SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 0 26
Proteins 1,864 0 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 groups0.00006101Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.0005688Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases0.9747Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.000000004361Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.0000003297Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.001466Moderately InformativeInherited
Enzyme Commission (EC)DNA-directed DNA polymerase0.0000000000001169InformativeDirect
Enzyme Commission (EC)DNA helicase0.0000000000001587InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.0001783InformativeDirect
Enzyme Commission (EC)DNA topoisomerase (ATP-hydrolyzing)2.506e-16Highly InformativeDirect
Enzyme Commission (EC)With a disulfide as acceptor0.000000185Highly InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0.5703Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0.0000001831Moderately InformativeDirect
Biological processDNA damage0.3307Moderately InformativeInherited
Biological processDNA replication0.0000000000002251InformativeDirect
Biological processmRNA processing0.0000003818InformativeDirect
Biological processIntron homing0Highly InformativeDirect
Biological processSOS response0.0007384Highly InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
Cellular componentPrimosome0.000000002318Highly InformativeDirect
Post-translational modificationHydrolase0.0000000000003042Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0.0009315Moderately InformativeDirect
Post-translational modificationIsomerase0.5626Moderately InformativeInherited
Post-translational modificationEndonuclease0.0000000000001885InformativeDirect
Post-translational modificationDNA-directed DNA polymerase0.0000000000002037Highly InformativeDirect
Post-translational modificationTopoisomerase0.00000000003441Highly InformativeDirect
Post-translational modificationAutocatalytic cleavage0InformativeDirect
Post-translational modificationProtein splicing0Highly InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 13 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 13 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) · UniProtKB KeyWords (KW) · Internal database links ]