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For: Uversky VN, Oldfield CJ, Dunker AK. Intrinsically disordered proteins in human diseases: introducing the D2 concept. Annu Rev Biophys 2008;37:215-46. [PMID: 18573080 DOI: 10.1146/annurev.biophys.37.032807.125924] [Citation(s) in RCA: 1093] [Impact Index Per Article: 64.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Number Cited by Other Article(s)
1
Lazar T, Connor A, DeLisle CF, Burger V, Tompa P. Targeting protein disorder: the next hurdle in drug discovery. Nat Rev Drug Discov 2025:10.1038/s41573-025-01220-6. [PMID: 40490488 DOI: 10.1038/s41573-025-01220-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/08/2025] [Indexed: 06/11/2025]
2
Páez-Pérez ED, Llamas-García ML, Montero-Morán GM, Lara-González S. The C-terminal end of PLIN1 displays structural disorder. Biochem Biophys Rep 2025;42:101963. [PMID: 40109298 PMCID: PMC11914984 DOI: 10.1016/j.bbrep.2025.101963] [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: 12/19/2024] [Revised: 02/24/2025] [Accepted: 02/24/2025] [Indexed: 03/22/2025]  Open
3
Sun Q, Wang H, Xie J, Wang L, Mu J, Li J, Ren Y, Lai L. Computer-Aided Drug Discovery for Undruggable Targets. Chem Rev 2025. [PMID: 40423592 DOI: 10.1021/acs.chemrev.4c00969] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/28/2025]
4
Granik N, Goldberg S, Amit R. Formation of Polyphasic RNP Granules by Intrinsically Disordered Qβ Coat Proteins and Hairpin-Containing RNA. ACS Synth Biol 2025. [PMID: 40400233 DOI: 10.1021/acssynbio.4c00891] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/23/2025]
5
Patel R, Loverde SM. Unveiling the Conformational Dynamics of the Histone Tails Using Markov State Modeling. J Chem Theory Comput 2025;21:4921-4938. [PMID: 40289377 PMCID: PMC12080106 DOI: 10.1021/acs.jctc.5c00196] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2025] [Revised: 04/21/2025] [Accepted: 04/22/2025] [Indexed: 04/30/2025]
6
Shukla S, Lastorka SS, Uversky VN. Intrinsic Disorder and Phase Separation Coordinate Exocytosis, Motility, and Chromatin Remodeling in the Human Acrosomal Proteome. Proteomes 2025;13:16. [PMID: 40407495 PMCID: PMC12101322 DOI: 10.3390/proteomes13020016] [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: 01/15/2025] [Revised: 04/23/2025] [Accepted: 04/25/2025] [Indexed: 05/26/2025]  Open
7
Vangala VNP, Uversky VN. Intrinsic disorder in protein interaction networks linking cancer with metabolic diseases. Comput Biol Chem 2025;118:108493. [PMID: 40319601 DOI: 10.1016/j.compbiolchem.2025.108493] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2025] [Revised: 04/20/2025] [Accepted: 04/24/2025] [Indexed: 05/07/2025]
8
Chen Y, Yin J, Liu Y, Huang Y, Zong W, Tan R. Molecular mechanism of the effect of ZnCl2 and MgCl2 solution on the conformation of the tau267-312 monomer. SOFT MATTER 2025;21:3092-3100. [PMID: 40165595 DOI: 10.1039/d4sm01546k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/02/2025]
9
Martin LJ, Lee JK, Niedzwiecki MV, Amrein Almira A, Javdan C, Chen MW, Olberding V, Brown SM, Park D, Yohannan S, Putcha H, Zheng B, Garrido A, Benderoth J, Kisner C, Ghaemmaghami J, Northington FJ, Kratimenos P. Hypothermia Shifts Neurodegeneration Phenotype in Neonatal Human Hypoxic-Ischemic Encephalopathy but Not in Related Piglet Models: Possible Relationship to Toxic Conformer and Intrinsically Disordered Prion-like Protein Accumulation. Cells 2025;14:586. [PMID: 40277911 PMCID: PMC12025496 DOI: 10.3390/cells14080586] [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: 03/14/2025] [Revised: 04/03/2025] [Accepted: 04/10/2025] [Indexed: 04/26/2025]  Open
10
