Summary: HNH endonuclease
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HNH endonuclease Provide feedback
No Pfam abstract.
Shub DA, Goodrich-Blair H, Eddy SR; , Trends Biochem Sci 1994;19:402-404.: Amino acid sequence motif of group I intron endonucleases is conserved in open reading frames of group II introns. PUBMED:7817395 EPMC:7817395
Dalgaard JZ, Klar AJ, Moser MJ, Holley WR, Chatterjee A, Mian IS; , Nucleic Acids Res 1997;25:4626-4638.: Statistical modeling and analysis of the LAGLIDADG family of site-specific endonucleases and identification of an intein that encodes a site-specific endonuclease of the HNH family. PUBMED:9358175 EPMC:9358175
Internal database links
|Similarity to PfamA using HHSearch:||ICEA DUF968 HNH_2 HNH_4 HNH_5|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR002711HNH endonuclease is found in bacteria and viruses [PUBMED:9358175, PUBMED:7920259, PUBMED:7817395]. This family includes pyocins, colicins and anaredoxins.
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Molecular function||endonuclease activity (GO:0004519)|
|nucleic acid binding (GO:0003676)|
- the number of sequences which exhibit this architecture
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This example describes an architecture with one
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This superfamily defined originally by SCOP contains a diverse range of endonucleases. Later Grishin identified the MH1 domain as belonging to the superfamily .
The clan contains the following 19 members:AHH Colicin-DNase DUF1524 Endonuclea_NS_2 Endonuclease_1 Endonuclease_7 Endonuclease_NS GH-E HNH HNH_2 HNH_3 HNH_4 HNH_5 ICEA LHH MH1 NinG WHH zf-His_Me_endon
We make a range of alignments for each Pfam-A family:
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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
|Number in seed:||92|
|Number in full:||7400|
|Average length of the domain:||47.60 aa|
|Average identity of full alignment:||26 %|
|Average coverage of the sequence by the domain:||18.89 %|
|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:||18|
|Download:||download the raw HMM for this family|
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There are 2 interactions for this family. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
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 HNH domain has been found. There are 3 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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