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For: Especial JNC, Faísca PFN. A Specific Set of Heterogeneous Native Interactions Yields Efficient Knotting in Protein Folding. J Phys Chem B 2021;125:7359-7367. [PMID: 34197706 DOI: 10.1021/acs.jpcb.1c03127] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Number Cited by Other Article(s)
1
Thakuria S, Paul S. Discrepant Effects of Hydrated and Neat Reline on the Conformational Stability of a Knotted Protein. J Phys Chem B 2025;129:4629-4640. [PMID: 40310665 DOI: 10.1021/acs.jpcb.5c00148] [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: 05/02/2025]
2
Begun AM, Korneev AA, Zorina AV. Effect of a Knot on the Thermal Stability of Protein MJ0366: Insights into Molecular Dynamics and Monte Carlo Simulations. J Phys Chem B 2025;129:3939-3947. [PMID: 40208585 DOI: 10.1021/acs.jpcb.4c07910] [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: 04/11/2025]
3
Especial JNC, Faísca PFN. Effects of sequence-dependent non-native interactions in equilibrium and kinetic folding properties of knotted proteins. J Chem Phys 2023;159:065101. [PMID: 37551809 DOI: 10.1063/5.0160886] [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: 06/06/2023] [Accepted: 07/24/2023] [Indexed: 08/09/2023]  Open
4
Dahlstrom TJ, Capraro DT, Jennings PA, Finke JM. Knotting Optimization and Folding Pathways of a Go-Model with a Deep Knot. J Phys Chem B 2022;126:10221-10236. [PMID: 36424347 DOI: 10.1021/acs.jpcb.2c05588] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
5
A Note on the Effects of Linear Topology Preservation in Monte Carlo Simulations of Knotted Proteins. Int J Mol Sci 2022;23:ijms232213871. [PMID: 36430350 PMCID: PMC9695063 DOI: 10.3390/ijms232213871] [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: 10/17/2022] [Revised: 11/07/2022] [Accepted: 11/08/2022] [Indexed: 11/12/2022]  Open
6
Wang J, Peng X. In silico method for identifying the key residues in a knotted protein: with MJ0366 as an example. Phys Chem Chem Phys 2022;24:27495-27504. [DOI: 10.1039/d2cp03589h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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