Gene Gene information from NCBI Gene database.
Entrez ID 4436
Gene name MutS homolog 2
Gene symbol MSH2
Synonyms (NCBI Gene)
COCA1FCC1HNPCCHNPCC1LCFS2LYNCH1MMRCS2MSH-2hMSH2
Chromosome 2
Chromosome location 2p21-p16.3
Summary This locus is frequently mutated in hereditary nonpolyposis colon cancer (HNPCC). When cloned, it was discovered to be a human homolog of the E. coli mismatch repair gene mutS, consistent with the characteristic alterations in microsatellite sequences (RE
SNPs SNP information provided by dbSNP.
854
SNP ID Visualize variation Clinical significance Consequence
rs11309117 AAAAAAAAAAAAAAAA>-,AA,AAA,AAAA,AAAAA,AAAAAA,AAAAAAA,AAAAAAAA,AAAAAAAAA,AAAAAAAAAA,AAAAAAAAAAA,AAAAAAAAAAAA,AAAAAAAAAAAAA,AAAAAAAAAAAAAA,AAAAAAAAAAAAAAA,AAAAAAAAAAAAAAAAA,AAAAAAAAAAAAAAAAAAAAAAA,AAAAAAAAAAAAAAAAAAAAAAAA,AAAAAAAAAAAAAAAAAAAAAAAAAAAAA,AAAAAA Uncertain-significance, likely-benign, conflicting-interpretations-of-pathogenicity, benign Intron variant
rs12476364 G>A,C,T Likely-pathogenic, pathogenic Splice acceptor variant
rs17217716 C>G,T Benign-likely-benign, conflicting-interpretations-of-pathogenicity, uncertain-significance, benign Coding sequence variant, missense variant, intron variant, non coding transcript variant
rs17217723 A>G,T Uncertain-significance, conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant, intron variant, non coding transcript variant
rs17217772 A>C,G,T Conflicting-interpretations-of-pathogenicity, uncertain-significance, benign Coding sequence variant, missense variant, non coding transcript variant
miRNA miRNA information provided by mirtarbase database.
83
miRTarBase ID miRNA Experiments Reference
MIRT000880 hsa-miR-15a-5p Microarray 18362358
MIRT000879 hsa-miR-16-5p Microarray 18362358
MIRT000460 hsa-miR-155-5p Luciferase reporter assayWestern blotNorthern blot 20351277
MIRT005429 hsa-miR-21-5p Luciferase reporter assayNorthern blotqRT-PCRWestern blot 21078976
MIRT005429 hsa-miR-21-5p Luciferase reporter assayNorthern blotqRT-PCRWestern blot 21078976
Transcription factors Transcription factors information provided by TRRUST V2 database.
3
Transcription factor Regulation Reference
DNMT1 Activation 16473673
MBD2 Unknown 15526354
NF1 Unknown 19639020
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
92
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0000287 Function Magnesium ion binding IDA 16403449
GO:0000400 Function Four-way junction DNA binding IDA 12034830
GO:0000781 Component Chromosome, telomeric region HDA 19135898
GO:0001701 Process In utero embryonic development IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
609309 7325 ENSG00000095002
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P43246
Protein name DNA mismatch repair protein Msh2 (hMSH2) (MutS protein homolog 2)
Protein function Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When boun
PDB 2O8B , 2O8C , 2O8D , 2O8E , 2O8F , 3THW , 3THX , 3THY , 3THZ , 8AG6 , 8OLX , 8OM5 , 8OM9 , 8OMA , 8OMO , 8OMQ , 8R7C , 8R7E , 8R7V , 8RZ7 , 8RZ8 , 8RZ9
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01624 MutS_I 17 132 MutS domain I Domain
PF05188 MutS_II 145 290 MutS domain II Domain
PF05192 MutS_III 305 609 MutS domain III Domain
PF05190 MutS_IV 473 569 MutS family domain IV Domain
PF00488 MutS_V 665 852 MutS domain V Domain
Tissue specificity TISSUE SPECIFICITY: Ubiquitously expressed. {ECO:0000269|PubMed:10856833}.
