UniProtKB/SwissProt variant VAR

Variant information

Variant position:

57

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 Arginine (R) at position 57 (G57R, p.Gly57Arg).

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 large size and basic (R)

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

Polymorphism:

ERMAP is responsible for the Scianna/Radin blood group system which comprises seven different antigens (PubMed:12393480). The Sc1 and Sc2 antigens are resulting from a single variation in position 57; Arg-57 corresponds to the Sc2 antigen and Gly-57 to the Sc1 antigen. The Sc2 antigen is rare with an occurrence of less than 1% in the population while Sc1 is more frequent. Sc3 is not expressed by individuals homozygous for a null allele encoding a truncated protein lacking its extracellular part (Sc-3). The Sc4 antigen corresponding to the previously defined Radin blood group antigen (Rd) is due to a single variation in position 60; Ala-60 corresponds to Sc4/Rd(+), the antigenic form of the protein. Sc4 is found in less than 1% of the population. Sc5/STAR, Sc6/SCER and Sc7/SCAN antigens are due to single variations in positions 47, 81 and 35 respectively. Alloantibodies to the low frequency Sc2 and Sc4 antigens are the cause of hemolytic disease in the newborn (PubMed:15660834, PubMed:16371048).

Additional information on the polymorphism described.

Variant description:

In Sc2 antigen.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs56025238 [ dbSNP | Ensembl ]

Sequence information

Variant position:

57

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

Protein sequence length:

475

The length of the canonical sequence.

Location on the sequence:

FHVALLGGTAELLCPLSLWP G TVPKEVRWLRSPFPQRSQAV

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                         FHVALLGGTAELLCPLSLWPGTVPKEVRWLRSPFPQRSQAV

Mouse                         VYIAPLRDTANLPCPLFLWPNMVLSEMRWYRPGHLPRTQAV

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	30 – 475	Erythroid membrane-associated protein
Topological domain	30 – 155	Extracellular
Domain	30 – 140	Ig-like V-type
Disulfide bond	50 – 126

Literature citations

Scianna antigens including Rd are expressed by ERMAP.
Wagner F.F.; Poole J.; Flegel W.A.;
Blood 101:752-757(2003)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ALLELE SC-3); POLYMORPHISM; VARIANTS BLOOD GROUP SC2 ARG-57 AND SC4 ALA-60; VARIANT TYR-26;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q96PL5: Variant p.Gly57Arg