SUPERFAMILY 1.75 HMM library and genome assignments server


Origin of replication-binding domain, RBD-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Origin of replication-binding domain, RBD-like [ 55463]
Superfamily:   Origin of replication-binding domain, RBD-like [ 55464] (5)
Families:   The origin DNA-binding domain of SV40 T-antigen [ 55465]
  DNA-binding domain of REP protein [ 82728]
  Replication initiation protein E1 [ 64332]
  Replication protein Rep, nuclease domain [ 75492]
  Relaxase domain [ 103120] (2)


Superfamily statistics
Genomes (270) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 428 6,919 10
Proteins 427 6,917 10


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Molecular Function (MF) binding 0.001628 Least Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0Moderately InformativeDirect

Document: EC 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 anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)DNA helicase0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processHost-virus interaction0Moderately InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processVirus entry into host cell2.451e-09InformativeDirect
Biological processViral immunoevasion0.4536InformativeInherited
Cellular componentHost nucleus0InformativeDirect
Cellular componentHost cytoplasm4.392e-15InformativeDirect
Coding sequence diversityAlternative splicing1.995e-06Least InformativeDirect
Developmental stageEarly protein0Least InformativeDirect
DiseaseOncogene0Moderately InformativeDirect
DomainZinc-finger1.159e-05Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase0.8196Least InformativeInherited
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationActivator2.558e-10Moderately InformativeDirect
Post-translational modificationNuclease3.042e-09Moderately InformativeDirect
Post-translational modificationHelicase0InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · 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 7 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 Origin of replication-binding domain, RBD-like 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 7 hidden Markov models representing the Origin of replication-binding domain, RBD-like 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 · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]