Summary: Transcription factor Tfb4
Transcription factor Tfb4 Provide feedback
This family appears to be distantly related to the VWA domain.
Internal database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR004600This entry represents Tfb4/p34, a component of the transcription factor TFIIH core (includes XPB, p62, p52, p44, p34). TFIIH complex is involved in the nucleotide excision repair (NER) and polymerase II transcription [PUBMED:7961739, PUBMED:8631896, PUBMED:10506223].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Cellular component||core TFIIH complex (GO:0000439)|
|Biological process||regulation of transcription, DNA-templated (GO:0006355)|
|nucleotide-excision repair (GO:0006289)|
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- the UniProt description of the protein sequence
- the number of residues in the sequence
- the Pfam graphic itself.
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We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the UniProtKB sequence database using the family HMM
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
You can see the alignments as HTML or in three different sequence viewers:
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
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Curation and family details
|Author:||TIGRFAMs, Griffiths-Jones SR, Bateman A|
|Number in seed:||23|
|Number in full:||462|
|Average length of the domain:||242.20 aa|
|Average identity of full alignment:||34 %|
|Average coverage of the sequence by the domain:||76.52 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 11927849 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||11|
|Download:||download the raw HMM for this family|
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The tree shows the occurrence of this domain across different species. More...
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Tfb4 domain has been found. There are 1 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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