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For: Wu G, Gao Z, Dong A, Yu S. Calcium-induced changes in calmodulin structural dynamics and thermodynamics. Int J Biol Macromol 2012;50:1011-7. [DOI: 10.1016/j.ijbiomac.2012.02.017] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2011] [Revised: 02/12/2012] [Accepted: 02/16/2012] [Indexed: 01/29/2023]
Number Cited by Other Article(s)
1
Wei X, Huang W, Han Y, Chen L, Wang Y, Yu S, Yang F. Allosteric mechanism of synergistic effect in α- and β-amylase mixtures. Int J Biol Macromol 2024;280:135653. [PMID: 39278430 DOI: 10.1016/j.ijbiomac.2024.135653] [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: 07/08/2024] [Revised: 09/12/2024] [Accepted: 09/12/2024] [Indexed: 09/18/2024]
2
Bhattacharya S, Page A, Shinde P. Capecitabine loaded potato starch-chitosan nanoparticles: A novel approach for targeted therapy and improved outcomes in aggressive colon cancer. Eur J Pharm Biopharm 2024;200:114328. [PMID: 38763329 DOI: 10.1016/j.ejpb.2024.114328] [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: 02/07/2024] [Revised: 05/08/2024] [Accepted: 05/14/2024] [Indexed: 05/21/2024]
3
Huang Y, Zhang T, Hu H, Duan X, Wu K, Chai X, He D. Trans-cinnamaldehyde fumigation inhibits Escherichia coli by affecting the mechanism of intracellular biological macromolecules. Nat Prod Res 2024:1-12. [PMID: 38516726 DOI: 10.1080/14786419.2024.2331611] [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: 08/08/2023] [Accepted: 03/10/2024] [Indexed: 03/23/2024]
4
Shen H, Fu C, Zhang J, Feng B, Yu S. Protocol for determining protein dynamics using FT-IR spectroscopy. STAR Protoc 2023;4:102587. [PMID: 38043057 PMCID: PMC10701451 DOI: 10.1016/j.xpro.2023.102587] [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: 05/11/2023] [Revised: 07/05/2023] [Accepted: 08/31/2023] [Indexed: 12/05/2023]  Open
5
Zhang J, Zhou F, Liang X, Yang G. SCAMPER: Accurate Type-Specific Prediction of Calcium-Binding Residues Using Sequence-Derived Features. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2023;20:1406-1416. [PMID: 35536812 DOI: 10.1109/tcbb.2022.3173437] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
6
Stewart AM, Shanmugam M, Kutta RJ, Scrutton NS, Lovett JE, Hay S. Combined Pulsed Electron Double Resonance EPR and Molecular Dynamics Investigations of Calmodulin Suggest Effects of Crowding Agents on Protein Structures. Biochemistry 2022;61:1735-1742. [PMID: 35979922 PMCID: PMC9454100 DOI: 10.1021/acs.biochem.2c00099] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
7
Structural and functional properties of soluble Antarctic krill proteins covalently modified by rutin. Food Chem 2022;379:132159. [DOI: 10.1016/j.foodchem.2022.132159] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2021] [Revised: 01/10/2022] [Accepted: 01/12/2022] [Indexed: 12/31/2022]
8
Yang S, Zhang Q, Yang H, Shi H, Dong A, Wang L, Yu S. Progress in infrared spectroscopy as an efficient tool for predicting protein secondary structure. Int J Biol Macromol 2022;206:175-187. [PMID: 35217087 DOI: 10.1016/j.ijbiomac.2022.02.104] [Citation(s) in RCA: 52] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Revised: 02/14/2022] [Accepted: 02/17/2022] [Indexed: 12/21/2022]
9
Zhang N, Zhou S, Ji HH, Li XD. Effects of the IQ1 motif of Drosophila myosin-5 on the calcium interaction of calmodulin. Cell Calcium 2022;103:102549. [DOI: 10.1016/j.ceca.2022.102549] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 01/24/2022] [Accepted: 02/02/2022] [Indexed: 11/26/2022]
10
