title: PDBe: improved accessibility of macromolecular structure data from PDB and EMDB.
abstract: The Protein Data Bank in Europe (http://pdbe.org) accepts and annotates depositions of macromolecular structure data in the PDB and EMDB archives and enriches, integrates and disseminates structural information in a variety of ways. The PDBe website has been redesigned based on an analysis of user requirements, and now offers intuitive access to improved and value-added macromolecular structure information. Unique value-added information includes lists of reviews and research articles that cite or mention PDB entries as well as access to figures and legends from full-text open-access publications that describe PDB entries. A powerful new query system not only shows all the PDB entries that match a given query, but also shows the 'best structures' for a given macromolecule, ligand complex or sequence family using data-quality information from the wwPDB validation reports. A PDBe RESTful API has been developed to provide unified access to macromolecular structure data available in the PDB and EMDB archives as well as value-added annotations, e.g. regarding structure quality and up-to-date cross-reference information from the SIFTS resource. Taken together, these new developments facilitate unified access to macromolecular structure data in an intuitive way for non-expert users and support expert users in analysing macromolecular structure data.
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK sameer@ebi.ac.uk.
authors.forename: Sameer
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authors.lastname: Velankar
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Glen
authors.initials: G
authors.lastname: van Ginkel
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Younes
authors.initials: Y
authors.lastname: Alhroub
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Gary M
authors.initials: GM
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authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: John M
authors.initials: JM
authors.lastname: Berrisford
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Matthew J
authors.initials: MJ
authors.lastname: Conroy
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Jose M
authors.initials: JM
authors.lastname: Dana
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Swanand P
authors.initials: SP
authors.lastname: Gore
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Aleksandras
authors.initials: A
authors.lastname: Gutmanas
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Pauline
authors.initials: P
authors.lastname: Haslam
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Pieter M S
authors.initials: PM
authors.lastname: Hendrickx
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Ingvar
authors.initials: I
authors.lastname: Lagerstedt
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Saqib
authors.initials: S
authors.lastname: Mir
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Manuel A
authors.initials: MA
authors.lastname: Fernandez Montecelo
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Abhik
authors.initials: A
authors.lastname: Mukhopadhyay
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Thomas J
authors.initials: TJ
authors.lastname: Oldfield
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Ardan
authors.initials: A
authors.lastname: Patwardhan
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Eduardo
authors.initials: E
authors.lastname: Sanz-García
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Sanchayita
authors.initials: S
authors.lastname: Sen
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Robert A
authors.initials: RA
authors.lastname: Slowley
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Michael E
authors.initials: ME
authors.lastname: Wainwright
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Mandar S
authors.identifier: http://orcid.org/0000-0002-9043-7665
authors.initials: MS
authors.lastname: Deshpande
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Andrii
authors.initials: A
authors.lastname: Iudin
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Gaurav
authors.initials: G
authors.lastname: Sahni
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Jose
authors.initials: J
authors.lastname: Salavert Torres
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Miriam
authors.initials: M
authors.lastname: Hirshberg
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Lora
authors.initials: L
authors.lastname: Mak
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Nurul
authors.initials: N
authors.lastname: Nadzirin
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: David R
authors.initials: DR
authors.lastname: Armstrong
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Alice R
authors.initials: AR
authors.lastname: Clark
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Oliver S
authors.initials: OS
authors.lastname: Smart
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.
authors.forename: Paul K
authors.identifier: http://orcid.org/0000-0002-5464-7075
authors.initials: PK
authors.lastname: Korir
authors.affiliation: Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK gerard@ebi.ac.uk.
authors.forename: Gerard J
authors.initials: GJ
authors.lastname: Kleywegt
mesh_terms: D030562:Databases, Protein; D020407:Internet; D008854:Microscopy, Electron; D008958:Models, Molecular; D011487:Protein Conformation; D014584:User-Computer Interface