SUPERFAMILY 1.75 HMM library and genome assignments server

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RecA protein, C-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Anti-LPS factor/recA domain [ 54751] (2)
Superfamily:   RecA protein, C-terminal domain [ 54752]
Families:   RecA protein, C-terminal domain [ 54753]


Superfamily statistics
Genomes (2,605) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 2,824 18,490 7
Proteins 2,821 18,487 7


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)
Biological Process (BP) cellular aromatic compound metabolic process 0.0005916 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.0005411 Least Informative Direct
Biological Process (BP) response to stimulus 0.000000000006707 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.01888 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.1181 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.001051 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.001356 Least Informative Inherited
Biological Process (BP) cell communication 0.000008522 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.0001359 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0000000004555 Moderately Informative Direct
Biological Process (BP) DNA metabolic process 0.00000001259 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) response to extracellular stimulus 0.000000006361 Informative Direct
Biological Process (BP) cellular response to extracellular stimulus 0.00000000000075 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processDNA recombination0InformativeDirect
Biological processDNA repair0.0001918InformativeDirect
Biological processSOS response0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · 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 4 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 RecA protein, C-terminal domain 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 4 hidden Markov models representing the RecA protein, C-terminal domain 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) · UniProtKB KeyWords (KW) · Internal database links ]