A developmental pathway for epithelial-to-motoneuron transformation in C. elegans. bioRxiv. 2022:2022.2005.2027.493712.
  29. Reddy KD, Ciftci D, Scopelliti AJ, Boudker O. The archaeal glutamate transporter homologue GltPh shows heterogeneous substrate binding. Journal of General Physiology. 2022;154(5):e202213131.
  30. 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]
  31. Trinh TKH, Catalano C, Guo Y. Membrane-active Polymers: NCMNP13-x, NCMNP21-x and NCMNP21b-x for Membrane Protein Structural Biology. bioRxiv. 2022.
  32. 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.
  33. 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].
  34. 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.
  35. 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].
  36. 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.
  37. 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]
  38. 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.
  39. 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.
  40. 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.
  41. 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.
  42. 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.
  43. 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.


  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.
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  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.
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  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.
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  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.
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  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.


  1. Chuang JZ, Hsu YC, Sung CH. Ultrastructural visualization of trans-ciliary rhodopsin cargoes in mammalian rods. Cilia. 2015;4:4. PMCID: PMC4320831.
  2. Hall DH, Rice WJ. Electron Tomography Methods for C. elegans. Methods Mol Biol. 2015;1327:141-58.
  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.
  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.
  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.
  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.
  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.
  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.
  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.


  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.


  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.


  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.
  2. Delmar M, Liang FX. Connexin43 and the regulation of intercalated disc function. Heart Rhythm. 2012;9(5):835-8. PMCID: PMC3289726.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  10. Ubarretxena-Belandia I, Stokes DL. Membrane protein structure determination by electron crystallography. Curr Opin Struct Biol. 2012;22(4):520-8. PMCID: PMC3423591.


  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.


  1. Diaz R, Rice WJ, Stokes DL. Fourier-Bessel reconstruction of helical assemblies. Methods Enzymol. 2010;482:131-65. PMCID: PMC3128834.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  10. Owen GR, Stokes DL. Exploring the Nature of Desmosomal Cadherin Associations in 3D. Dermatol Res Pract. 2010;2010:930401. PMCID: PMC2905946.
  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.
  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.
  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.


  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.


  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.
  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.
  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.
  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.
  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.
  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.
  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.
  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.
  9. Tan D, Rice WJ, Sosa H. Structure of the kinesin13-microtubule ring complex. Structure. 2008;16(11):1732-9. PMCID: PMC4826039.
  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.
  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.


  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.
  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.
  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.
  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.
  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.
  6. Stokes DL. Desmosomes from a structural perspective. Curr Opin Cell Biol. 2007;19(5):565-71. PMCID: PMC2211412.
  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.
  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.
  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.


  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.
  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.
  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.
  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.
  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.
  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.


  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.
  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.
  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.
  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.


  1. He W, Cowin P, Stokes DL. Untangling desmosomal knots with electron tomography. Science. 2003;302(5642):109-13.