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Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. [ 1 ] [ 2 ] [ 3 ] The latest version of Pfam, 37.0, was released in June 2024 and contains 21,979 families. [ 4 ]
A profile HMM modelling a multiple sequence alignment. HMMER is a free and commonly used software package for sequence analysis written by Sean Eddy. [2] Its general usage is to identify homologous protein or nucleotide sequences, and to perform sequence alignments.
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Stockholm format is a multiple sequence alignment format used by Pfam, Rfam and Dfam, to disseminate protein, RNA and DNA sequence alignments. [1] [2] [3] The alignment editors Ralee, [4] Belvu and Jalview support Stockholm format as do the probabilistic database search tools, Infernal and HMMER, and the phylogenetic analysis tool Xrate.
PFAM was inactive for a few years until it was reactivated in 2013, with Hairuddin Omar elected as president of the association. [4] For the 2021-2023 session, Safee Sali led the organization and was assisted by Razman Roslan as Vice President. PFAM is vocal about welfares of football players in Malaysia, whether still active of retired. [5]
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This is template for a protein family/domain as defined in biological databases such as Pfam. Template parameters [Edit template data] Parameter Description Type Status Symbol Symbol no description Line optional Name Name no description Line optional Image image fill in "NONE" if not needed to suppress the tracking category File optional Width width Width for image String optional Caption ...
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