DECOMP: A PDB decomposition tool on the web

The protein databank (PDB) contains high quality structural data for computational structural biology investigations. We have earlier described a fast tool (the decomp_pdb tool) for identifying and marking missing atoms and residues in PDB files. The tool also automatically decomposes PDB entries in...

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Detalles Bibliográficos
Autores principales: Ordog, Rafael, Szabadka, Zoltán, Grolmusz, Vince
Formato: Texto
Lenguaje:English
Publicado: Biomedical Informatics Publishing Group 2009
Materias:
Web Server
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2737496/
https://www.ncbi.nlm.nih.gov/pubmed/19759860
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author Ordog, Rafael
Szabadka, Zoltán
Grolmusz, Vince
author_facet Ordog, Rafael
Szabadka, Zoltán
Grolmusz, Vince
author_sort Ordog, Rafael
collection PubMed
description The protein databank (PDB) contains high quality structural data for computational structural biology investigations. We have earlier described a fast tool (the decomp_pdb tool) for identifying and marking missing atoms and residues in PDB files. The tool also automatically decomposes PDB entries into separate files describing ligands and polypeptide chains. Here, we describe a web interface named DECOMP for the tool. Our program correctly identifies multi­monomer ligands, and the server also offers the preprocessed ligand­protein decomposition of the complete PDB for downloading (up to size: 5GB) AVAILABILITY: http://decomp.pitgroup.org
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spelling pubmed-27374962009-09-16 DECOMP: A PDB decomposition tool on the web Ordog, Rafael Szabadka, Zoltán Grolmusz, Vince Bioinformation Web Server The protein databank (PDB) contains high quality structural data for computational structural biology investigations. We have earlier described a fast tool (the decomp_pdb tool) for identifying and marking missing atoms and residues in PDB files. The tool also automatically decomposes PDB entries into separate files describing ligands and polypeptide chains. Here, we describe a web interface named DECOMP for the tool. Our program correctly identifies multi­monomer ligands, and the server also offers the preprocessed ligand­protein decomposition of the complete PDB for downloading (up to size: 5GB) AVAILABILITY: http://decomp.pitgroup.org Biomedical Informatics Publishing Group 2009-07-27 /pmc/articles/PMC2737496/ /pubmed/19759860 Text en © 2009 Biomedical Informatics Publishing Group This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
spellingShingle Web Server
Ordog, Rafael
Szabadka, Zoltán
Grolmusz, Vince
DECOMP: A PDB decomposition tool on the web
title DECOMP: A PDB decomposition tool on the web
title_full DECOMP: A PDB decomposition tool on the web
title_fullStr DECOMP: A PDB decomposition tool on the web
title_full_unstemmed DECOMP: A PDB decomposition tool on the web
title_short DECOMP: A PDB decomposition tool on the web
title_sort decomp: a pdb decomposition tool on the web
topic Web Server
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2737496/
https://www.ncbi.nlm.nih.gov/pubmed/19759860
work_keys_str_mv AT ordografael decompapdbdecompositiontoolontheweb
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AT grolmuszvince decompapdbdecompositiontoolontheweb

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