New tools and resources for analysing protein structures and their interactions

被引:18
作者
Luscombe, NM
Laskowski, RA
Westhead, DR
Milburn, D
Jones, S
Karmirantzou, M
Thornton, JM
机构
[1] UCL, Dept Biochem & Mol Biol, Biomol Struct & Modelling Unit, London WC1E 6BT, England
[2] Univ London Birkbeck Coll, Dept Crystallog, London WC1E 7HX, England
[3] European Bioinformat Inst, EMBL Outstn, Cambridge CB10 1SD, England
来源
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY | 1998年 / 54卷
关键词
D O I
10.1107/S0907444998007318
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
The determination of protein structures has furthered our understanding of how various proteins perform their functions. With the large number of structures currently available in the PDB, it is necessary to be able to easily study these proteins in detail. Here new software tools are presented which aim to facilitate this analysis; these include the PDBsum WWW site which provides a summary description of all PDB entries, the programs TOPS and NUCPLOT to plot schematic diagrams representing protein topology and DNA-binding interactions, SAS a WWW-based sequence-analysis tool incorporating structural data, and WWW servers for the analysis of protein-protein interfaces and analyses of over 300 haem-binding proteins.
引用
收藏
页码:1132 / 1138
页数:7
相关论文
共 25 条
[11]   Principles of protein-protein interactions [J].
Jones, S ;
Thornton, JM .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (01) :13-20
[12]  
Jones S, 1998, PROTEIN SCI, V7, P233
[13]   Identification and application of the concepts important for accurate and reliable protein secondary structure prediction [J].
King, RD ;
Sternberg, MJE .
PROTEIN SCIENCE, 1996, 5 (11) :2298-2310
[14]   MOLSCRIPT - A PROGRAM TO PRODUCE BOTH DETAILED AND SCHEMATIC PLOTS OF PROTEIN STRUCTURES [J].
KRAULIS, PJ .
JOURNAL OF APPLIED CRYSTALLOGRAPHY, 1991, 24 :946-950
[15]   PDBsum: a Web-based database of summaries and analyses of all PDB structures [J].
Laskowski, RA ;
Hutchinson, EG ;
Michie, AD ;
Wallace, AC ;
Jones, ML ;
Thornton, JM .
TRENDS IN BIOCHEMICAL SCIENCES, 1997, 22 (12) :488-490
[16]   PROCHECK - A PROGRAM TO CHECK THE STEREOCHEMICAL QUALITY OF PROTEIN STRUCTURES [J].
LASKOWSKI, RA ;
MACARTHUR, MW ;
MOSS, DS ;
THORNTON, JM .
JOURNAL OF APPLIED CRYSTALLOGRAPHY, 1993, 26 :283-291
[17]   NUCPLOT: a program to generate schematic diagrams of protein-nucleic acid interactions [J].
Luscombe, NM ;
Laskowski, RA ;
Thornton, JM .
NUCLEIC ACIDS RESEARCH, 1997, 25 (24) :4940-4945
[18]  
MURZIN AG, 1995, J MOL BIOL, V247, P536, DOI 10.1016/S0022-2836(05)80134-2
[19]   CATH - a hierarchic classification of protein domain structures [J].
Orengo, CA ;
Michie, AD ;
Jones, S ;
Jones, DT ;
Swindells, MB ;
Thornton, JM .
STRUCTURE, 1997, 5 (08) :1093-1108
[20]   Structure of the CAP-DNA complex at 2.5 angstrom resolution: A complete picture of the protein-DNA interface [J].
Parkinson, G ;
Wilson, C ;
Gunasekera, A ;
Ebright, YW ;
Ebright, RE ;
Berman, HM .
JOURNAL OF MOLECULAR BIOLOGY, 1996, 260 (03) :395-408