χ1 Rotamer populations and angles of mobile surface side chains are accurately predicted by a torsion angle database potential of mean force

被引:77
作者
Clore, GM [1 ]
Kuszewski, J
机构
[1] NIDDKD, Chem Phys Lab, NIH, Bethesda, MD 20892 USA
[2] NIH, Ctr Informat Technol, Computat Biosci & Engn Lab, Bethesda, MD 20892 USA
关键词
D O I
10.1021/ja017712p
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
The equilibirum angles and distributions of χ1 rotamers for mobile surface side chains of the small, 63-residue, B1 domain of protein L have been calculated from the static crystal structure by rigid body/torsion angle simulated annealing using a torsion angle database potential of mean force and compared to those deduced by Monte Carlo analysis of side chain residual dipolar couplings measured in solution. Good agreement between theory and experiment is observed, indicating that for side chains undergoing rotamer averaging that is fast on the chemical shift time scale, the equilibrium angles and distribution of χ1 rotamers are largely determined by the backbone φ/ψ torsion angles. Copyright © 2002 American Chemical Society.
引用
收藏
页码:2866 / 2867
页数:2
相关论文
共 13 条
[1]  
CLORE GM, 2001, XPLOR NIH VERSION 1
[2]   BACKBONE-DEPENDENT ROTAMER LIBRARY FOR PROTEINS - APPLICATION TO SIDE-CHAIN PREDICTION [J].
DUNBRACK, RL ;
KARPLUS, M .
JOURNAL OF MOLECULAR BIOLOGY, 1993, 230 (02) :543-574
[3]  
HOBOHM U, 1992, PROTEIN SCI, V1, P409
[4]   Sources of and solutions to problems in the refinement of protein NMR structures against torsion angle potentials of mean force [J].
Kuszewski, J ;
Clore, GM .
JOURNAL OF MAGNETIC RESONANCE, 2000, 146 (02) :249-254
[5]  
Kuszewski J, 1996, PROTEIN SCI, V5, P1067
[6]   χ1 torsion angle dynamics in proteins from dipolar couplings [J].
Mittermaier, A ;
Kay, LE .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2001, 123 (28) :6892-6903
[7]   DETERMINATION OF 3-DIMENSIONAL STRUCTURES OF PROTEINS FROM INTERPROTON DISTANCE DATA BY HYBRID DISTANCE GEOMETRY-DYNAMICAL SIMULATED ANNEALING CALCULATIONS [J].
NILGES, M ;
CLORE, GM ;
GRONENBORN, AM .
FEBS LETTERS, 1988, 229 (02) :317-324
[8]   Structures of the B1 domain of protein L from Peptostreptococcus magnus with a tyrosine to tryptophan substitution [J].
O'Neill, JW ;
Kim, DE ;
Baker, D ;
Zhang, KYJ .
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 2001, 57 :480-487
[9]   Internal coordinates for molecular dynamics and minimization in structure determination and refinement [J].
Schwieters, CD ;
Clore, GM .
JOURNAL OF MAGNETIC RESONANCE, 2001, 152 (02) :288-302
[10]   The VMD-XPLOR visualization package for NMR structure refinement [J].
Schwieters, CD ;
Clore, GM .
JOURNAL OF MAGNETIC RESONANCE, 2001, 149 (02) :239-244