PDBsum: Structural summaries of PDB entries

Protein Science - Tập 27 Số 1 - Trang 129-134 - 2018
Roman A. Laskowski1, Jagoda Jabłońska2, Lukáš Pravda3, Radka Svobodová Vařeková3, Janet M. Thornton1
1European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL–EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom
2Laboratory of Bioinformatics and Systems Biology Centre of New Technologies, University of Warsaw, 02‐089 Warsaw Poland
3National Centre for Biomolecular Research, Faculty of Science and CEITEC ‐ Central European Institute of Technology Masaryk University Brno, 625 00 Brno‐Bohunice Czech Republic

Tóm tắt

Abstract

PDBsum is a web server providing structural information on the entries in the Protein Data Bank (PDB). The analyses are primarily image‐based and include protein secondary structure, protein‐ligand and protein‐DNA interactions, PROCHECK analyses of structural quality, and many others. The 3D structures can be viewed interactively in RasMol, PyMOL, and a JavaScript viewer called 3Dmol.js. Users can upload their own PDB files and obtain a set of password‐protected PDBsum analyses for each. The server is freely accessible to all at: http://www.ebi.ac.uk/pdbsum.

Từ khóa


Tài liệu tham khảo

10.1016/S0022-2836(77)80200-3

10.1016/S0968-0004(97)01140-7

10.1038/374572a0

10.1016/S0968-0004(00)88963-X

Suhnel J, 1996, Image library of biological macromolecules, Comput Appl Biosci, 12, 227

10.1016/S0022-2836(05)80134-2

10.1016/S0969-2126(97)00260-8

10.1093/nar/29.1.221

10.1093/nar/gki001

10.1093/nar/gkn860

10.1093/nar/gkt940

10.1093/nar/gkl971

10.1093/nar/28.1.235

10.1093/nar/gkw1042

10.1093/nar/gkv1047

Rodionova IA, 2017, A novel bifunctional transcriptional regulator of riboflavin metabolism in Archaea, Nucleic Acids Res, 45, 3785

DeLano WL, 2002, The PyMOL Molecular Graphics System

10.1093/bioinformatics/btu829

10.1016/S0968-0004(00)89080-5

10.1002/bmb.2006.494034042644

10.1093/bioinformatics/17.4.377

10.1016/0263-7855(95)00073-9

Laskowski RA, 1996, Protein clefts in molecular recognition and function, Protein Sci, 5, 2438

10.1093/protein/11.10.855

10.1016/0076-6879(90)83007-V

10.1093/nar/gkv1344

10.1093/nar/gku947

10.1093/nar/gkt1242

10.1006/jmbi.1994.1334

10.1093/protein/8.2.127

10.1093/nar/25.24.4940

10.1002/pro.5560050204

10.1002/prot.340080303

10.1107/S0021889892009944

10.1093/nar/gkw1092

10.1093/bioinformatics/btq119

10.1093/nar/gkw1099

10.1186/1758-2946-5-39

10.1093/nar/gku426

10.1093/nar/gku1118

10.1093/nar/gks1258

10.1093/nar/gkt1068

10.1093/nar/gki414

Thông tin
Thông tin xuất bản

Protein Science

Tập 27 Số 1

129-134

Thông tin tác giả