Publications

2022

  1. Anderson JS, Hernández G, LeMaster DM. Molecular Dynamics-Assisted Optimization of Protein NMR Relaxation Analysis J Chem Theory Comput. 2022 Apr 12;18(4):2091-2104. doi: 10.1021/acs.jctc.1c01165. Epub 2022 Mar 4. PMID: 35245056. Link.
  2. 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. Link.
  3. 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. Link.
  4. Bhattacharya S, Palillo A. Structural and dynamic studies of the peptidase domain from Clostridium thermocellum PCAT1. Protein Sci. 2022 Feb;31(2):498-512. doi: 10.1002/pro.4248. Epub 2021 Dec 16. PMID: 34865273.  Link
  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. Link.
  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.  2022. [preprint].  Link.
  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. Link.
  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. Link.
  9. 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. Link.
  10. 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. Link.
  11. 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. Link.
  12. Georgiev GI, Malonis RJ, Wirchnianski AS, Wessel AW, Jung HS, Cahill SM, Nyakatura EK, Vergnolle O, Dowd KA, Cowburn D, Pierson TC, Diamond MS, Lai JR. Resurfaced ZIKV EDIII nanoparticle immunogens elicit neutralizing and protective responses in vivo. Cell Chem Biol. 2022 Feb 24:S2451-9456(22)00085-X. doi: 10.1016/j.chembiol.2022.02.004. Online ahead of print. PMID: 35231399. Link
  13. 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. Link. 2022.
  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. Link.
  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. Link. 2022. [preprint]
  16. 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. Link.
  17. Kendall AK, Chandra M, Xie B, Wan W, Jackson LP. Improved mammalian retromer cryo-EM structures reveal a new assembly interface. Link. 2022. [preprint]
  18. 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). Link.
  19. 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. Link.
  20. 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. Link.
  21. 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. Link.
  22. 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. Link.
  23. 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. Link.
  24. Martin JA, Palmer AG 3rd. Comparisons of Ribonuclease HI Homologs and Mutants Uncover a Multistate Model for Substrate Recognition. J Am Chem Soc. 2022 Mar 30;144(12):5342-5349. doi: 10.1021/jacs.1c11897. Epub 2022 Mar 21. PMID: 35312304. Link.
  25. Ram S, Bepler T. Few Shot Protein Generation. Preprint arXiv:220401168. 2022. [preprint]Link
  26. 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. Link. 2022. [preprint]
  27. Trinh TKH, Catalano C, Guo Y. Membrane-active Polymers: NCMNP13-x, NCMNP21-x and NCMNP21b-x for Membrane Protein Structural Biology. Link. 2022.
  28. 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. Link.
  29. Vallese F, Kim K, Yen LY, Johnston JD, Noble AJ, Calì T, Clarke OB. Architecture of the human erythrocyte ankyrin-1 complex. Link. 2022. [preprint].
  30. 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. Link.
  31. 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. Link. 2022. [preprint].
  32. Yin Z, Bird JG, Kaelber JT, Nickels BE, Ebright RH. Structural basis of transcription antitermination by Q?: NusA induces refolding of Q? to form nozzle for RNA polymerase exit channel. bioRxiv. 2022. [preprint]
  33. 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. Link.
  34. 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. Link.
  35. 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. Link.
  36. 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.  Link.