UniProtKB/Swiss-Prot P52701: Variant p.Gly39Glu

DNA mismatch repair protein Msh6
Gene: MSH6
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Variant information Variant position:

39 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant:

LB/B The variants are classified into three categories: LP/P, LB/B and US.

LP/P: likely pathogenic or pathogenic.
LB/B: likely benign or benign.
US: uncertain significance

Residue change:

From Glycine (G) to Glutamate (E) at position 39 (G39E, p.Gly39Glu). Indicates the amino acid change of the variant. The one-letter and three-letter codes for amino acids used in UniProtKB/Swiss-Prot are those adopted by the commission on Biochemical Nomenclature of the IUPAC-IUB.
Physico-chemical properties:

Change from glycine (G) to medium size and acidic (E) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score:

-2 The score within a Blosum matrix for the corresponding wild-type to variant amino acid change. The log-odds score measures the logarithm for the ratio of the likelihood of two amino acids appearing by chance. The Blosum62 substitution matrix is used. This substitution matrix contains scores for all possible exchanges of one amino acid with another:

Lowest score: -4 (low probability of substitution).
Highest score: 11 (high probability of substitution).

More information can be found on the following page
Other resources:

Links to websites of interest for the variant.

Variant rs1042821 [ dbSNP | Ensembl ]

Sequence information Variant position:

39 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length:

1360 The length of the canonical sequence.
Location on the sequence:

DANKASARASREGGRAAAAP G ASPSPGGDAAWSEAGPGPRP The residue change on the sequence. Unless the variant is located at the beginning or at the end of the protein sequence, both residues upstream (20) and downstream (20) of the variant will be shown.
Residue conservation:

The multiple alignment of the region surrounding the variant against various orthologous sequences.

Human                         DANKA-SARASREGGRAAAAPGASPSPGGDAAWSEAGPGPRP

Mouse                         DTKKA-AAEASRQGAAAS---GASASRGGDAAWSEAEPGSR

Chicken                       NHQRINLPYENLEASLSRMLFL-----------------SS

Drosophila                    ---GG-TPTNTLLNYFSKS--------------------PA

Slime mold                    TKQPEPIIEEGFDSFFDD-IPTEELEPDLNSIPISSSQQTS

Baker's yeast                 SSQKK-MKQSSLLSFFSKQVP------------------SG

Fission yeast                 DSSAK-TKQKTLFGFFSK-IPNVKQEKSDSTL-------SS

Sequence annotation in neighborhood:

The regions or sites of interest surrounding the variant. In general the features listed are posttranslational modifications, binding sites, enzyme active sites, local secondary structure or other characteristics reported in the cited references. The "Sequence annotation in neighborhood" lines have a fixed format:

Type: the type of sequence feature.
Positions: endpoints of the sequence feature.
Description: contains additional information about the feature.

Type	Positions	Description
Chain	1 – 1360	DNA mismatch repair protein Msh6
Region	1 – 84	Disordered
Modified residue	41 – 41	Phosphoserine
Modified residue	43 – 43	Phosphoserine
Alternative sequence	1 – 302	Missing. In isoform 4.

Literature citations
hMSH2 forms specific mispair-binding complexes with hMSH3 and hMSH6.
Acharya S.; Wilson T.; Gradia S.; Kane M.F.; Guerrette S.; Marsischky G.T.; Kolodner R.D.; Fishel R.;
Proc. Natl. Acad. Sci. U.S.A. 93:13629-13634(1996)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA]; VARIANT GLU-39; SUBUNIT; Submission
NIEHS SNPs program;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS GLU-39; VAL-396; ALA-623 AND VAL-886; A probability-based approach for high-throughput protein phosphorylation analysis and site localization.
Beausoleil S.A.; Villen J.; Gerber S.A.; Rush J.; Gygi S.P.;
Nat. Biotechnol. 24:1285-1292(2006)
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-14; SER-41 AND SER-43; VARIANT [LARGE SCALE ANALYSIS] GLU-39; IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]; Germ-line msh6 mutations in colorectal cancer families.
Kolodner R.D.; Tytell J.D.; Schmeits J.L.; Kane M.F.; Das Gupta R.; Weger J.; Wahlberg S.; Fox E.A.; Peel D.; Ziogas A.; Garber J.E.; Syngal S.; Anton-Culver H.; Li F.P.;
Cancer Res. 59:5068-5074(1999)
Cited for: VARIANTS CRC ILE-285; ARG-566; GLY-803 AND THR-1087; VARIANTS GLU-39; ASP-220; VAL-396 AND LEU-800; Sequence analysis of the mismatch repair gene hMSH6 in the germline of patients with familial and sporadic colorectal cancer.
Plaschke J.; Kruppa C.; Tischler R.; Bocker T.; Pistorius S.; Dralle H.; Rueschoff J.; Saeger H.D.; Fishel R.; Schackert H.K.;
Int. J. Cancer 85:606-613(2000)
Cited for: VARIANT CRC SER-340; VARIANT GLU-39; MSH6 germline mutations are rare in colorectal cancer families.
Peterlongo P.; Nafa K.; Lerman G.S.; Glogowski E.; Shia J.; Ye T.Z.; Markowitz A.J.; Guillem J.G.; Kolachana P.; Boyd J.A.; Offit K.; Ellis N.A.;
Int. J. Cancer 107:571-579(2003)
Cited for: VARIANT CRC ALA-54; VARIANTS GLU-39; ALA-509; MET-854 AND ALA-878;

Disclaimer: Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. They are not in any way intended to be used as a substitute for professional medical advice, diagnostic, treatment or care.