Pfam: Difference between revisions
Jump to navigation
Jump to search
No edit summary |
No edit summary |
||
| Line 1: | Line 1: | ||
Pfam is a [[Protein|protein]] database which allows the user to search for functional regions ([[Protein domains|domains]]) of a protein sequence <ref>http://pfam.sanger.ac.uk/</ref>. Pfam release version 26.0 is comprised of more than 13K protein families and 499 clans<ref>http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245129/?report=classic</ref>. To successfully locate a protein of interest Pfam utilizes a scoring algorithm similar to other databases such as BLAST, Prosite and SMART. In order to pin-point a specific domain on the query, a gathering threshold (GA) is assigned to each protein family added by Pfam executives into the database<ref>http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245129/?report=classic</ref>. GA mainly operates under maximum coverage criteria <ref>http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245129/?report=classic</ref>. | Pfam is a [[Protein|protein]] database which allows the user to search for functional regions ([[Protein domains|domains]]) of a protein sequence <ref>http://pfam.sanger.ac.uk/</ref>. Pfam release version 26.0 is comprised of more than 13K protein families and 499 clans<ref>http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245129/?report=classic</ref>. To successfully locate a protein of interest Pfam utilizes a scoring algorithm similar to other databases such as [[BLAST|BLAST]], [[Prosite|Prosite]] and [[SMART|SMART]]. In order to pin-point a specific domain on the query, a gathering threshold (GA) is assigned to each protein family added by Pfam executives into the database<ref>http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245129/?report=classic</ref>. GA mainly operates under maximum coverage criteria <ref>http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245129/?report=classic</ref>. | ||
=== References === | === References === | ||
<references /> | <references /> | ||
Revision as of 01:07, 17 October 2013
Pfam is a protein database which allows the user to search for functional regions (domains) of a protein sequence [1]. Pfam release version 26.0 is comprised of more than 13K protein families and 499 clans[2]. To successfully locate a protein of interest Pfam utilizes a scoring algorithm similar to other databases such as BLAST, Prosite and SMART. In order to pin-point a specific domain on the query, a gathering threshold (GA) is assigned to each protein family added by Pfam executives into the database[3]. GA mainly operates under maximum coverage criteria [4].