SUPERFAMILY 1.75 HMM library and genome assignments server

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His-Me finger endonucleases superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   His-Me finger endonucleases [ 54059]
Superfamily:   His-Me finger endonucleases [ 54060] (6)
Families:   Endonuclease I [ 102726]
  HNH-motif [ 54061] (2)
  DNA/RNA non-specific endonuclease [ 54066] (2)
  Intron-encoded homing endonucleases [ 54069] (2)
  Recombination endonuclease VII, N-terminal domain [ 68915]
  Caspase-activated DNase, CAD (DffB, DFF40) [ 110778]


Superfamily statistics
Genomes (1,576) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 5,062 31,431 24
Proteins 4,953 30,781 24


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.0196Least InformativeInherited
Enzyme Commission (EC)Phosphoric diester hydrolases0.00000000000006077Moderately InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0.0000000000004777Moderately InformativeDirect
Enzyme Commission (EC)Nucleotide diphosphatase0Highly InformativeDirect
Enzyme Commission (EC)Phosphodiesterase I0.00000000000008244Highly InformativeDirect

Document: EC annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.0002384Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0InformativeDirect
Enzyme Commission (EC)In phosphorus-containing anhydrides0.000000000000001012InformativeDirect
Enzyme Commission (EC)Endodeoxyribonucleases producing 5'-phosphomonoesters0.001305Highly InformativeInherited

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Xenopus Anatomy (XA) · Enzyme Commission (EC) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 12 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a His-Me finger endonucleases domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 12 hidden Markov models representing the His-Me finger endonucleases superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · Internal database links ]