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For: Grant T, Rohou A, Grigorieff N. cisTEM, user-friendly software for single-particle image processing. eLife 2018. [PMID: 29513216 PMCID: PMC5854467 DOI: 10.7554/elife.35383] [Citation(s) in RCA: 642] [Impact Index Per Article: 91.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]  Open
Number Cited by Other Article(s)
1
Zhang H, Zheng D, Wu Q, Yan N, Peng H, Hu Q, Peng Y, Yan Z, Shi Z, Bao C, Hu M. CryoPROS: Correcting misalignment caused by preferred orientation using AI-generated auxiliary particles. Nat Commun 2025;16:4565. [PMID: 40379674 PMCID: PMC12084624 DOI: 10.1038/s41467-025-59797-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2024] [Accepted: 05/03/2025] [Indexed: 05/19/2025]  Open
2
Mertz KL, Jordahl, Hemme CA, Probasco MD, Forbes DS, Ducos PL, Salome AZ, Westphall MS, Quarmby ST, Grant T, Coon JJ. Laser-Induced Rehydration of Cryo-Landed Proteins Restores Native Structure. Mol Cell Proteomics 2025:100987. [PMID: 40349920 DOI: 10.1016/j.mcpro.2025.100987] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2025] [Revised: 05/05/2025] [Accepted: 05/06/2025] [Indexed: 05/14/2025]  Open
3
Stautz J, Griwatz D, Kaltwasser S, Mehdipour AR, Ketter S, Thiel C, Wunnicke D, Schrecker M, Mills DJ, Hummer G, Vonck J, Hänelt I. A short intrinsically disordered region at KtrB's N-terminus facilitates allosteric regulation of K+ channel KtrAB. Nat Commun 2025;16:4252. [PMID: 40335548 PMCID: PMC12059179 DOI: 10.1038/s41467-025-59546-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 04/25/2025] [Indexed: 05/09/2025]  Open
4
Soni K, Horvath A, Dybkov O, Schwan M, Trakansuebkul S, Flemming D, Wild K, Urlaub H, Fischer T, Sinning I. Structures of aberrant spliceosome intermediates on their way to disassembly. Nat Struct Mol Biol 2025;32:914-925. [PMID: 39833470 PMCID: PMC12086092 DOI: 10.1038/s41594-024-01480-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Accepted: 12/19/2024] [Indexed: 01/22/2025]
5
Chen X, Wang L, Xie J, Nowak JS, Luo B, Zhang C, Jia G, Zou J, Huang D, Glatt S, Yang Y, Su Z. RNA sample optimization for cryo-EM analysis. Nat Protoc 2025;20:1114-1157. [PMID: 39548288 DOI: 10.1038/s41596-024-01072-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Accepted: 09/12/2024] [Indexed: 11/17/2024]
6
Ren Y, Fan P, Zhang X, Fang T, Chen Z, Yao Y, Chi X, Zhang G, Zhao X, Sun B, Li F, Liu Z, Song Z, Zhang B, Peng C, Li E, Yang Y, Li J, Chiu S, Yu C. Potent Cross-neutralizing Antibodies Reveal Vulnerabilities of Henipavirus Fusion Glycoprotein. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2025:e2501996. [PMID: 40298900 DOI: 10.1002/advs.202501996] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2025] [Revised: 04/02/2025] [Indexed: 04/30/2025]
7
Rencilin CF, Chatterjee A, Ansari MY, Deshpande S, Mukherjee S, Singh R, Jayatheertha SB, Reddy PM, Hingankar N, Varadarajan R, Bhattacharya J, Dutta S. Cryo-EM reveals conformational variability in the SARS-CoV-2 spike protein RBD induced by two broadly neutralizing monoclonal antibodies. RSC Adv 2025;15:14385-14399. [PMID: 40330036 PMCID: PMC12053377 DOI: 10.1039/d5ra00373c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2025] [Accepted: 03/21/2025] [Indexed: 05/08/2025]  Open
8