Nde J, Zhang P, Ezerski JC, Lu W, Knapp K, Wolynes PG, Cheung MS. Coarse-Grained Modeling and Molecular Dynamics Simulations of Ca2+-Calmodulin. Front Mol Biosci 2021;8:661322. [PMID: 34504868 PMCID: PMC8421859 DOI: 10.3389/fmolb.2021.661322] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2021] [Accepted: 07/21/2021] [Indexed: 12/21/2022]  Open
11
Bakhsheshi-Rad HR, Ismail AF, Aziz M, Akbari M, Hadisi Z, Omidi M, Chen X. Development of the PVA/CS nanofibers containing silk protein sericin as a wound dressing: In vitro and in vivo assessment. Int J Biol Macromol 2020;149:513-521. [PMID: 31954780 DOI: 10.1016/j.ijbiomac.2020.01.139] [Citation(s) in RCA: 96] [Impact Index Per Article: 24.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Revised: 01/12/2020] [Accepted: 01/13/2020] [Indexed: 02/09/2023]
12
Trande M, Pedretti M, Bonza MC, Di Matteo A, D'Onofrio M, Dominici P, Astegno A. Cation and peptide binding properties of CML7, a calmodulin-like protein from Arabidopsis thaliana. J Inorg Biochem 2019;199:110796. [PMID: 31419675 DOI: 10.1016/j.jinorgbio.2019.110796] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Revised: 07/26/2019] [Accepted: 07/31/2019] [Indexed: 12/12/2022]
13
Wei CC, Fabry E, Hay E, Lloyd L, Kaufman N, Yang YP, Stuehr DJ. Metal binding and conformational studies of the calcium binding domain of NADPH oxidase 5 reveal its similarity and difference to calmodulin. J Biomol Struct Dyn 2019;38:2352-2368. [DOI: 10.1080/07391102.2019.1633409] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
14
Zhao L, Lai L, Zhang Z. How calcium ion binding induces the conformational transition of the calmodulin N-terminal domain—an atomic level characterization. Phys Chem Chem Phys 2019;21:19795-19804. [DOI: 10.1039/c9cp03917a] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
15
Lin L, Liu C, Nayak BC, He W, You M, Yuchi Z. A two-step purification strategy using calmodulin as an affinity tag. J Chromatogr A 2018;1544:16-22. [PMID: 29499842 DOI: 10.1016/j.chroma.2018.02.045] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2017] [Revised: 02/01/2018] [Accepted: 02/21/2018] [Indexed: 11/19/2022]
16
Zhang J, Zhang X, Zhang F, Yu S. Solid-film sampling method for the determination of protein secondary structure by Fourier transform infrared spectroscopy. Anal Bioanal Chem 2017;409:4459-4465. [PMID: 28526999 DOI: 10.1007/s00216-017-0390-y] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2017] [Revised: 04/23/2017] [Accepted: 05/02/2017] [Indexed: 10/19/2022]
17
Lin Z, Hu R, Zhou J, Ye Y, Xu Z, Lin C. A further insight into the adsorption mechanism of protein on hydroxyapatite by FTIR-ATR spectrometry. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017;173:527-531. [PMID: 27744063 DOI: 10.1016/j.saa.2016.09.050] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2016] [Revised: 08/24/2016] [Accepted: 09/26/2016] [Indexed: 06/06/2023]
18
Makiyama RK, Fernandes CAH, Dreyer TR, Moda BS, Matioli FF, Fontes MRM, Maia IG. Structural and thermodynamic studies of the tobacco calmodulin-like rgs-CaM protein. Int J Biol Macromol 2016;92:1288-1297. [PMID: 27514444 DOI: 10.1016/j.ijbiomac.2016.08.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2016] [Revised: 07/08/2016] [Accepted: 08/07/2016] [Indexed: 11/23/2022]
19
Calmodulin in complex with the first IQ motif of myosin-5a functions as an intact calcium sensor. Proc Natl Acad Sci U S A 2016;113:E5812-E5820. [PMID: 27647889 DOI: 10.1073/pnas.1607702113] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]  Open
20
Astegno A, La Verde V, Marino V, Dell'Orco D, Dominici P. Biochemical and biophysical characterization of a plant calmodulin: Role of the N- and C-lobes in calcium binding, conformational change, and target interaction. BIOCHIMICA ET BIOPHYSICA ACTA 2016;1864:297-307. [PMID: 26708477 DOI: 10.1016/j.bbapap.2015.12.003] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 11/29/2015] [Accepted: 12/09/2015] [Indexed: 12/22/2022]
