Ultrahigh Resolution Characterization of Domain Motions and Correlations by Multialignment and Multireference Residual Dipolar Coupling NMR

被引:15
作者
Fisher, Charles K. [1 ]
Zhang, Qi [1 ]
Stelzer, Andrew [1 ]
Al-Hashimi, Hashini M. [1 ]
机构
[1] Univ Michigan, Dept Chem & Biophys, Ann Arbor, MI 48109 USA
关键词
D O I
10.1021/jp806188j
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
Nuclear magnetic resonance (NMR) residual dipolar couplings (RDCs) provide it unique opportunity for spatially characterizing complex motions in biomolecules with time scale sensitivity extending up to milliseconds. Up to five motionally averaged Wigner rotation elements, < D-0k(2)(alpha beta)>, can be determined experimentally using RDCs measured in five linearly independent alignment conditions and applied to define motions of axially symmetric bond vectors. Here, we show that up to 25 motionally averaged Wigner rotation elements, < D-mk(2)(alpha beta gamma)>, can be determined experimentally from multialignment RDCs and used to characterize rigid-body motions of chiral domains. The 25 < D-mk(2)(alpha beta gamma)> elements form a basis set that allows one to measure motions of a domain relative to an isotropic distribution of reference frames anchored on a second domain (and vice versa), thus expanding the 3D spatial resolution with which motions can be characterized. The 25 < D-mk(2)(alpha beta gamma)> elements can also be used to fit an ensemble consisting of Lip to eight equally or six unequally populated states. For more than two domains, changing the identity of the domain governing alignment allows access to new information regarding the correlated nature of the domain fluctuations. Example simulations are provided that validate the theoretical derivation and illustrate the high spatial resolution with which rigid-body domain motions can be characterized using multialignment and multireference RDCs. Our results further motivate the development of experimental approaches for both modulating alignment and anchoring it oil specifically targeted domains.
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页码:16815 / 16822
页数:8
相关论文
共 45 条
[1]   Variation of molecular alignment as a means of resolving orientational ambiguities in protein structures from dipolar couplings [J].
Al-Hashimi, HM ;
Valafar, H ;
Terrell, M ;
Zartler, ER ;
Eidsness, MK ;
Prestegard, JH .
JOURNAL OF MAGNETIC RESONANCE, 2000, 143 (02) :402-406
[2]   Characterizing the relative orientation and dynamics of RNA A-form helices using NMR residual dipolar couplings [J].
Bailor, Maximillian H. ;
Musselman, Catherine ;
Hansen, Alexandar L. ;
Gulati, Kush ;
Patel, Dinshaw J. ;
Al-Hashimi, Hashim M. .
NATURE PROTOCOLS, 2007, 2 (06) :1536-1546
[3]   Weak alignment NMR: a hawk-eyed view of biomolecular structure [J].
Bax, A ;
Grishaev, A .
CURRENT OPINION IN STRUCTURAL BIOLOGY, 2005, 15 (05) :563-570
[4]   Experimentally exploring the conformational space sampled by domain reorientation in calmodulin [J].
Bertini, I ;
Del Bianco, C ;
Gelis, I ;
Katsaros, N ;
Luchinat, C ;
Parigi, G ;
Peana, M ;
Provenzani, A ;
Zoroddu, MA .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (18) :6841-6846
[5]   Paramagnetism-based NMR restraints provide maximum allowed probabilities for the different conformations of partially independent protein domains [J].
Bertini, Ivano ;
Gupta, Yogesh K. ;
Luchinat, Claudio ;
Parigi, Giacomo ;
Peana, Massimiliano ;
Sgheri, Luca ;
Yuan, Jing .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2007, 129 (42) :12786-12794
[6]   QUATERNIONS AS A PRACTICAL TOOL FOR THE EVALUATION OF COMPOSITE ROTATIONS [J].
BLUMICH, B ;
SPIESS, HW .
JOURNAL OF MAGNETIC RESONANCE, 1985, 61 (02) :356-362
[7]  
BOTHNERBY AA, 1995, ENCY NUCL MAGNETIC R, P2932
[8]   Simultaneous definition of high resolution protein structure and backbone conformational dynamics using NMR residual dipolar couplings [J].
Bouvignies, Guillaume ;
Markwick, Phineus R. L. ;
Blackledge, Martin .
CHEMPHYSCHEM, 2007, 8 (13) :1901-1909
[9]   Simultaneous determination of protein backbone structure and dynamics from residual dipolar couplings [J].
Bouvignies, Guillaume ;
Markwick, Phineus ;
Bruscheweiler, Rafael ;
Blackledge, Martin .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2006, 128 (47) :15100-15101
[10]  
BRETSCHER O, 2005, LINEAR ALGEBRA APPL, P202