Dillard KE, Zhang H, Dubbs LZ, Chou CW, Terrace C, Javanmardi K, Kim W, Forsberg KJ, Finkelstein IJ. Mechanism of Cas9 inhibition by AcrIIA11. Nucleic Acids Res 2025;53:gkaf318. [PMID: 40277083 PMCID: PMC12022753 DOI: 10.1093/nar/gkaf318] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2025] [Revised: 04/03/2025] [Accepted: 04/13/2025] [Indexed: 04/26/2025]  Open
9
Sherry J, Pawar KI, Dolat L, Smith E, Chang IC, Pha K, Kaake R, Swaney DL, Herrera C, McMahon E, Bastidas RJ, Johnson JR, Valdivia RH, Krogan NJ, Elwell CA, Verba K, Engel JN. The Chlamydia effector Dre1 binds dynactin to reposition host organelles during infection. Cell Rep 2025;44:115509. [PMID: 40186871 DOI: 10.1016/j.celrep.2025.115509] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2024] [Revised: 01/09/2025] [Accepted: 03/12/2025] [Indexed: 04/07/2025]  Open
10
Mietzsch M, Hsi J, Nelson AR, Khandekar N, Huang AM, Smith NJ, Zachary J, Potts L, Farrar MA, Chipman P, Ghanem M, Alexander IE, Logan GJ, Huiskonen JT, McKenna R. Structural characterization of antibody-responses following Zolgensma treatment for AAV capsid engineering to expand patient cohorts. Nat Commun 2025;16:3731. [PMID: 40253479 PMCID: PMC12009303 DOI: 10.1038/s41467-025-59088-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2024] [Accepted: 04/11/2025] [Indexed: 04/21/2025]  Open
11
Woollard G, Zhou W, Thiede EH, Lin C, Grigorieff N, Cossio P, Dao Duc K, Hanson SM. InstaMap: instant-NGP for cryo-EM density maps. Acta Crystallogr D Struct Biol 2025;81:147-169. [PMID: 40135651 PMCID: PMC11966239 DOI: 10.1107/s2059798325002025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2024] [Accepted: 03/03/2025] [Indexed: 03/27/2025]  Open
12
von Rosen T, Zdanowicz R, El Hadeg Y, Afanasyev P, Boehringer D, Leitner A, Glockshuber R, Weber-Ban E. Substrates bind to residues lining the ring of asymmetrically engaged bacterial proteasome activator Bpa. Nat Commun 2025;16:3042. [PMID: 40155375 PMCID: PMC11953334 DOI: 10.1038/s41467-025-58073-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Accepted: 03/12/2025] [Indexed: 04/01/2025]  Open
13
Ruma YN, Nannenga BL, Gonen T. Unraveling atomic complexity from frozen samples. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2025;12:020901. [PMID: 40255534 PMCID: PMC12009148 DOI: 10.1063/4.0000303] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/24/2025] [Accepted: 03/26/2025] [Indexed: 04/22/2025]
14
Ojha AA, Blackwell R, Cruz-Chú ER, Dsouza R, Astore MA, Schwander P, Hanson SM. The ManifoldEM method for cryo-EM: a step-by-step breakdown accompanied by a modern Python implementation. Acta Crystallogr D Struct Biol 2025;81:89-104. [PMID: 40019002 DOI: 10.1107/s2059798325001469] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2024] [Accepted: 02/17/2025] [Indexed: 03/01/2025]  Open
15
Zhang K, Cossio P, Rangan AV, Lucas BA, Grigorieff N. A new statistical metric for robust target detection in cryo-EM using 2D template matching. IUCRJ 2025;12:155-176. [PMID: 39819740 PMCID: PMC11878444 DOI: 10.1107/s2052252524011771] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2024] [Accepted: 12/03/2024] [Indexed: 01/19/2025]
16
Johnson A, Dodes Traian M, Walsh RM, Jenni S, Harrison SC. Octahedral small virus-like particles of dengue virus type 2. J Virol 2025;99:e0180924. [PMID: 39745459 PMCID: PMC11853069 DOI: 10.1128/jvi.01809-24] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2024] [Accepted: 12/02/2024] [Indexed: 02/26/2025]  Open