Tagliaferro G, Davighi MG, Clemente F, Turchi F, Schiavina M, Matassini C, Goti A, Morrone A, Pierattelli R, Cardona F, Felli IC. Evidence of α-Synuclein/Glucocerebrosidase Dual Targeting by Iminosugar Derivatives. ACS Chem Neurosci 2025;16:1251-1257. [PMID: 40079830 PMCID: PMC11969434 DOI: 10.1021/acschemneuro.4c00618] [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: 09/18/2024] [Revised: 03/07/2025] [Accepted: 03/07/2025] [Indexed: 03/15/2025]  Open
11
Antonietti M, Kim CK, Granack S, Hadzijahic N, Taylor Gonzalez DJ, Herskowitz WR, Uversky VN, Djulbegovic MB. An Analysis of Intrinsic Protein Disorder in Antimicrobial Peptides. Protein J 2025;44:175-191. [PMID: 39979561 PMCID: PMC11937183 DOI: 10.1007/s10930-025-10253-0] [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] [Accepted: 01/31/2025] [Indexed: 02/22/2025]
12
Bogin BA, Levine ZA. Drugging Disordered Proteins by Conformational Selection to Inform Therapeutic Intervention. J Chem Theory Comput 2025;21:3204-3215. [PMID: 40029731 DOI: 10.1021/acs.jctc.4c01160] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/26/2025]
13
Humberg C, Yilmaz Z, Fitzian K, Dörner W, Kümmel D, Mootz HD. A cysteine-less and ultra-fast split intein rationally engineered from being aggregation-prone to highly efficient in protein trans-splicing. Nat Commun 2025;16:2723. [PMID: 40108172 PMCID: PMC11923092 DOI: 10.1038/s41467-025-57596-x] [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: 12/21/2024] [Accepted: 02/26/2025] [Indexed: 03/22/2025]  Open
14
Yang L, Wang Y, Shang P, Ma G. Dual-Functional Synthetic Linear and Cyclic Peptides with Anti-Amyloid and Antimicrobial Activities for Alzheimer's Disease. Chemistry 2025;31:e202404349. [PMID: 39932239 DOI: 10.1002/chem.202404349] [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: 02/10/2025] [Indexed: 02/21/2025]
15
Suresh A, Schweitzer-Stenner R, Urbanc B. Amber ff24EXP-GA, Based on Empirical Ramachandran Distributions of Glycine and Alanine Residues in Water. J Chem Theory Comput 2025;21:2515-2534. [PMID: 39979079 PMCID: PMC11912210 DOI: 10.1021/acs.jctc.4c01450] [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: 10/28/2024] [Revised: 02/04/2025] [Accepted: 02/07/2025] [Indexed: 02/22/2025]
16
Song X, Wang D, Ji J, Weng J, Wang W. Structural Heterogeneity of Intermediate States Facilitates CRIPT Peptide Binding to the PDZ3 Domain: Insights from Molecular Dynamics and Markov State Model Analysis. J Chem Theory Comput 2025;21:2668-2682. [PMID: 39984297 DOI: 10.1021/acs.jctc.4c01308] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/23/2025]
17
Erdős G, Deutsch N, Dosztányi Z. AIUPred - Binding: Energy Embedding to Identify Disordered Binding Regions. J Mol Biol 2025:169071. [PMID: 40133781 DOI: 10.1016/j.jmb.2025.169071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2024] [Revised: 02/25/2025] [Accepted: 03/03/2025] [Indexed: 03/27/2025]
18
Xie J, Jin X, Wei H, Sun S, Liu Y. IDP-EDL: enhancing intrinsically disordered protein prediction by combining protein language model and ensemble deep learning. Brief Bioinform 2025;26:bbaf182. [PMID: 40254833 PMCID: PMC12009716 DOI: 10.1093/bib/bbaf182] [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: 10/10/2024] [Revised: 02/26/2025] [Accepted: 03/30/2025] [Indexed: 04/22/2025]  Open
19
Fantini J, Azzaz F, Di Scala C, Aulas A, Chahinian H, Yahi N. Conformationally adaptive therapeutic peptides for diseases caused by intrinsically disordered proteins (IDPs). New paradigm for drug discovery: Target the target, not the arrow. Pharmacol Ther 2025;267:108797. [PMID: 39828029 DOI: 10.1016/j.pharmthera.2025.108797] [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: 09/01/2024] [Revised: 11/28/2024] [Accepted: 01/10/2025] [Indexed: 01/22/2025]
