Summary: T5orf172 domain
T5orf172 domain Provide feedback
This domain was identified by Iyer and colleagues .
Iyer LM, Koonin EV, Aravind L; , Genome Biol 2002;3:RESEARCH0012.: Extensive domain shuffling in transcription regulators of DNA viruses and implications for the origin of fungal APSES transcription factors. PUBMED:11897024 EPMC:11897024
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR018306
This entry represents a DNA-binding domain found in bacteriophage T5, ORF172 [PUBMED:11897024]. The domain is related to the Bro-N and KilA-N domains that are widespread in large-DNA viruses infecting bacteria and eukaryotes [PUBMED:11897024].
- 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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Based on the analysis of genomic distribution, patterns of domain fusions and phylogenetic considerations for individual families, an evolutionary scenario is proposed that explains the emergence and development of the major branches of the GIY-YIG superfamily that links the Slx-type with the UvrC-like endonucleases. Most families appear to target DNA. The GIY-YIG domain has been quite successful in forming monomeric nucleases that utilise additional domains to recognise its DNA targets; this collection of domains can range from extremely simple DNA-binding elements (as in the case of I-TevI) to modules with independent enzymatic activities (as in the case of UvrC or the Penelope elements) .
The clan contains the following 4 members:DUF123 GIY-YIG MUG113 T5orf172
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 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:
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
|Seed source:||Iyer LM|
|Author:||Iyer LM, Bateman A|
|Number in seed:||204|
|Number in full:||1694|
|Average length of the domain:||92.50 aa|
|Average identity of full alignment:||31 %|
|Average coverage of the sequence by the domain:||29.87 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||4|
|Download:||download the raw HMM for this family|
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