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Conserved domains on  [gi|1859661300|ref|YP_009849520|]
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HNH endonuclease [Gordonia phage Kenosha]

Protein Classification

HNH endonuclease family protein( domain architecture ID 1640)

HNH endonuclease family protein, similar to Physarum polycephalum intron-encoded endonuclease I-Ppoi which mediates the mobility of intron 3 in the ribosomal DNA

EC:  3.1.-.-
Gene Ontology:  GO:0004519

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HNHc super family cl00083
HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic ...
 53-94 1.09e-03

HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins.


The actual alignment was detected with superfamily member pfam13392:

Pssm-ID: 469607  Cd Length: 46  Bit Score: 35.26  E-value: 1.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1859661300  53 RKVSLLVAQAYLGEPPENYnSVVHLNGDRSDCQASNLAWRPR 94
Cdd:pfam13392   1 KYAHRVAWELHNGPIPDGM-VVDHIDGDRRNNRPENLRLVTR 41
 
Name Accession Description Interval E-value
HNH_3 pfam13392
HNH endonuclease; This is a zinc-binding loop of Fold group 7 as found in ...
 53-94 1.09e-03

HNH endonuclease; This is a zinc-binding loop of Fold group 7 as found in endo-deoxy-ribonucleases and HNH nucleases.


Pssm-ID: 433169  Cd Length: 46  Bit Score: 35.26  E-value: 1.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1859661300  53 RKVSLLVAQAYLGEPPENYnSVVHLNGDRSDCQASNLAWRPR 94
Cdd:pfam13392   1 KYAHRVAWELHNGPIPDGM-VVDHIDGDRRNNRPENLRLVTR 41
 
Name Accession Description Interval E-value
HNH_3 pfam13392
HNH endonuclease; This is a zinc-binding loop of Fold group 7 as found in ...
 53-94 1.09e-03

HNH endonuclease; This is a zinc-binding loop of Fold group 7 as found in endo-deoxy-ribonucleases and HNH nucleases.


Pssm-ID: 433169  Cd Length: 46  Bit Score: 35.26  E-value: 1.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1859661300  53 RKVSLLVAQAYLGEPPENYnSVVHLNGDRSDCQASNLAWRPR 94
Cdd:pfam13392   1 KYAHRVAWELHNGPIPDGM-VVDHIDGDRRNNRPENLRLVTR 41
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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