Summary: Transposase IS116/IS110/IS902 family
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Transposase IS116/IS110/IS902 family Provide feedback
Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with PF01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.
Internal database links
|SCOOP:||T2SSK PsbU DNA_pol_lambd_f Cdd1 IMS_HHH HHH_2 HHH_3 HHH_5 HHH_8|
|Similarity to PfamA using HHSearch:||HHH HHH_3 HHH_5|
This tab holds annotation information from the InterPro database.
InterPro entry IPR003346
Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. It is often found with the transposase IS111A/IS1328/IS1533 family (see INTERPRO) [PUBMED:1348267, PUBMED:10217489].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Molecular function||DNA binding (GO:0003677)|
|transposase activity (GO:0004803)|
|Biological process||transposition, DNA-mediated (GO:0006313)|
- 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
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This superfamily includes Helix-hairpin-helix DNA-binding domains.
The clan contains the following 20 members:Cdd1 DNA_pol_lambd_f DUF3173 DUF4332 DUF655 HHH HhH-GPD HHH_2 HHH_3 HHH_4 HHH_5 HHH_6 HHH_7 HHH_8 IMS_HHH PsbU RNA_pol_A_CTD T2SSK TfoX_C Transposase_20
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
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Curation and family details
|Seed source:||Pfam-B_280 (release 5.2)|
|Number in seed:||91|
|Number in full:||2270|
|Average length of the domain:||84.60 aa|
|Average identity of full alignment:||26 %|
|Average coverage of the sequence by the domain:||25.05 %|
|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:||13|
|Download:||download the raw HMM for this family|
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