Literature DB >> 12037327

The Protein Data Bank.

Helen M Berman1, Tammy Battistuz, T N Bhat, Wolfgang F Bluhm, Philip E Bourne, Kyle Burkhardt, Zukang Feng, Gary L Gilliland, Lisa Iype, Shri Jain, Phoebe Fagan, Jessica Marvin, David Padilla, Veerasamy Ravichandran, Bohdan Schneider, Narmada Thanki, Helge Weissig, John D Westbrook, Christine Zardecki.   

Abstract

The Protein Data Bank [PDB; Berman, Westbrook et al. (2000), Nucleic Acids Res. 28, 235-242; http://www.pdb.org/] is the single worldwide archive of primary structural data of biological macromolecules. Many secondary sources of information are derived from PDB data. It is the starting point for studies in structural bioinformatics. This article describes the goals of the PDB, the systems in place for data deposition and access, how to obtain further information and plans for the future development of the resource. The reader should come away with an understanding of the scope of the PDB and what is provided by the resource.

Mesh:

Year:  2002        PMID: 12037327     DOI: 10.1107/s0907444902003451

Source DB:  PubMed          Journal:  Acta Crystallogr D Biol Crystallogr        ISSN: 0907-4449


  703 in total

1.  The directional atomic solvation energy: an atom-based potential for the assignment of protein sequences to known folds.

Authors:  Parag Mallick; Robert Weiss; David Eisenberg
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-02       Impact factor: 11.205

2.  SIDEpro: a novel machine learning approach for the fast and accurate prediction of side-chain conformations.

Authors:  Ken Nagata; Arlo Randall; Pierre Baldi
Journal:  Proteins       Date:  2011-11-09

3.  Multi-domain protein families and domain pairs: comparison with known structures and a random model of domain recombination.

Authors:  Gordana Apic; Wolfgang Huber; Sarah A Teichmann
Journal:  J Struct Funct Genomics       Date:  2003

Review 4.  Genome informatics: current status and future prospects.

Authors:  Raimond L Winslow; Mark S Boguski
Journal:  Circ Res       Date:  2003-05-16       Impact factor: 17.367

5.  Improving inverse docking target identification with Z-score selection.

Authors:  Stephanie S Kim; Melanie L Aprahamian; Steffen Lindert
Journal:  Chem Biol Drug Des       Date:  2019-01-02       Impact factor: 2.817

6.  Dynamical binding of hydrogen-bond surrogate derived Bak helices to antiapoptotic protein Bcl-xL.

Authors:  Ju Bao; Xiao Y Dong; John Z H Zhang; Paramjit S Arora
Journal:  J Phys Chem B       Date:  2009-03-19       Impact factor: 2.991

7.  Molecular modeling on pyruvate phosphate dikinase of Entamoeba histolytica and in silico virtual screening for novel inhibitors.

Authors:  Preyesh Stephen; Ramachandran Vijayan; Audesh Bhat; N Subbarao; R N K Bamezai
Journal:  J Comput Aided Mol Des       Date:  2007-08-21       Impact factor: 3.686

8.  DSDBASE: a consortium of native and modelled disulphide bonds in proteins.

Authors:  A Vinayagam; G Pugalenthi; R Rajesh; R Sowdhamini
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

9.  Anti-endotoxin agents. 2. Pilot high-throughput screening for novel lipopolysaccharide-recognizing motifs in small molecules.

Authors:  Stewart J Wood; Kelly A Miller; Sunil A David
Journal:  Comb Chem High Throughput Screen       Date:  2004-12       Impact factor: 1.339

10.  Design and evaluation of new chemotherapeutics of aloe-emodin (AE) against the deadly cancer disease: an in silico study.

Authors:  Chaitanya Mulakayala; Babajan Banaganapalli; Naveen Mulakayala; Madhusudana Pulaganti; Anuradha C M; Suresh Kumar Chitta
Journal:  J Chem Biol       Date:  2013-05-23
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