UniProtKB/Swiss-Prot P12830: Variant p.Ser270Ala

Cadherin-1
Gene: CDH1
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Variant information Variant position:

270 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 Serine (S) to Alanine (A) at position 270 (S270A, p.Ser270Ala). 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 small size and polar (S) to small size and hydrophobic (A) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score:

1 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
Variant description:

May contribute to prostate cancer. Any additional useful information about the variant.
Other resources:

Links to websites of interest for the variant.

Variant rs587776399 [ dbSNP | Ensembl ]

Sequence information Variant position:

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

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

ITVTDQNDNKPEFTQEVFKG S VMEGALPGTSVMEVTATDAD 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                         ITVTDQNDNKPEFTQEVFKGSVMEGALPGTSVMEVTATDAD

                              ITVTDQNDNKPEFTQAVFQGSVTEGALPGTSVMQVTATDAD

Mouse                         ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDAD

Rat                           VTVTDQNDNRPEFIQEVFEGSVAEGALPGTSVMQVSATDAD

Bovine                        ITVTDQNDNKPQFTQEVFKASALEGALPGTSVMQVTATDID

Chicken                       ITVMDQNDNKPVFIKEVFVGYIEENAKPGTSVMTVNATDAD

Xenopus laevis                IKVQDQNDNDPVFTQSVFEGSVPEGSKPGTAVMTVSATDAD

Zebrafish                     VTVTDQNDNKPVFTQNPFNGNVPEALEKGEVFMTVTATDAD

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	155 – 882	Cadherin-1
Topological domain	155 – 709	Extracellular
Domain	263 – 375	Cadherin 2
Binding site	257 – 257
Binding site	257 – 257
Binding site	288 – 288
Glycosylation	280 – 280	O-linked (Man...) serine
Glycosylation	285 – 285	O-linked (Man...) threonine
Beta strand	265 – 272

Literature citations
Association of E-cadherin germ-line alterations with prostate cancer.
Ikonen T.; Matikainen M.; Mononen N.; Hyytinen E.R.; Helin H.J.; Tommola S.; Tammela T.L.; Pukkala E.; Schleutker J.; Kallioniemi O.-P.; Koivisto P.A.;
Clin. Cancer Res. 7:3465-3471(2001)
Cited for: VARIANT ALA-270;

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.