UniProtKB/SwissProt variant VAR

Variant information

Variant position:

603

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 Aspartate (D) to Asparagine (N) at position 603 (D603N, p.Asp603Asn).

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 medium size and acidic (D) to medium size and polar (N)

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

Other resources:

Links to websites of interest for the variant.

Variant rs6127 [ dbSNP | Ensembl ]

Sequence information

Variant position:

603

The position of the amino-acid change on the UniProtKB canonical protein sequence.

Protein sequence length:

830

The length of the canonical sequence.

Location on the sequence:

LDCSDTRGEFNVGSTCHFSC D NGFKLEGPNNVECTTSGRWS

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                         LDCSDTRGEFNVGSTCHFSCDNGFKLEGPNNVECTTSGRWS

Mouse                         LDCSHVHGEFGVGSICHFSCNEDFELLGSENVECTVSGRWS

Rat                           LDCSHVHGEFSVGSTCHFSCNEEFELLGSRNVECTVSGRWS

Bovine                        -----------------------------------------

Sheep                         LDCPDTHGEFIVGSICHFSCNEGLKLEGSNHVECTASGRWT

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	42 – 830	P-selectin
Topological domain	42 – 771	Extracellular
Domain	570 – 631	Sushi 7
Disulfide bond	572 – 616
Disulfide bond	602 – 629

Literature citations

Cloning of GMP-140, a granule membrane protein of platelets and endothelium: sequence similarity to proteins involved in cell adhesion and inflammation.
Johnston G.I.; Cook R.G.; McEver R.P.;
Cell 56:1033-1044(1989)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA]; VARIANTS ILE-274 AND ASN-603;

Submission
SeattleSNPs variation discovery resource;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS ARG-179; MET-209; PHE-230; ILE-274; ASN-331; LEU-385; LYS-542; ASN-603; ALA-619; VAL-631; VAL-640; ASN-661; SER-673 AND PRO-756;

The P-selectin gene is highly polymorphic: reduced frequency of the Pro715 allele carriers in patients with myocardial infarction.
Herrmann S.M.; Ricard S.; Nicaud V.; Mallet C.; Evans A.; Ruidavets J.B.; Arveiler D.; Luc G.; Cambien F.;
Hum. Mol. Genet. 7:1277-1284(1998)
Cited for: VARIANTS ASN-331; ASN-603; VAL-640 AND PRO-756;

Characterization of single-nucleotide polymorphisms in coding regions of human genes.
Cargill M.; Altshuler D.; Ireland J.; Sklar P.; Ardlie K.; Patil N.; Shaw N.; Lane C.R.; Lim E.P.; Kalyanaraman N.; Nemesh J.; Ziaugra L.; Friedland L.; Rolfe A.; Warrington J.; Lipshutz R.; Daley G.Q.; Lander E.S.;
Nat. Genet. 22:231-238(1999)
Cited for: VARIANTS MET-209; LEU-301; ASN-331; VAL-365; PHE-500; ASN-603; VAL-640 AND PRO-756;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P16109: Variant p.Asp603Asn