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DNA repair protein MutS, domain II superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Ribonuclease H-like motif [ 53066] (7)
Superfamily:   DNA repair protein MutS, domain II [ 53150]
Families:   DNA repair protein MutS, domain II [ 53151]


Superfamily statistics
Genomes (2,553) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,446 16,293 8
Proteins 3,444 16,293 8


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 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00000000000001086 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.000000000000419 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.00000001384 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.000007672 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.05058 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.178 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.5134 Least Informative Inherited
Biological Process (BP) developmental process 0.07078 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.2419 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.9557 Least Informative Inherited
Biological Process (BP) reproduction 0.000000000142 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0 Moderately Informative Direct
Biological Process (BP) organelle organization 0.1294 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.02824 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.01769 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.09276 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.01287 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.001383 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.07139 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.04035 Moderately Informative Inherited
Biological Process (BP) immune system process 0.005631 Moderately Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.0003882 Informative Direct
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 0.000000002424 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0.00000002026 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.0000000734 Informative Direct
Biological Process (BP) cell cycle process 0.00000007288 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.00000004626 Informative Direct
Biological Process (BP) organophosphate catabolic process 0.000006583 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.00000000001329 Informative Direct
Biological Process (BP) chromosome organization 0.0003677 Informative Direct
Biological Process (BP) reproductive system development 0.0004978 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.00001294 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0.0000473 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.05926 Informative Inherited
Biological Process (BP) DNA recombination 0.0007456 Highly Informative Direct
Biological Process (BP) meiosis 0.0000002393 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 0.0000000005644 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate catabolic process 0.000000008168 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0.00000001202 Highly Informative Direct
Biological Process (BP) purine ribonucleoside monophosphate metabolic process 0.000000001579 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate catabolic process 0.000000007564 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate metabolic process 0.00000001261 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0.00000001072 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.000000006846 Highly Informative Direct
Molecular Function (MF) binding 0.000001198 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.002789 Least Informative Inherited
Molecular Function (MF) anion binding 0.00002877 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 0.005167 Moderately Informative Inherited
Molecular Function (MF) nucleotide binding 0.000001338 Informative Direct
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.0000005998 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 0.0000001224 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.00000008544 Informative Direct
Molecular Function (MF) ATP binding 0.00000000639 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0.000007963 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0009065 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0181 Least Informative Inherited
Cellular Component (CC) protein complex 0.002969 Least Informative Inherited
Cellular Component (CC) nuclear part 0.00002978 Moderately Informative Direct

Document: GO annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR007860 SSF53150 Protein matches
Abstract This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with several other domains, , , and . The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [PubMed8036718]. This domain corresponds to domain II in Thermus aquaticus MutS as characterised in [PubMed11048710], and has similarity to RNAse-H-like domains (see ).

InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · 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 2 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 DNA repair protein MutS, domain II 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 2 hidden Markov models representing the DNA repair protein MutS, domain II 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]