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Volumn 133, Issue 8, 2011, Pages 2427-2436

Dictyostatin flexibility bridges conformations in solution and in the β-tubulin taxane binding site

Author keywords

[No Author keywords available]

Indexed keywords

AUTODOCK; BINDING MODELS; BINDING MODES; CONFORMATIONAL SEARCH; DICTYOSTATIN; DOCKING METHODS; GEOMETRIC PARAMETER; GLOBAL MINIMA; LOW ENERGIES; MACROLIDES; MICROTUBULES; POLYKETIDES; POLYMERIZATION ACTIVITY; SITE INTERACTION; SOLUTION CONFORMATIONS; SOLUTION NMR; SOLUTION STRUCTURES; STRUCTURE-ACTIVITY;

EID: 79952259553     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja1023817     Document Type: Article
Times cited : (22)

References (63)
  • 20
    • 79952254343 scopus 로고    scopus 로고
    • The term "pose" refers to both the ligand conformation and its orientation in a protein binding site. Thus, Figure 11 displays two separate poses for DCT.
    • The term "pose" refers to both the ligand conformation and its orientation in a protein binding site. Thus, Figure 11 displays two separate poses for DCT.
  • 24
    • 79952262997 scopus 로고    scopus 로고
    • The PDB coordinates of DCT docked into β-tubulin and proposed as a candidate for the binding pose were generously provided by Professors Diaz and Jiménez-Barbero. (12)
    • The PDB coordinates of DCT docked into β-tubulin and proposed as a candidate for the binding pose were generously provided by Professors Diaz and Jiménez-Barbero. (12)
  • 40
    • 79952262534 scopus 로고    scopus 로고
    • Global minimum (GM) energy conformers are force field-dependent, as demonstrated by the fact that the MM2* global minimum 2a is different from the GM obtained by similar dictyostatin searches using AMBER , OPLS, and MMFF force fields; see Methods.
    • Global minimum (GM) energy conformers are force field-dependent, as demonstrated by the fact that the MM2* global minimum 2a is different from the GM obtained by similar dictyostatin searches using AMBER, OPLS, and MMFF force fields; see Methods.
  • 41
    • 79952268985 scopus 로고    scopus 로고
    • By "virtual structure" we mean a 3D structure that may accommodate all or a subset of the measured NMR quantities, but does not correspond to an energy minimum on either an empirical or a computational energy surface.
    • By "virtual structure" we mean a 3D structure that may accommodate all or a subset of the measured NMR quantities, but does not correspond to an energy minimum on either an empirical or a computational energy surface.
  • 43
    • 79952253371 scopus 로고    scopus 로고
    • Dictyostatin conformations can be obtained in pdb format upon request.
    • Dictyostatin conformations can be obtained in pdb format upon request.
  • 44
    • 79952267617 scopus 로고    scopus 로고
    • 2O conformational search provided 2a as the global minimum and 2b as the second and only conformational family within 2.0 kca/mol of the global minimum. An attempt to fit these two conformations to the NMR data led to an SSD = 1096. Satisfactory fits of the NMR data usually provide SSD values below 100-150.
    • 2O conformational search provided 2a as the global minimum and 2b as the second and only conformational family within 2.0 kca/mol of the global minimum. An attempt to fit these two conformations to the NMR data led to an SSD = 1096. Satisfactory fits of the NMR data usually provide SSD values below 100-150.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.