21
Thermodynamics of Calcium binding to the Calmodulin N-terminal domain to evaluate site-specific affinity constants and cooperativity. J Biol Inorg Chem 2015;20:905-19. [DOI: 10.1007/s00775-015-1275-1] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2015] [Accepted: 05/31/2015] [Indexed: 10/23/2022]
22
Yu Y, Wang J, Shao Q, Shi J, Zhu W. Increasing the sampling efficiency of protein conformational transition using velocity-scaling optimized hybrid explicit/implicit solvent REMD simulation. J Chem Phys 2015;142:125105. [PMID: 25833612 DOI: 10.1063/1.4916118] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
23
Optimized orthogonal translation of unnatural amino acids enables spontaneous protein double-labelling and FRET. Nat Chem 2014;6:393-403. [PMID: 24755590 DOI: 10.1038/nchem.1919] [Citation(s) in RCA: 203] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2013] [Accepted: 03/12/2014] [Indexed: 12/13/2022]
24
Zhao Y, Yang H, Meng K, Yu S. Probing the Ca2+/CaM-induced secondary structural and conformational changes in calcineurin. Int J Biol Macromol 2014;64:453-7. [DOI: 10.1016/j.ijbiomac.2013.12.036] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2013] [Revised: 12/24/2013] [Accepted: 12/27/2013] [Indexed: 10/25/2022]
25
Wang J, Shao Q, Xu Z, Liu Y, Yang Z, Cossins BP, Jiang H, Chen K, Shi J, Zhu W. Exploring transition pathway and free-energy profile of large-scale protein conformational change by combining normal mode analysis and umbrella sampling molecular dynamics. J Phys Chem B 2013;118:134-43. [PMID: 24350625 DOI: 10.1021/jp4105129] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
26
Potvin-Fournier K, Lefèvre T, Picard-Lafond A, Valois-Paillard G, Cantin L, Salesse C, Auger M. The thermal stability of recoverin depends on calcium binding and its myristoyl moiety as revealed by infrared spectroscopy. Biochemistry 2013;53:48-56. [PMID: 24359287 DOI: 10.1021/bi401336g] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
27
Li F, Yu T, Yu S. Structural dynamic and thermodynamic analysis of calcineurin B subunit induced by calcium/magnesium binding. Int J Biol Macromol 2013;60:122-7. [DOI: 10.1016/j.ijbiomac.2013.05.009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2013] [Revised: 05/10/2013] [Accepted: 05/13/2013] [Indexed: 10/26/2022]
28
Das A, Chakrabarti J, Ghosh M. Conformational thermodynamics of metal-ion binding to a protein. Chem Phys Lett 2013. [DOI: 10.1016/j.cplett.2013.07.022] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
29
Overestimated accuracy of circular dichroism in determining protein secondary structure. EUROPEAN BIOPHYSICS JOURNAL: EBJ 2013;42:455-61. [PMID: 23467783 DOI: 10.1007/s00249-013-0896-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2012] [Revised: 01/22/2013] [Accepted: 02/19/2013] [Indexed: 10/27/2022]
30
Calcium-dependent conformational transition of calmodulin determined by Fourier transform infrared spectroscopy. Int J Biol Macromol 2013;56:57-61. [PMID: 23403030 DOI: 10.1016/j.ijbiomac.2013.02.004] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2012] [Revised: 02/01/2013] [Accepted: 02/01/2013] [Indexed: 11/21/2022]
31
Nara M, Morii H, Tanokura M. Coordination to divalent cations by calcium-binding proteins studied by FTIR spectroscopy. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2012. [PMID: 23201542 DOI: 10.1016/j.bbamem.2012.11.025] [Citation(s) in RCA: 85] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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