17
Howard MK, Hoppe N, Huang XP, Mitrovic D, Billesbølle CB, Macdonald CB, Mehrotra E, Rockefeller Grimes P, Trinidad DD, Delemotte L, English JG, Coyote-Maestas W, Manglik A. Molecular basis of proton sensing by G protein-coupled receptors. Cell 2025;188:671-687.e20. [PMID: 39753132 PMCID: PMC11849372 DOI: 10.1016/j.cell.2024.11.036] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2024] [Revised: 09/23/2024] [Accepted: 11/21/2024] [Indexed: 02/09/2025]
18
Farheen F, Terashi G, Zhu H, Kihara D. AI-based methods for biomolecular structure modeling for Cryo-EM. Curr Opin Struct Biol 2025;90:102989. [PMID: 39864242 PMCID: PMC11793015 DOI: 10.1016/j.sbi.2025.102989] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2024] [Revised: 12/29/2024] [Accepted: 01/04/2025] [Indexed: 01/28/2025]
19
Burton-Smith RN, Yagi-Utsumi M, Yanaka S, Song C, Murata K, Kato K. Elucidating the Unique J-Shaped Protomer Structure of Amyloid-β(1-40) Fibril with Cryo-Electron Microscopy. Int J Mol Sci 2025;26:1179. [PMID: 39940945 PMCID: PMC11817843 DOI: 10.3390/ijms26031179] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2024] [Revised: 01/13/2025] [Accepted: 01/22/2025] [Indexed: 02/16/2025]  Open
20
Bi M, Wang X, Wang J, Xu J, Sun W, Adediwura VA, Miao Y, Cheng Y, Ye L. Structure and function of a near fully-activated intermediate GPCR-Gαβγ complex. Nat Commun 2025;16:1100. [PMID: 39875358 PMCID: PMC11775185 DOI: 10.1038/s41467-025-56434-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2024] [Accepted: 01/20/2025] [Indexed: 01/30/2025]  Open
21
Qian C, Chen J, Yang Y, Lu Y, Ren T, Jiang Y, Huang Y, Chi X, Zhang S, Zhang C, Li K, Shen J, Zhang S, Wang D, Zhou L, Li T, Zheng Q, Yu H, Gu Y, Xia N, Li S. Rational design of a triple-type HPV53/56/66 vaccine with one preferable base particle incorporating two identified immunodominant sites. J Nanobiotechnology 2025;23:28. [PMID: 39828682 PMCID: PMC11744962 DOI: 10.1186/s12951-024-03080-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2024] [Accepted: 12/20/2024] [Indexed: 01/22/2025]  Open
22
Huang Y, Song F, Zeng Y, Sun H, Sheng R, Wang X, Liu L, Luo G, Jiang Y, Chen Y, Zhang M, Zhang S, Gu Y, Yu H, Li S, Li T, Zheng Q, Ge S, Zhang J, Xia N. A single residue switch mediates the broad neutralization of Rotaviruses. Nat Commun 2025;16:838. [PMID: 39833145 PMCID: PMC11746992 DOI: 10.1038/s41467-025-56114-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2024] [Accepted: 01/08/2025] [Indexed: 01/22/2025]  Open
23
Hassan A, Pinkas M, Yaeshima C, Ishino S, Uchiumi T, Ito K, Demo G. Novel archaeal ribosome dimerization factor facilitating unique 30S-30S dimerization. Nucleic Acids Res 2025;53:gkae1324. [PMID: 39797736 PMCID: PMC11724365 DOI: 10.1093/nar/gkae1324] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2024] [Revised: 12/17/2024] [Accepted: 12/30/2024] [Indexed: 01/13/2025]  Open
24
Liu YT, Fan H, Hu JJ, Zhou ZH. Overcoming the preferred-orientation problem in cryo-EM with self-supervised deep learning. Nat Methods 2025;22:113-123. [PMID: 39558095 DOI: 10.1038/s41592-024-02505-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2024] [Accepted: 10/10/2024] [Indexed: 11/20/2024]
25
Elferich J, Kong L, Zottig X, Grigorieff N. CTFFIND5 provides improved insight into quality, tilt, and thickness of TEM samples. eLife 2024;13:RP97227. [PMID: 39704651 DOI: 10.7554/elife.97227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2024]  Open
