ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements

Detailed structural analysis of protein necessitates investigation at primary, secondary and tertiary levels, respectively. Insight into protein secondary structures pave way for understanding the type of secondary structural elements involved (α-helices, β-strands etc.), the amino acid sequence tha...

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Autores principales: Vignesh, Dhandapani, Daniel, Paul, Raja, Natarajan, Balasubramanian, Ponnusamy, Arul, Loganathan
Formato: Texto
Lenguaje:English
Publicado: Biomedical Informatics Publishing Group 2010
Materias:
Database
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2951642/
https://www.ncbi.nlm.nih.gov/pubmed/20975886
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author Vignesh, Dhandapani
Daniel, Paul
Raja, Natarajan
Balasubramanian, Ponnusamy
Arul, Loganathan
author_facet Vignesh, Dhandapani
Daniel, Paul
Raja, Natarajan
Balasubramanian, Ponnusamy
Arul, Loganathan
author_sort Vignesh, Dhandapani
collection PubMed
description Detailed structural analysis of protein necessitates investigation at primary, secondary and tertiary levels, respectively. Insight into protein secondary structures pave way for understanding the type of secondary structural elements involved (α-helices, β-strands etc.), the amino acid sequence that encode the secondary structural elements, number of residues, length and, percentage composition of the respective elements in the protein. Here we present a standalone tool entitled “ExSer” which facilitate an automated extraction of the amino acid sequence that encode for the secondary structural regions of a protein from the protein data bank (PDB) file. AVAILABILITY: ExSer is freely downloadable from http://code.google.com/p/tool-exser/
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spelling pubmed-29516422010-10-25 ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements Vignesh, Dhandapani Daniel, Paul Raja, Natarajan Balasubramanian, Ponnusamy Arul, Loganathan Bioinformation Database Detailed structural analysis of protein necessitates investigation at primary, secondary and tertiary levels, respectively. Insight into protein secondary structures pave way for understanding the type of secondary structural elements involved (α-helices, β-strands etc.), the amino acid sequence that encode the secondary structural elements, number of residues, length and, percentage composition of the respective elements in the protein. Here we present a standalone tool entitled “ExSer” which facilitate an automated extraction of the amino acid sequence that encode for the secondary structural regions of a protein from the protein data bank (PDB) file. AVAILABILITY: ExSer is freely downloadable from http://code.google.com/p/tool-exser/ Biomedical Informatics Publishing Group 2010-03-31 /pmc/articles/PMC2951642/ /pubmed/20975886 Text en © 2010 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 Database
Vignesh, Dhandapani
Daniel, Paul
Raja, Natarajan
Balasubramanian, Ponnusamy
Arul, Loganathan
ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
title ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
title_full ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
title_fullStr ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
title_full_unstemmed ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
title_short ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
title_sort exser: a standalone tool to mine protein data bank (pdb) for secondary structural elements
topic Database
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2951642/
https://www.ncbi.nlm.nih.gov/pubmed/20975886
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