Automated NMR protein structure calculation

被引:204
作者
Güntert, P [1 ]
机构
[1] RIKEN, Genom Sci Ctr, Yokohama, Kanagawa 2300045, Japan
关键词
protein structure; chemical shift assignment; conformational constraints; automated structure determination; automated assignment; SEQUENCE-SPECIFIC ASSIGNMENT; 3-DIMENSIONAL STRUCTURE DETERMINATION; AMBIGUOUS DISTANCE RESTRAINTS; MAGNETIC-RESONANCE DATA; TORSION ANGLE DYNAMICS; PROTON CHEMICAL-SHIFTS; HETERONUCLEAR 3D NMR; HUMAN PRION PROTEIN; NOE ASSIGNMENT; BIOLOGICAL MACROMOLECULES;
D O I
10.1016/S0079-6565(03)00021-9
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
Automated NMR protein structure calculation was presented. The feasibility of the method was tested with experimental NMR data measured for two globular protein domains. It was concluded that if two resonances from nuclei that are far apart in the structure have identical chemical shifts but distinct sets of neighbors they would be represented by a single atom with one set of neighbors.
引用
收藏
页码:105 / 125
页数:21
相关论文
共 96 条
[31]   Solution NMR structure and folding dynamics of the N terminus of a rat non-muscle α-tropomyosin in an engineered chimeric protein [J].
Greenfield, NJ ;
Huang, YJ ;
Palm, T ;
Swapna, GVT ;
Monleon, D ;
Montelione, GT ;
Hitchcock-DeGregori, SE .
JOURNAL OF MOLECULAR BIOLOGY, 2001, 312 (04) :833-847
[32]   Protein structure elucidation from NMR proton densities [J].
Grishaev, A ;
Llinás, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (10) :6713-6718
[33]   CLOUDS, a protocol for deriving a molecular proton density via NMR [J].
Grishaev, A ;
Llinás, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (10) :6707-6712
[34]   CAMRA:: Chemical shift based computer aided protein NMR assignments [J].
Gronwald, W ;
Willard, L ;
Jellard, T ;
Boyko, RE ;
Rajarathnam, K ;
Wishart, DS ;
Sönnichsen, FD ;
Sykes, BD .
JOURNAL OF BIOMOLECULAR NMR, 1998, 12 (03) :395-405
[35]   Automated assignment of NOESY NMR spectra using a knowledge based method (KNOWNOE) [J].
Gronwald, W ;
Moussa, S ;
Elsner, R ;
Jung, A ;
Ganslmeier, B ;
Trenner, J ;
Kremer, W ;
Neidig, KP ;
Kalbitzer, HR .
JOURNAL OF BIOMOLECULAR NMR, 2002, 23 (04) :271-287
[37]   Sequence-specific NMR assignment of proteins by global fragment mapping with the program MAPPER [J].
Güntert, P ;
Salzmann, M ;
Braun, D ;
Wüthrich, K .
JOURNAL OF BIOMOLECULAR NMR, 2000, 18 (02) :129-137
[38]   Torsion angle dynamics for NMR structure calculation with the new program DYANA [J].
Guntert, P ;
Mumenthaler, C ;
Wuthrich, K .
JOURNAL OF MOLECULAR BIOLOGY, 1997, 273 (01) :283-298
[39]  
GUNTERT P, 1993, J BIOMOL NMR, V3, P601
[40]   EFFICIENT COMPUTATION OF 3-DIMENSIONAL PROTEIN STRUCTURES IN SOLUTION FROM NUCLEAR-MAGNETIC-RESONANCE DATA USING THE PROGRAM DIANA AND THE SUPPORTING PROGRAMS CALIBA, HABAS AND GLOMSA [J].
GUNTERT, P ;
BRAUN, W ;
WUTHRICH, K .
JOURNAL OF MOLECULAR BIOLOGY, 1991, 217 (03) :517-530