172 related articles for article (PubMed ID: 25267310)
1. Comparing the intrinsic dynamics of multiple protein structures using elastic network models.
Fuglebakk E; Tiwari SP; Reuter N
Biochim Biophys Acta; 2015 May; 1850(5):911-922. PubMed ID: 25267310
[TBL] [Abstract][Full Text] [Related]
2. Towards fast, rigorous and efficient conformational sampling of biomolecules: Advances in accelerated molecular dynamics.
Doshi U; Hamelberg D
Biochim Biophys Acta; 2015 May; 1850(5):878-888. PubMed ID: 25153688
[TBL] [Abstract][Full Text] [Related]
3. Coupled binding-bending-folding: The complex conformational dynamics of protein-DNA binding studied by atomistic molecular dynamics simulations.
van der Vaart A
Biochim Biophys Acta; 2015 May; 1850(5):1091-1098. PubMed ID: 25161164
[TBL] [Abstract][Full Text] [Related]
4. Bridging between normal mode analysis and elastic network models.
Na H; Song G
Proteins; 2014 Sep; 82(9):2157-68. PubMed ID: 24692201
[TBL] [Abstract][Full Text] [Related]
5. Coarse-Grained Protein Dynamics Studies Using Elastic Network Models.
Togashi Y; Flechsig H
Int J Mol Sci; 2018 Dec; 19(12):. PubMed ID: 30563146
[TBL] [Abstract][Full Text] [Related]
6. Large-scale comparison of protein essential dynamics from molecular dynamics simulations and coarse-grained normal mode analyses.
Ahmed A; Villinger S; Gohlke H
Proteins; 2010 Dec; 78(16):3341-52. PubMed ID: 20848551
[TBL] [Abstract][Full Text] [Related]
7. Dynamics of protein folding: probing the kinetic network of folding-unfolding transitions with experiment and theory.
Buchner GS; Murphy RD; Buchete NV; Kubelka J
Biochim Biophys Acta; 2011 Aug; 1814(8):1001-20. PubMed ID: 20883829
[TBL] [Abstract][Full Text] [Related]
8. A complex multiscale virtual particle model based elastic network model (CMVP-ENM) for the normal mode analysis of biomolecular complexes.
Anand DV; Meng Z; Xia K
Phys Chem Chem Phys; 2019 Feb; 21(8):4359-4366. PubMed ID: 30724932
[TBL] [Abstract][Full Text] [Related]
9. New generation of elastic network models.
López-Blanco JR; Chacón P
Curr Opin Struct Biol; 2016 Apr; 37():46-53. PubMed ID: 26716577
[TBL] [Abstract][Full Text] [Related]
10. Kinematic Flexibility Analysis: Hydrogen Bonding Patterns Impart a Spatial Hierarchy of Protein Motion.
Budday D; Leyendecker S; van den Bedem H
J Chem Inf Model; 2018 Oct; 58(10):2108-2122. PubMed ID: 30240209
[TBL] [Abstract][Full Text] [Related]
11. Efficient prediction of protein conformational pathways based on the hybrid elastic network model.
Seo S; Jang Y; Qian P; Liu WK; Choi JB; Lim BS; Kim MK
J Mol Graph Model; 2014 Feb; 47():25-36. PubMed ID: 24296313
[TBL] [Abstract][Full Text] [Related]
12. Effective Molecular Dynamics from Neural Network-Based Structure Prediction Models.
Jussupow A; Kaila VRI
J Chem Theory Comput; 2023 Apr; 19(7):1965-1975. PubMed ID: 36961997
[TBL] [Abstract][Full Text] [Related]
13. Robust elastic network model: A general modeling for precise understanding of protein dynamics.
Kim MH; Lee BH; Kim MK
J Struct Biol; 2015 Jun; 190(3):338-47. PubMed ID: 25891099
[TBL] [Abstract][Full Text] [Related]
14. Elastic network models capture the motions apparent within ensembles of RNA structures.
Zimmermann MT; Jernigan RL
RNA; 2014 Jun; 20(6):792-804. PubMed ID: 24759093
[TBL] [Abstract][Full Text] [Related]
15. Inferring a weighted elastic network from partial unfolding with coarse-grained simulations.
de Mendonça MR; Rizzi LG; Contessoto V; Leite VB; Alves NA
Proteins; 2014 Jan; 82(1):119-29. PubMed ID: 23900877
[TBL] [Abstract][Full Text] [Related]
16. Critical evaluation of simple network models of protein dynamics and their comparison with crystallographic B-factors.
Soheilifard R; Makarov DE; Rodin GJ
Phys Biol; 2008 Jun; 5(2):026008. PubMed ID: 18577808
[TBL] [Abstract][Full Text] [Related]
17. Recent advances in QM/MM free energy calculations using reference potentials.
Duarte F; Amrein BA; Blaha-Nelson D; Kamerlin SCL
Biochim Biophys Acta; 2015 May; 1850(5):954-965. PubMed ID: 25038480
[TBL] [Abstract][Full Text] [Related]
18. Structure-Encoded Global Motions and Their Role in Mediating Protein-Substrate Interactions.
Bahar I; Cheng MH; Lee JY; Kaya C; Zhang S
Biophys J; 2015 Sep; 109(6):1101-9. PubMed ID: 26143655
[TBL] [Abstract][Full Text] [Related]
19. A mass weighted chemical elastic network model elucidates closed form domain motions in proteins.
Kim MH; Seo S; Jeong JI; Kim BJ; Liu WK; Lim BS; Choi JB; Kim MK
Protein Sci; 2013 May; 22(5):605-13. PubMed ID: 23456820
[TBL] [Abstract][Full Text] [Related]
20. Conformational changes and allosteric communications in human serum albumin due to ligand binding.
Ahalawat N; Murarka RK
J Biomol Struct Dyn; 2015; 33(10):2192-204. PubMed ID: 25495718
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