26
Rickgauer JP, Choi H, Moore AS, Denk W, Lippincott-Schwartz J. Structural dynamics of human ribosomes in situ reconstructed by exhaustive high-resolution template matching. Mol Cell 2024;84:4912-4928.e7. [PMID: 39626661 DOI: 10.1016/j.molcel.2024.11.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Revised: 07/29/2024] [Accepted: 11/06/2024] [Indexed: 12/13/2024]
27
Dagotto G, Fisher JL, Li D, Li Z, Jenni S, Li Z, Tartaglia LJ, Abbink P, Barouch DH. Identification of a novel neutralization epitope in rhesus AAVs. Mol Ther Methods Clin Dev 2024;32:101350. [PMID: 39469420 PMCID: PMC11513466 DOI: 10.1016/j.omtm.2024.101350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2024] [Accepted: 09/30/2024] [Indexed: 10/30/2024]
28
Mietzsch M, Kamat M, Basso K, Chipman P, Huiskonen JT, McKenna R. Structural characterization and epitope mapping of the AAVX affinity purification ligand. Mol Ther Methods Clin Dev 2024;32:101377. [PMID: 39677563 PMCID: PMC11638594 DOI: 10.1016/j.omtm.2024.101377] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2024] [Accepted: 11/08/2024] [Indexed: 12/17/2024]
29
Sholi E, Loveland AB, Korostelev AA. Assay for ribosome stimulation of angiogenin nuclease activity. Methods Enzymol 2024;711:381-404. [PMID: 39952716 PMCID: PMC11839171 DOI: 10.1016/bs.mie.2024.11.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/17/2025]
30
Ochner H, Böhning J, Wang Z, Tarafder AK, Caspy I, Bharat TAM. Structure of the Pseudomonas aeruginosa PAO1 Type IV pilus. PLoS Pathog 2024;20:e1012773. [PMID: 39666767 DOI: 10.1371/journal.ppat.1012773] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2024] [Revised: 12/26/2024] [Accepted: 11/25/2024] [Indexed: 12/14/2024]  Open
31
Li Y, Zhou Y, Yuan J, Ye F, Gu Q. CryoSTAR: leveraging structural priors and constraints for cryo-EM heterogeneous reconstruction. Nat Methods 2024;21:2318-2326. [PMID: 39472738 DOI: 10.1038/s41592-024-02486-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Accepted: 09/25/2024] [Indexed: 12/07/2024]
32
Bennett A, Hull JA, Mietzsch M, Bhattacharya N, Chipman P, McKenna R. Maize Streak Virus: Single and Gemini Capsid Architecture. Viruses 2024;16:1861. [PMID: 39772173 PMCID: PMC11680415 DOI: 10.3390/v16121861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2024] [Revised: 11/22/2024] [Accepted: 11/26/2024] [Indexed: 01/11/2025]  Open
33
Dang T, EswarKumar N, Tripathi SK, Yan C, Wang CH, Cao M, Paul TK, Agboluaje EO, Xiong MP, Ivanov I, Ho MC, Zheng YG. Oligomerization of protein arginine methyltransferase 1 and its functional impact on substrate arginine methylation. J Biol Chem 2024;300:107947. [PMID: 39491649 DOI: 10.1016/j.jbc.2024.107947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2024] [Revised: 10/20/2024] [Accepted: 10/23/2024] [Indexed: 11/05/2024]  Open
34
Garg P, Satheesh T, Ganji M, Dutta S. Cryo-EM Reveals the Mechanism of DNA Compaction by Mycobacterium smegmatis Dps2. J Mol Biol 2024;436:168806. [PMID: 39349276 DOI: 10.1016/j.jmb.2024.168806] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2024] [Revised: 09/25/2024] [Accepted: 09/25/2024] [Indexed: 10/02/2024]
35
