Most proteins are composed of one or more conserved functional regions called
domains. This track shows the high-quality, manually-curated
domains found in proteins associated with the RefSeq Genes transcripts.
Display Conventions and Configuration
This track follows the display conventions for
The proteins associated with the transcripts in the refGene table (see
RefSeq Genes description page)
are submitted to the set of Pfam-A HMMs which annotate regions within the
predicted peptide that are recognizable as Pfam protein domains. These regions
are then mapped to the transcripts themselves using the
Of the several options for filtering out false positives, the "Trusted cutoff (TC)"
threshold method is used in this track to determine significance. For more information regarding
thresholds and scores, see the HMMER
Note: There is currently an undocumented but known HMMER problem which results in lessened
sensitivity and possible missed searches for some zinc finger domains. Until a fix is released for
HMMER /PFAM thresholds, please also consult the "UniProt Domains" subtrack of the UniProt track for
more comprehensive zinc finger annotations.
pslMap was written by Mark Diekhans at UCSC.
Finn RD, Mistry J, Tate J, Coggill P, Heger A, Pollington JE, Gavin OL, Gunasekaran P, Ceric G,
Forslund K et al.
The Pfam protein families database.
Nucleic Acids Res. 2010 Jan;38(Database issue):D211-22.
PMID: 19920124; PMC: PMC2808889