SUPERFAMILY 1.75 HMM library and genome assignments server

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Homing endonucleases superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Homing endonuclease-like [ 55603] (2)
Superfamily:   Homing endonucleases [ 55608] (2)
Families:   Group I mobile intron endonuclease [ 55609] (5)
  Intein endonuclease [ 55614] (2)


Superfamily statistics
Genomes (1,189) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 2,225 22,527 26
Proteins 1,864 18,275 18


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 acid anhydrides0.000000003686Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.0000002792Least InformativeDirect
Enzyme Commission (EC)Isomerases0.001094Least InformativeInherited
Enzyme Commission (EC)DNA-directed DNA polymerase0.0000000000002981Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.01072Moderately InformativeInherited
Enzyme Commission (EC)Sole sub-subclass for isomerases that do not belon1InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembran0.4538InformativeInherited
Enzyme Commission (EC)H(+)-transporting two-sector ATPase0.000004991Highly InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.00005519Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.03165Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases0.9439Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.00000007584Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.0000003177Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.0015Moderately InformativeInherited
Enzyme Commission (EC)Isomerases altering macromolecular conformation0.00000000000001749InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0.00000000000008385InformativeDirect
Enzyme Commission (EC)DNA helicase0.0000000000001339InformativeDirect
Enzyme Commission (EC)Catalysing the translocation of hydrons0.00001015InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.0001681InformativeDirect
Enzyme Commission (EC)DNA topoisomerase (ATP-hydrolyzing)2.565e-16Highly InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor0.000000165Highly InformativeDirect
Enzyme Commission (EC)Hydron translocation linked to the hydrolysis of a nucleoside triphosphate0.000005077Highly InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · 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 22 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 Homing 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 22 hidden Markov models representing the Homing 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) · Enzyme Commission (EC) · Internal database links ]