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For: Yaseen A, Nijim M, Williams B, Qian L, Li M, Wang J, Li Y. FLEXc: protein flexibility prediction using context-based statistics, predicted structural features, and sequence information. BMC Bioinformatics 2016;17 Suppl 8:281. [PMID: 27587065 PMCID: PMC5009531 DOI: 10.1186/s12859-016-1117-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]  Open
Number Cited by Other Article(s)
1
Zhang F, Li Z, Zhao K, Zhao P, Zhang G. Prediction of Inter-Residue Multiple Distances and Exploration of Protein Multiple Conformations by Deep Learning. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024;21:1731-1739. [PMID: 38857126 DOI: 10.1109/tcbb.2024.3411825] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2024]
2
Chandrasekhar G, Pengyong H, Pravallika G, Hailei L, Caixia X, Rajasekaran R. Defensin-based therapeutic peptide design in attenuating V30M TTR-induced Familial Amyloid Polyneuropathy. 3 Biotech 2023;13:227. [PMID: 37304406 PMCID: PMC10250285 DOI: 10.1007/s13205-023-03646-4] [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: 12/22/2022] [Accepted: 05/24/2023] [Indexed: 06/13/2023]  Open
3
Wang W, Su X, Liu D, Zhang H, Wang X, Zhou Y. Predicting DNA-binding protein and coronavirus protein flexibility using protein dihedral angle and sequence feature. Proteins 2023;91:497-507. [PMID: 36321218 PMCID: PMC9877568 DOI: 10.1002/prot.26443] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2022] [Revised: 09/07/2022] [Accepted: 10/20/2022] [Indexed: 11/07/2022]
4
Reverse vaccinology assisted design of a novel multi-epitope vaccine to target Wuchereria bancrofti cystatin: An immunoinformatics approach. Int Immunopharmacol 2023;115:109639. [PMID: 36586276 DOI: 10.1016/j.intimp.2022.109639] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 12/05/2022] [Accepted: 12/22/2022] [Indexed: 12/31/2022]
5
Li Q. Geometric basis of action potential of skeletal muscle cells and neurons. Open Life Sci 2022;17:1191-1199. [PMID: 36185399 PMCID: PMC9482420 DOI: 10.1515/biol-2022-0488] [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: 02/23/2022] [Revised: 07/19/2022] [Accepted: 07/28/2022] [Indexed: 11/15/2022]  Open
6
Carugo O. Uses and Abuses of the Atomic Displacement Parameters in Structural Biology. Methods Mol Biol 2022;2449:281-298. [PMID: 35507268 DOI: 10.1007/978-1-0716-2095-3_12] [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: 06/14/2023]
7
Wei H, Wang B, Yang J, Gao J. RNA Flexibility Prediction With Sequence Profile and Predicted Solvent Accessibility. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2021;18:2017-2022. [PMID: 31794403 DOI: 10.1109/tcbb.2019.2956496] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
8
Dalwani S, Lampela O, Leprovost P, Schmitz W, Juffer A, Wierenga RK, Venkatesan R. Substrate specificity and conformational flexibility properties of the Mycobacterium tuberculosis β-oxidation trifunctional enzyme. J Struct Biol 2021;213:107776. [PMID: 34371166 DOI: 10.1016/j.jsb.2021.107776] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Revised: 06/30/2021] [Accepted: 08/04/2021] [Indexed: 10/20/2022]
9
Schlick T, Portillo-Ledesma S, Myers CG, Beljak L, Chen J, Dakhel S, Darling D, Ghosh S, Hall J, Jan M, Liang E, Saju S, Vohr M, Wu C, Xu Y, Xue E. Biomolecular Modeling and Simulation: A Prospering Multidisciplinary Field. Annu Rev Biophys 2021;50:267-301. [PMID: 33606945 PMCID: PMC8105287 DOI: 10.1146/annurev-biophys-091720-102019] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
10
Vander Meersche Y, Cretin G, de Brevern AG, Gelly JC, Galochkina T. MEDUSA: Prediction of Protein Flexibility from Sequence. J Mol Biol 2021;433:166882. [PMID: 33972018 DOI: 10.1016/j.jmb.2021.166882] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2020] [Revised: 02/12/2021] [Accepted: 02/13/2021] [Indexed: 12/11/2022]
11
Marks C, Shi J, Deane CM. Predicting loop conformational ensembles. Bioinformatics 2018;34:949-956. [PMID: 29136084 DOI: 10.1093/bioinformatics/btx718] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2017] [Accepted: 11/09/2017] [Indexed: 12/23/2022]  Open
12
Vera R, Synsmir-Zizzamia M, Ojinnaka S, Snyder DA. Prediction of protein flexibility using a conformationally restrained contact map. Proteins 2018;86:1111-1116. [DOI: 10.1002/prot.25591] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2017] [Revised: 06/29/2018] [Accepted: 08/05/2018] [Indexed: 12/30/2022]
13
Siebert DCB, Wieder M, Schlener L, Scholze P, Boresch S, Langer T, Schnürch M, Mihovilovic MD, Richter L, Ernst M, Ecker GF. SAR-Guided Scoring Function and Mutational Validation Reveal the Binding Mode of CGS-8216 at the α1+/γ2- Benzodiazepine Site. J Chem Inf Model 2018;58:1682-1696. [PMID: 30028134 DOI: 10.1021/acs.jcim.8b00199] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
14
Guruge I, Taherzadeh G, Zhan J, Zhou Y, Yang Y. B -factor profile prediction for RNA flexibility using support vector machines. J Comput Chem 2017;39:407-411. [DOI: 10.1002/jcc.25124] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2017] [Accepted: 11/07/2017] [Indexed: 12/12/2022]
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