132 related articles for article (PubMed ID: 25891099)
1. 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]
2. Anisotropic fluctuations of amino acids in protein structures: insights from X-ray crystallography and elastic network models.
Eyal E; Chennubhotla C; Yang LW; Bahar I
Bioinformatics; 2007 Jul; 23(13):i175-84. PubMed ID: 17646294
[TBL] [Abstract][Full Text] [Related]
3. Optimal modeling of atomic fluctuations in protein crystal structures for weak crystal contact interactions.
Hafner J; Zheng W
J Chem Phys; 2010 Jan; 132(1):014111. PubMed ID: 20078153
[TBL] [Abstract][Full Text] [Related]
4. Tensorial elastic network model for protein dynamics: integration of the anisotropic network model with bond-bending and twist elasticities.
Srivastava A; Halevi RB; Veksler A; Granek R
Proteins; 2012 Dec; 80(12):2692-700. PubMed ID: 22847894
[TBL] [Abstract][Full Text] [Related]
5. All-atom modeling of anisotropic atomic fluctuations in protein crystal structures.
Hafner J; Zheng W
J Chem Phys; 2011 Oct; 135(14):144114. PubMed ID: 22010705
[TBL] [Abstract][Full Text] [Related]
6. Anharmonic normal mode analysis of elastic network model improves the modeling of atomic fluctuations in protein crystal structures.
Zheng W
Biophys J; 2010 Jun; 98(12):3025-34. PubMed ID: 20550915
[TBL] [Abstract][Full Text] [Related]
7. 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]
8. Generalized spring tensor models for protein fluctuation dynamics and conformation changes.
Na H; Lin TL; Song G
Adv Exp Med Biol; 2014; 805():107-35. PubMed ID: 24446359
[TBL] [Abstract][Full Text] [Related]
9. The effects of rigid motions on elastic network model force constants.
Lezon TR
Proteins; 2012 Apr; 80(4):1133-42. PubMed ID: 22228562
[TBL] [Abstract][Full Text] [Related]
10. Conventional NMA as a better standard for evaluating elastic network models.
Na H; Song G
Proteins; 2015 Feb; 83(2):259-67. PubMed ID: 25471641
[TBL] [Abstract][Full Text] [Related]
11. Application of elastic network models to proteins in the crystalline state.
Riccardi D; Cui Q; Phillips GN
Biophys J; 2009 Jan; 96(2):464-75. PubMed ID: 19167297
[TBL] [Abstract][Full Text] [Related]
12. Identifying essential pairwise interactions in elastic network model using the alpha shape theory.
Xia F; Tong D; Yang L; Wang D; Hoi SC; Koehl P; Lu L
J Comput Chem; 2014 Jun; 35(15):1111-21. PubMed ID: 24648309
[TBL] [Abstract][Full Text] [Related]
13. The performance of fine-grained and coarse-grained elastic network models and its dependence on various factors.
Na H; Song G
Proteins; 2015 Jul; 83(7):1273-83. PubMed ID: 25917684
[TBL] [Abstract][Full Text] [Related]
14. 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]
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. Structural flexibility in proteins: impact of the crystal environment.
Hinsen K
Bioinformatics; 2008 Feb; 24(4):521-8. PubMed ID: 18089618
[TBL] [Abstract][Full Text] [Related]
17. Anisotropy of fluctuation dynamics of proteins with an elastic network model.
Atilgan AR; Durell SR; Jernigan RL; Demirel MC; Keskin O; Bahar I
Biophys J; 2001 Jan; 80(1):505-15. PubMed ID: 11159421
[TBL] [Abstract][Full Text] [Related]
18. Protein elastic network models and the ranges of cooperativity.
Yang L; Song G; Jernigan RL
Proc Natl Acad Sci U S A; 2009 Jul; 106(30):12347-52. PubMed ID: 19617554
[TBL] [Abstract][Full Text] [Related]
19. On QM/MM and MO/MO cluster calculations of all-atom anisotropic displacement parameters for molecules in crystal structures.
Dittrich B; Pfitzenreuter S; Hübschle CB
Acta Crystallogr A; 2012 Jan; 68(Pt 1):110-6. PubMed ID: 22186287
[TBL] [Abstract][Full Text] [Related]
20. Protein structural variation in computational models and crystallographic data.
Kondrashov DA; Van Wynsberghe AW; Bannen RM; Cui Q; Phillips GN
Structure; 2007 Feb; 15(2):169-77. PubMed ID: 17292835
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]