The Protein Data Bank: Current status and future challenges

被引:21
作者
Abola, EE
Manning, NO
Prilusky, J
Stampf, DR
Sussman, JL
机构
[1] WEIZMANN INST SCI, BIOINFORMAT UNIT, IL-76100 REHOVOT, ISRAEL
[2] WEIZMANN INST SCI, DEPT BIOL STRUCT, IL-76100 REHOVOT, ISRAEL
[3] BROOKHAVEN NATL LAB, DEPT BIOL, UPTON, NY 11973 USA
关键词
database; federation; NMR; protein structure; three-dimensional structure; x-ray crystallography;
D O I
10.6028/jres.101.025
中图分类号
TH7 [仪器、仪表];
学科分类号
0804 ; 080401 ; 081102 ;
摘要
Protein Data Bank (PDB) is an archive of experimentally determined three-dimensional structures of proteins, nucleic acids, and other biological macromolecules with a 25 year history of service to a global community. PDB is being replaced by 3DB, the Three-Dimensional Database of Biomolecular Structures that will continue to operate from Brookhaven National Laboratory. 3DB will be a highly sophisticated knowledge-based system for archiving and accessing structural information that combines the advantages of object oriented and relational database systems. 3DB will operate as a direct-deposition archive that will also accept third-party supplied annotations. Conversion of PDB to 3DB will be evolutionary, providing a high degree of compatibility with existing software.
引用
收藏
页码:231 / 241
页数:11
相关论文
共 24 条
[1]  
Abola EE, 1987, DATA COMMISSION INT, P107
[2]   THE DEVELOPMENT OF VERSION-3 AND VERSION-4 OF THE CAMBRIDGE STRUCTURAL DATABASE SYSTEM [J].
ALLEN, FH ;
DAVIES, JE ;
GALLOY, JJ ;
JOHNSON, O ;
KENNARD, O ;
MACRAE, CF ;
MITCHELL, EM ;
MITCHELL, GF ;
SMITH, JM ;
WATSON, DG .
JOURNAL OF CHEMICAL INFORMATION AND COMPUTER SCIENCES, 1991, 31 (02) :187-204
[3]  
ALTSCHUL SF, 1990, J MOL BIOL, V215, P403, DOI 10.1006/jmbi.1990.9999
[4]  
BAIROCH A, 1994, NUCLEIC ACIDS RES, V22, P3578
[5]  
BAIROCH A, 1994, NUCLEIC ACIDS RES, V22, P3583
[6]   THE ENZYME DATA-BANK [J].
BAIROCH, A .
NUCLEIC ACIDS RESEARCH, 1994, 22 (17) :3626-3627
[7]   PROTEIN DATA BANK - COMPUTER-BASED ARCHIVAL FILE FOR MACROMOLECULAR STRUCTURES [J].
BERNSTEIN, FC ;
KOETZLE, TF ;
WILLIAMS, GJB ;
MEYER, EF ;
BRICE, MD ;
RODGERS, JR ;
KENNARD, O ;
SHIMANOUCHI, T ;
TASUMI, M .
JOURNAL OF MOLECULAR BIOLOGY, 1977, 112 (03) :535-542
[8]  
Brunger A. T., 1992, X PLOR VERSION 3 1 S
[9]   AN OVERVIEW OF THE OBJECT PROTOCOL MODEL (OPM) AND THE OPM DATA MANAGEMENT TOOLS [J].
CHEN, IMA ;
MARKOWITZ, VM .
INFORMATION SYSTEMS, 1995, 20 (05) :393-418
[10]   THE GDB(TM) HUMAN GENOME DATA-BASE ANNO 1994 [J].
FASMAN, KH ;
CUTICCHIA, AJ ;
KINGSBURY, DT .
NUCLEIC ACIDS RESEARCH, 1994, 22 (17) :3462-3469