Sequence
MAVQPKETLQLESAAEVGFVRFFQGMPEKPTTTVRLFDRGDFYTAHGEDALLAAREVFKT
QGVIKYMGPAGAKNLQSVVLSKMNFESFVKDLLLVRQYRVEVYKNRAGNKASKENDWYLA
YKASPGNLSQFE
DILFGNNDMSASIGVVGVKMSAVDGQRQVGVGYVDSIQRKLGLCEFPD
NDQFSNLEALLIQIGPKECVLPGGETAGDMGKLRQIIQRGGILITERKKADFSTKDIYQD
LNRLLKGKKGEQMNSAVLPEMENQVAVSSLSAVIKFLELLSDDSNFGQFE
LTTFDFSQYM
KLDIAAVRALNLFQGSVEDTTGSQSLAALLNKCKTPQGQRLVNQWIKQPLMDKNRIEERL
NLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCYRLYQGINQLPNVIQA
LEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVENHEFLVKP
SFDPNLSE
LREIMNDLEKKMQSTLISAARDLGLDPGKQIKLDSSAQFGYYFRVTCKEEKVLRNNKNFS
TVDIQKNGVKFTNSKLTSLNEEYTKNKTE
YEEAQDAIVKEIVNISSGYVEPMQTLNDVLA
QLDAVVSFA
HVSNGAPVPYVRPAILEKGQGRIILKASRHACVEVQDEIAFIPNDVYFEKD
KQMFHIITGPNMGGKSTYIRQTGVIVLMAQIGCFVPCESAEVSIVDCILARVGAGDSQLK
GVSTFMAEMLETASILRSATKDSLIIIDELGRGTSTYDGFGLAWAISEYIATKIGAFCMF
ATHFHELTALANQIPTVNNLHVTALTTEETLTMLYQVKKGVCDQSFGIHVAELANFPKHV
IECAKQKALELE
EFQYIGESQGYDIMEPAAKKCYLEREQGEKIIQEFLSKVKQMPFTEMS
EENITIKLKQLKAEVIAKNNSFVNEIISRIKVTT
Sequence length 934
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Platinum drug resistance
Mismatch repair
Pathways in cancer
Colorectal cancer
  Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha)
Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta)
Defective Mismatch Repair Associated With MSH3
Defective Mismatch Repair Associated With MSH2
Defective Mismatch Repair Associated With MSH6
TP53 Regulates Transcription of DNA Repair Genes
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
89
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Breast and/or ovarian cancer Likely pathogenic; Pathogenic rs63750398, rs587779094, rs267607984 RCV001270946
RCV001270944
RCV001270945
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Breast carcinoma Pathogenic rs193922376, rs63750508, rs63750199, rs63749848 RCV001579303
RCV001650893
RCV001262885
RCV001262888
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Breast-ovarian cancer, familial, susceptibility to, 1 Likely pathogenic; Pathogenic rs1558519505 RCV004584975
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Carcinoma of colon Pathogenic; Likely pathogenic rs2103865151, rs2103865247, rs2103974901, rs2103974925, rs2104016560, rs2104023773, rs2104097954, rs2104242036, rs2104247370, rs2104435254, rs2104082025, rs2104334736, rs2104367663, rs2104368001, rs2104409719
View all (41 more)
RCV001356993
RCV001356783
RCV001356850
RCV001355108
RCV001357072
View all (51 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ADRENAL HYPERPLASIA, CONGENITAL, DUE TO 21-HYDROXYLASE DEFICIENCY Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ALZHEIMER DISEASE GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Ataxia-telangiectasia syndrome Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Actinic keratosis Actinic keratosis BEFREE 16456327
★☆☆☆☆
Found in Text Mining only
Acute leukemia Leukemia BEFREE 10397740
★☆☆☆☆
Found in Text Mining only
Acute lymphocytic leukemia Lymphocytic Leukemia BEFREE 10397740, 18955159, 21946537, 24528056, 24990612
★☆☆☆☆
Found in Text Mining only
Acute monocytic leukemia Monocytic Leukemia BEFREE 10397740
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 11150379, 11301392, 11306499, 11532035, 12118112, 12627520, 12823711, 15676154, 16158938, 16614121, 16937450, 22865300, 24185125, 24360395, 27258561
View all (2 more)
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma LHGDN 11474654
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of colon Adenocarcinoma Of Colon BEFREE 12139636, 17941949, 18987546, 22376079
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of duodenum Adenocarcinoma Of Duodenum HPO_DG
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of large intestine Colorectal Cancer BEFREE 27459116
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of large intestine Colorectal Cancer CGI_DG
★☆☆☆☆
Found in Text Mining only