20
Kiouri DP, Batsis GC, Mavromoustakos T, Giuliani A, Chasapis CT. Structure-Based Modeling of the Gut Bacteria-Host Interactome Through Statistical Analysis of Domain-Domain Associations Using Machine Learning. BIOTECH 2025;14:13. [PMID: 40227324 PMCID: PMC11940256 DOI: 10.3390/biotech14010013] [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: 01/08/2025] [Revised: 02/16/2025] [Accepted: 02/21/2025] [Indexed: 04/15/2025]  Open
21
Pajkos M, Clerc I, Zanon C, Bernadó P, Cortés J. AFflecto: A web server to generate conformational ensembles of flexible proteins from AlphaFold models. J Mol Biol 2025:169003. [PMID: 40133775 DOI: 10.1016/j.jmb.2025.169003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2024] [Revised: 02/04/2025] [Accepted: 02/10/2025] [Indexed: 03/27/2025]
22
Chaurasiya D, Mondal R, Lahiri T, Tripathi A, Ghinmine T. IDPpred: a new sequence-based predictor for identification of intrinsically disordered protein with enhanced accuracy. J Biomol Struct Dyn 2025;43:957-965. [PMID: 38079339 DOI: 10.1080/07391102.2023.2290615] [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: 07/27/2023] [Accepted: 11/15/2023] [Indexed: 01/01/2025]
23
Yang W, Du Q, Zhou X, Wu C, Bao J. PDFll: Predictors of Disorder and Function of Proteins from the Language of Life. J Comput Biol 2025;32:143-155. [PMID: 39246251 DOI: 10.1089/cmb.2024.0506] [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] [Indexed: 09/10/2024]  Open
24
Sahoo S, Bandyopadhyay S. Investigating the Restricted Dynamical Environment in and Around Aβ Peptide Oligomers in Aqueous Ionic Liquid Solutions. J Phys Chem B 2025;129:1214-1228. [PMID: 39810736 DOI: 10.1021/acs.jpcb.4c07336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2025]
25
Hassan MN, Hussain M, Khan RH. Strategies for inhibiting amyloid fibrillation: Current status and future prospects. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2025;211:145-168. [PMID: 39947747 DOI: 10.1016/bs.pmbts.2024.09.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2025]
26
Chatterjee H, Sengupta N. Molecular crowding and amyloidogenic self-assembly: Emergent perspectives from modern computations. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2025;211:209-247. [PMID: 39947750 DOI: 10.1016/bs.pmbts.2024.10.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2025]
27
Liu Z, Thirumalai D. Impact of Guanidinium Hydrochloride on the Shapes of Prothymosin-α and α-Synuclein Is Dramatically Different. Biochemistry 2025;64:105-113. [PMID: 39718971 DOI: 10.1021/acs.biochem.4c00654] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2024]
28
Zhang S, Owyong TC, Sanislav O, Englmaier L, Sui X, Wang G, Greening DW, Williamson NA, Villunger A, White JM, Heras B, Wong WWH, Fisher PR, Hong Y. Global analysis of endogenous protein disorder in cells. Nat Methods 2025;22:124-134. [PMID: 39587358 DOI: 10.1038/s41592-024-02507-z] [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: 03/30/2024] [Accepted: 10/14/2024] [Indexed: 11/27/2024]
29
Rackovsky S. Techniques for Bioinformatic Applications in Protein Dynamics. Methods Mol Biol 2025;2870:221-226. [PMID: 39543037 DOI: 10.1007/978-1-0716-4213-9_11] [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] [Indexed: 11/17/2024]
30
Song J, Kurgan L. Two decades of advances in sequence-based prediction of MoRFs, disorder-to-order transitioning binding regions. Expert Rev Proteomics 2025;22:1-9. [PMID: 39789785 DOI: 10.1080/14789450.2025.2451715] [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: 10/31/2024] [Revised: 12/20/2024] [Accepted: 12/26/2024] [Indexed: 01/12/2025]
31
