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DNA repair protein MutS, domain III superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   DNA repair protein MutS, domain III [ 48333]
Superfamily:   DNA repair protein MutS, domain III [ 48334]
Families:   DNA repair protein MutS, domain III [ 48335]


Superfamily statistics
Genomes (2,694) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 6,598 28,964 8
Proteins 6,567 28,941 8


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

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) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.000000004981 Least Informative Direct
Biological Process (BP) primary metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.000000001844 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00000000001087 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.7704 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) reproduction 0.000000000000009171 Moderately Informative Direct
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.00006712 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.0009507 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.007281 Moderately Informative Inherited
Biological Process (BP) immune system process 0.03303 Moderately Informative Inherited
Biological Process (BP) system development 0.6586 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) cell cycle process 0.0000000000001809 Informative Direct
Biological Process (BP) single organism reproductive process 0 Informative Direct
Biological Process (BP) chromosome organization 0.000003309 Informative Direct
Biological Process (BP) nuclear division 0 Highly Informative Direct
Biological Process (BP) DNA recombination 0.0009189 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.000000000000003764 Highly Informative Direct
Biological Process (BP) meiotic cell cycle 0.0000000000005231 Highly Informative Direct
Biological Process (BP) nuclear chromosome segregation 0.08445 Highly Informative Inherited
Molecular Function (MF) binding 0.0000004021 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.02522 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.00008329 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.000002585 Moderately Informative Direct
Molecular Function (MF) anion binding 0.0003341 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.002032 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.009638 Moderately Informative Inherited
Molecular Function (MF) DNA binding 0 Informative Direct
Molecular Function (MF) ATPase activity 0.00000003033 Informative Direct
Molecular Function (MF) purine nucleotide binding 0.0000006057 Informative Direct
Molecular Function (MF) ribonucleotide binding 0.000000737 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.0000001896 Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.00004315 Highly Informative Direct
Molecular Function (MF) ATP binding 0.000000009157 Highly Informative Direct
Cellular Component (CC) macromolecular complex 0.0004507 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.000002481 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.001192 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.3348 Least Informative Inherited
Cellular Component (CC) nuclear part 0.000002133 Moderately Informative Direct
Cellular Component (CC) chromosome 0.0000002039 Informative Direct

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.2476Least InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0Least InformativeDirect
Phenotypic Abnormality (PA)Neoplasm0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal genital system morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Neoplasm of the genitourinary tract0InformativeDirect
Phenotypic Abnormality (PA)Endometrial carcinoma0Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0Least InformativeDirect
Mammalian Phenotype (MP)abnormal metabolism0.002234Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.006454Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.00918Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.04103Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal DNA repair0.00004678InformativeDirect
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.0001806InformativeDirect
Mammalian Phenotype (MP)increased carcinoma incidence0.0002182InformativeDirect
Mammalian Phenotype (MP)abnormal mismatch repair0.0000000007276Highly InformativeDirect
Mammalian Phenotype (MP)increased skin tumor incidence0.00000312Highly InformativeDirect
Mammalian Phenotype (MP)increased alimentary system tumor incidence0.00001072Highly InformativeDirect
Mammalian Phenotype (MP)increased adenocarcinoma incidence0.00003303Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processMeiosis0.00000006368InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationHydrolase0.4415Least InformativeInherited
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR007696 SSF48334 Protein matches
Abstract

This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with MutS_V, MutS_II, MutS_I and MutS_IV. 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. The aligned region corresponds with domain III, which is central to the structure of Thermus aquaticus MutS.


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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · 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 III 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 III 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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]