Sarkar D, Khan AH, Polepalli S, Sarkar R, Das PK, Dutta S, Sahoo N, Bhunia A. Multiscale Materials Engineering via Self-Assembly of Pentapeptide Derivatives from SARS CoV E Protein. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024;20:e2404373. [PMID: 39011730 DOI: 10.1002/smll.202404373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2024] [Revised: 06/26/2024] [Indexed: 07/17/2024]
36
Cameron CJF, Seager SJH, Sigworth FJ, Tagare HD, Gerstein MB. REliable PIcking by Consensus (REPIC): a consensus methodology for harnessing multiple cryo-EM particle pickers. Commun Biol 2024;7:1421. [PMID: 39482410 PMCID: PMC11528043 DOI: 10.1038/s42003-024-07045-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2024] [Accepted: 10/10/2024] [Indexed: 11/03/2024]  Open
37
Comas-Garcia M. How structural biology has changed our understanding of icosahedral viruses. J Virol 2024;98:e0111123. [PMID: 39291975 PMCID: PMC11495149 DOI: 10.1128/jvi.01111-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/19/2024]  Open
38
Sun D, Storek KM, Tegunov D, Yang Y, Arthur CP, Johnson M, Quinn JG, Liu W, Han G, Girgis HS, Alexander MK, Murchison AK, Shriver S, Tam C, Ijiri H, Inaba H, Sano T, Yanagida H, Nishikawa J, Heise CE, Fairbrother WJ, Tan MW, Skelton N, Sandoval W, Sellers BD, Ciferri C, Smith PA, Reid PC, Cunningham CN, Rutherford ST, Payandeh J. The discovery and structural basis of two distinct state-dependent inhibitors of BamA. Nat Commun 2024;15:8718. [PMID: 39379361 PMCID: PMC11461620 DOI: 10.1038/s41467-024-52512-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Accepted: 09/09/2024] [Indexed: 10/10/2024]  Open
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Penzes JJ, Holm M, Yost SA, Kaelber JT. Cryo-EM-based discovery of a pathogenic parvovirus causing epidemic mortality by black wasting disease in farmed beetles. Cell 2024;187:5604-5619.e14. [PMID: 39208798 PMCID: PMC11781814 DOI: 10.1016/j.cell.2024.07.053] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 05/23/2024] [Accepted: 07/30/2024] [Indexed: 09/04/2024]
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Vargas J, Modrego A, Canabal H, Martin-Benito J. Semantic segmentation-based detection algorithm for challenging cryo-electron microscopy RNP samples. Front Mol Biosci 2024;11:1473609. [PMID: 39411403 PMCID: PMC11473350 DOI: 10.3389/fmolb.2024.1473609] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2024] [Accepted: 09/17/2024] [Indexed: 10/19/2024]  Open
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Lometto S, Sparvoli D, Malengo G, Heimerl T, Hochberg GKA. The mitochondrial citrate synthase from Tetrahymena thermophila does not form an intermediate filament. Eur J Protistol 2024;96:126121. [PMID: 39432950 DOI: 10.1016/j.ejop.2024.126121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2024] [Revised: 10/06/2024] [Accepted: 10/07/2024] [Indexed: 10/23/2024]
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Shen H, Lynch EM, Watson JL, Wu K, Bai H, Sheffler W, Derivery E, Kollman J, Baker D. Nucleation limited assembly and polarized growth of a de novo-designed allosterically modulatable protein filament. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.09.20.613980. [PMID: 39345553 PMCID: PMC11429946 DOI: 10.1101/2024.09.20.613980] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 10/01/2024]