Ahmed IMM, Rofe A, Henry MC, West E, Jamieson C, McEwan IJ, Beveridge R. Ion mobility mass spectrometry unveils conformational effects of drug lead EPI-001 on the intrinsically disordered N-terminal domain of the androgen receptor. Protein Sci 2025;34:e5254. [PMID: 39665260 PMCID: PMC11635395 DOI: 10.1002/pro.5254] [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: 08/28/2024] [Revised: 11/21/2024] [Accepted: 11/27/2024] [Indexed: 12/13/2024]
32
Menon S, Adhikari S, Mondal J. An integrated machine learning approach delineates an entropic expansion mechanism for the binding of a small molecule to α-synuclein. eLife 2024;13:RP97709. [PMID: 39693390 DOI: 10.7554/elife.97709] [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: 12/20/2024]  Open
33
Cehlar O, Njemoga S, Horvath M, Cizmazia E, Bednarikova Z, Barrera EE. Structures of Oligomeric States of Tau Protein, Amyloid-β, α-Synuclein and Prion Protein Implicated in Alzheimer's Disease, Parkinson's Disease and Prionopathies. Int J Mol Sci 2024;25:13049. [PMID: 39684761 DOI: 10.3390/ijms252313049] [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: 10/31/2024] [Revised: 11/29/2024] [Accepted: 12/01/2024] [Indexed: 12/18/2024]  Open
34
Bello-Madruga R, Torrent Burgas M. The limits of prediction: Why intrinsically disordered regions challenge our understanding of antimicrobial peptides. Comput Struct Biotechnol J 2024;23:972-981. [PMID: 38404711 PMCID: PMC10884422 DOI: 10.1016/j.csbj.2024.02.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 02/10/2024] [Accepted: 02/10/2024] [Indexed: 02/27/2024]  Open
35
Basu S, Kurgan L. Taxonomy-specific assessment of intrinsic disorder predictions at residue and region levels in higher eukaryotes, protists, archaea, bacteria and viruses. Comput Struct Biotechnol J 2024;23:1968-1977. [PMID: 38765610 PMCID: PMC11098722 DOI: 10.1016/j.csbj.2024.04.059] [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: 02/05/2024] [Revised: 04/23/2024] [Accepted: 04/24/2024] [Indexed: 05/22/2024]  Open
36
Baratam K, Srivastava A. SOP-MULTI: A Self-Organized Polymer-Based Coarse-Grained Model for Multidomain and Intrinsically Disordered Proteins with Conformation Ensemble Consistent with Experimental Scattering Data. J Chem Theory Comput 2024;20:10179-10198. [PMID: 39499823 DOI: 10.1021/acs.jctc.4c00579] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2024]
37
Sarkar S, Mondal J. How Salt and Temperature Drive Reentrant Condensation of Aβ40. Biochemistry 2024;63:3030-3044. [PMID: 39466031 DOI: 10.1021/acs.biochem.4c00412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/29/2024]
38
Paul S, Biswas P. Dimerization of Full-Length Aβ-42 Peptide: A Comparison of Different Force Fields and Water Models. Chemphyschem 2024;25:e202400502. [PMID: 38949117 DOI: 10.1002/cphc.202400502] [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: 05/01/2024] [Revised: 06/05/2024] [Accepted: 06/27/2024] [Indexed: 07/02/2024]
39
Wang J, Liu Y, Tian B. Protein-small molecule binding site prediction based on a pre-trained protein language model with contrastive learning. J Cheminform 2024;16:125. [PMID: 39506806 PMCID: PMC11542454 DOI: 10.1186/s13321-024-00920-2] [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: 06/04/2024] [Accepted: 10/20/2024] [Indexed: 11/08/2024]  Open
40
Menon S, Mondal J. Simulating the anti-aggregative effect of fasudil in early dimerisation process of α-synuclein. Biophys Chem 2024;314:107319. [PMID: 39232485 DOI: 10.1016/j.bpc.2024.107319] [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: 06/26/2024] [Revised: 08/23/2024] [Accepted: 08/29/2024] [Indexed: 09/06/2024]
41
