How Community Has Shaped the Protein Data Bank

被引：26

作者：

Berman, Helen M. ^{[1
,2
]}

Kleywegt, Gerard J. ^{[3
]}

Nakamura, Haruki ^{[4
]}

Markley, John L. ^{[5
]}

机构：

[1] Rutgers State Univ, RCSB PDB, Ctr Integrat Prote Res, Piscataway, NJ 08854 USA

[2] Rutgers State Univ, Dept Chem & Chem Biol, Piscataway, NJ 08854 USA

[3] European Bioinformat Inst, European Mol Biol Lab, PDBe, Cambridge CB10 1SD, England

[4] Osaka Univ, Inst Prot Res, PDBj, Suita, Osaka 5650871, Japan

[5] Univ Wisconsin, Dept Biochem, BioMagResBank, Madison, WI 53706 USA

来源：

STRUCTURE | 2013年 / 21卷 / 09期

基金：

英国生物技术与生命科学研究理事会; 美国国家科学基金会; 英国惠康基金;

关键词：

3-DIMENSIONAL FOURIER SYNTHESIS; WWPDB; MYOGLOBIN; ARCHIVE;

D O I：

10.1016/j.str.2013.07.010

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Following several years of community discussion, the Protein Data Bank (PDB) was established in 1971 as a public repository for the coordinates of three-dimensional models of biological macromolecules. Since then, the number, size, and complexity of structural models have continued to grow, reflecting the productivity of structural biology. Managed by the Worldwide PDB organization, the PDB has been able to meet increasing demands for the quantity of structural information and of quality. In addition to providing unrestricted access to structural information, the PDB also works to promote data standards and to raise the profile of structural biology with broader audiences. In this perspective, we describe the history of PDB and the many ways in which the community continues to shape the archive.

引用

页码：1485 / 1491

页数：7

共 34 条

[1] PHENIX:: building new software for automated crystallographic structure determination [J].

Adams, PD ;

Grosse-Kunstleve, RW ;

Hung, LW ;

Ioerger, TR ;

McCoy, AJ ;

Moriarty, NW ;

Read, RJ ;

Sacchettini, JC ;

Sauter, NK ;

Terwilliger, TC .

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2002, 58 :1948-1954

[2]

[Anonymous], 1971, NATURE-NEW BIOL, V233, P223

[3]

[Anonymous], 1972, COLD SPRING HARB S Q, V36

[4]

Arnold Konstantin, 2009, Journal of Structural and Functional Genomics, V10, P1, DOI 10.1007/s10969-008-9048-5

[5] THE MISSING CRYSTALLOGRAPHY DATA [J].

BARINAGA, M .

SCIENCE, 1989, 245 (4923) :1179-1181

[6] Announcing the worldwide Protein Data Bank [J].

Berman, H ;

Henrick, K ;

Nakamura, H .

NATURE STRUCTURAL BIOLOGY, 2003, 10 (12) :980-980

[7] The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data [J].

Berman, Helen ;

Henrick, Kim ;

Nakamura, Haruki ;

Markley, John L. .

NUCLEIC ACIDS RESEARCH, 2007, 35 :D301-D303

[8] The Protein Data Bank: a historical perspective [J].

Berman, Helen M. .

ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES, 2008, 64 :88-95

[9] Outcome of a workshop on archiving structural models of biological macromolecules [J].

Berman, Helen M. ;

Burley, Stephen K. ;

Chiu, Wah ;

Sali, Andrej ;

Adzhubei, Alexel ;

Bourne, Philip E. ;

Bryant, Stephen H. ;

Dunbrack, Roland L., Jr. ;

Fidelis, Krzysztof ;

Frank, Joachim ;

Godzik, Adam ;

Henrick, Kim ;

Joachimiak, Andrzej ;

Heymann, Bernard ;

Jones, David ;

Markley, John L. ;

Moult, John ;

Montelione, Gaetano T. ;

Orengo, Christine ;

Rossmann, Michael G. ;

Rost, Burkhard ;

Saibil, Helen ;

Schwede, Torsten ;

Standley, Daron M. ;

Westbrook, John D. .

STRUCTURE, 2006, 14 (08) :1211-1217

[10] The Protein Data Bank at 40: Reflecting on the Past to Prepare for the Future [J].

Berman, Helen M. ;

Kleywegt, Gerard J. ;

Nakamura, Haruki ;

Markley, John L. .

STRUCTURE, 2012, 20 (03) :391-396

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