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Fan C, Cowgill J, Howard RJ, Lindahl E. Divergent mechanisms of steroid inhibition in the human ρ1 GABAA receptor. Nat Commun 2024;15:7795. [PMID: 39242530 PMCID: PMC11379708 DOI: 10.1038/s41467-024-51904-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2024] [Accepted: 08/19/2024] [Indexed: 09/09/2024]  Open
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Abe KM, Li G, He Q, Grant T, Lim CJ. Small LEA proteins mitigate air-water interface damage to fragile cryo-EM samples during plunge freezing. Nat Commun 2024;15:7705. [PMID: 39231985 PMCID: PMC11375022 DOI: 10.1038/s41467-024-52091-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2024] [Accepted: 08/27/2024] [Indexed: 09/06/2024]  Open
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Liou SH, Boggavarapu R, Cohen NR, Zhang Y, Sharma I, Zeheb L, Mukund Acharekar N, Rodgers HD, Islam S, Pitts J, Arze C, Swaminathan H, Yozwiak N, Ong T, Hajjar RJ, Chang Y, Swanson KA, Delagrave S. Structure of anellovirus-like particles reveal a mechanism for immune evasion. Nat Commun 2024;15:7219. [PMID: 39174507 PMCID: PMC11341859 DOI: 10.1038/s41467-024-51064-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Accepted: 07/26/2024] [Indexed: 08/24/2024]  Open
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Nandi P, DeVore K, Wang F, Li S, Walker JD, Truong TT, LaPorte MG, Wipf P, Schlager H, McCleerey J, Paquette W, Columbres RCA, Gan T, Poh YP, Fromme P, Flint AJ, Wolf M, Huryn DM, Chou TF, Chiu PL. Mechanism of allosteric inhibition of human p97/VCP ATPase and its disease mutant by triazole inhibitors. Commun Chem 2024;7:177. [PMID: 39122922 PMCID: PMC11316111 DOI: 10.1038/s42004-024-01267-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2024] [Accepted: 08/01/2024] [Indexed: 08/12/2024]  Open
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Dutta M, Acharya P. Cryo-electron microscopy in the study of virus entry and infection. Front Mol Biosci 2024;11:1429180. [PMID: 39114367 PMCID: PMC11303226 DOI: 10.3389/fmolb.2024.1429180] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Accepted: 06/12/2024] [Indexed: 08/10/2024]  Open
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Ukleja M, Kricks L, Torrens G, Peschiera I, Rodrigues-Lopes I, Krupka M, García-Fernández J, Melero R, Del Campo R, Eulalio A, Mateus A, López-Bravo M, Rico AI, Cava F, Lopez D. Flotillin-mediated stabilization of unfolded proteins in bacterial membrane microdomains. Nat Commun 2024;15:5583. [PMID: 38961085 PMCID: PMC11222466 DOI: 10.1038/s41467-024-49951-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2024] [Accepted: 06/26/2024] [Indexed: 07/05/2024]  Open
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Benoit MPMH, Rao L, Asenjo AB, Gennerich A, Sosa H. Cryo-EM unveils kinesin KIF1A's processivity mechanism and the impact of its pathogenic variant P305L. Nat Commun 2024;15:5530. [PMID: 38956021 PMCID: PMC11219953 DOI: 10.1038/s41467-024-48720-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2024] [Accepted: 05/10/2024] [Indexed: 07/04/2024]  Open
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Bi M, Wang X, Wang J, Xu J, Sun W, Adediwura VA, Miao Y, Cheng Y, Ye L. Structure and function of a ligand-free GPCR-Gαβγ intermediate complex. RESEARCH SQUARE 2024:rs.3.rs-4566652. [PMID: 38978591 PMCID: PMC11230506 DOI: 10.21203/rs.3.rs-4566652/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/10/2024]
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