Cui X, Zheng Z, Rahman MU, Hong X, Ji X, Li Z, Chen HF. Drude2019IDPC polarizable force field reveals structure-function relationship of insulin. Int J Biol Macromol 2024;280:136256. [PMID: 39366599 DOI: 10.1016/j.ijbiomac.2024.136256] [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: 06/24/2024] [Revised: 09/30/2024] [Accepted: 10/01/2024] [Indexed: 10/06/2024]
42
Uversky VN. How to drug a cloud? Targeting intrinsically disordered proteins. Pharmacol Rev 2024;77:PHARMREV-AR-2023-001113. [PMID: 39433443 DOI: 10.1124/pharmrev.124.001113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2024] [Revised: 10/03/2024] [Accepted: 10/15/2024] [Indexed: 10/23/2024]  Open
43
Knödlstorfer S, Schiavina M, Rodella MA, Ledolter K, Konrat R, Pierattelli R, Felli IC. Disentangling the Complexity in Protein Complexes Using Complementary Isotope-Labeling and Multiple-Receiver NMR Spectroscopy. J Am Chem Soc 2024;146:27983-27987. [PMID: 39374115 PMCID: PMC11523233 DOI: 10.1021/jacs.4c09176] [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: 07/07/2024] [Revised: 09/30/2024] [Accepted: 09/30/2024] [Indexed: 10/09/2024]
44
Le SP, Krishna J, Gupta P, Dutta R, Li S, Chen J, Thayumanavan S. Polymers for Disrupting Protein-Protein Interactions: Where Are We and Where Should We Be? Biomacromolecules 2024;25:6229-6249. [PMID: 39254158 PMCID: PMC12023540 DOI: 10.1021/acs.biomac.4c00850] [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: 09/11/2024]
45
Yoon J, Jo Y, Shin S. Understanding Antimicrobial Peptide Synergy: Differential Binding Interactions and Their Impact on Membrane Integrity. J Phys Chem B 2024;128:9756-9771. [PMID: 39347577 DOI: 10.1021/acs.jpcb.4c03766] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/01/2024]
46
Hurali DT, Banerjee M, Ballal A. Unravelling the involvement of protein disorder in cyanobacterial stress responses. Int J Biol Macromol 2024;277:133934. [PMID: 39025183 DOI: 10.1016/j.ijbiomac.2024.133934] [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: 05/10/2024] [Revised: 07/09/2024] [Accepted: 07/15/2024] [Indexed: 07/20/2024]
47
Kombo DC, LaMarche MJ, Konkankit CC, Rackovsky S. Application of artificial intelligence and machine learning techniques to the analysis of dynamic protein sequences. Proteins 2024;92:1234-1241. [PMID: 38808365 PMCID: PMC11511649 DOI: 10.1002/prot.26704] [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: 02/23/2024] [Revised: 05/07/2024] [Accepted: 05/13/2024] [Indexed: 05/30/2024]
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Liu AY, Mathew A, Karim C, Eshak P, Chen KY. Regulation of the structural dynamics, aggregation, and pathogenicity of polyQ-expanded Huntingtin by osmolytes. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2024;211:113-143. [PMID: 39947746 DOI: 10.1016/bs.pmbts.2024.08.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2025]
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Heredia-Torrejón M, Montañez R, González-Meneses A, Carcavilla A, Medina MA, Lechuga-Sancho AM. VUS next in rare diseases? Deciphering genetic determinants of biomolecular condensation. Orphanet J Rare Dis 2024;19:327. [PMID: 39243101 PMCID: PMC11380411 DOI: 10.1186/s13023-024-03307-6] [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: 08/21/2023] [Accepted: 08/06/2024] [Indexed: 09/09/2024]  Open
50
Kliche J, Simonetti L, Krystkowiak I, Kuss H, Diallo M, Rask E, Nilsson J, Davey NE, Ivarsson Y. Proteome-scale characterisation of motif-based interactome rewiring by disease mutations. Mol Syst Biol 2024;20:1025-1048. [PMID: 39009827 PMCID: PMC11369174 DOI: 10.1038/s44320-024-00055-4] [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: 09/15/2023] [Revised: 06/14/2024] [Accepted: 06/28/2024] [Indexed: 07/17/2024]  Open
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