PDBe: improved findability of macromolecular structure data in the PDB

被引：97

作者：

Armstrong, David R. ^{[1
]}

Berrisford, John M. ^{[1
]}

Conroy, Matthew J. ^{[1
]}

Gutmanas, Aleksandras ^{[1
]}

Anyango, Stephen ^{[1
]}

Choudhary, Preeti ^{[1
]}

Clark, Alice R. ^{[1
]}

Dana, Jose M. ^{[1
]}

Deshpande, Mandar ^{[1
]}

Dunlop, Roisin ^{[1
]}

Gane, Paul ^{[1
]}

Gaborova, Romana ^{[2
]}

Gupta, Deepti ^{[1
]}

Haslam, Pauline ^{[1
]}

Koca, Jaroslav ^{[2
]}

Mak, Lora ^{[1
]}

Mir, Saqib ^{[1
]}

Mukhopadhyay, Abhik ^{[1
]}

Nadzirin, Nurul ^{[1
]}

Nair, Sreenath ^{[1
]}

Paysan-Lafosse, Typhaine ^{[1
,3
]}

Pravda, Lukas ^{[1
]}

Sehnal, David ^{[2
]}

Salih, Osman ^{[4
]}

Smart, Oliver ^{[1
]}

Tolchard, James ^{[1
]}

Varadi, Mihaly ^{[1
]}

Svobodova-Varekova, Radka ^{[2
]}

Zaki, Hossam ^{[1
]}

Kleywegt, Gerard J. ^{[1
,4
]}

Velankar, Sameer ^{[1
]}

机构：

[1] European Bioinformat Inst, European Mol Biol Lab, Prot Data Bank Europe, Wellcome Genome Campus, Cambridge CB10 1SD, England

[2] Masaryk Univ Brno, CEITEC Cent European Inst Technol, Kamenice 5, Brno 62500, Czech Republic

[3] European Bioinformat Inst, European Mol Biol Lab, InterPro, Wellcome Genome Campus, Cambridge CB10 1SD, England

[4] European Bioinformat Inst, European Mol Biol Lab, EMDB, Wellcome Genome Campus, Cambridge CB10 1SD, England

来源：

NUCLEIC ACIDS RESEARCH | 2020年 / 48卷 / D1期

基金：

英国生物技术与生命科学研究理事会; 英国惠康基金;

关键词：

SEQUENCE; VISUALIZATION;

D O I：

10.1093/nar/gkz990

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：

The Protein Data Bank in Europe (PDBe), a founding member of the Worldwide Protein Data Bank (wwPDB), actively participates in the deposition, curation, validation, archiving and dissemination of macromolecular structure data. PDBe supports diverse research communities in their use of macromolecular structures by enriching the PDB data and by providing advanced tools and services for effective data access, visualization and analysis. This paper details the enrichment of data at PDBe, including mapping of RNA structures to Rfam, and identification of molecules that act as cofactors. PDBe has developed an advanced search facility with similar to 100 data categories and sequence searches. New features have been included in the LiteMol viewer at PDBe, with updated visualization of carbohydrates and nucleic acids. Small molecules are now mapped more extensively to external databases and their visual representation has been enhanced. These advances help users to more easily find and interpret macromolecular structure data in order to solve scientific problems.

引用

页码：D335 / D343

页数：9

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