UniProtKB/Swiss-Prot P05106: Variant p.Leu59Pro

Integrin beta-3
Gene: ITGB3
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Variant information Variant position:

59 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 Leucine (L) to Proline (P) at position 59 (L59P, p.Leu59Pro). 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:

Similar physico-chemical property. Both residues are medium size and hydrophobic. The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score:

-3 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:

Position 59 is associated with platelet-specific alloantigen HPA-1 (ZW or PL(A)). HPA-1A/ZW(A)/PL(A1) has Leu-59 and HPA-1B/ZW(B)/PL(A2) has Pro-59. HPA-1A is involved in fetal-maternal alloimmune thromobocytopenia (FMAIT) as well as in neonatal alloimmune thrombocytopenia (NAIT).Position 169 is associated with platelet-specific alloantigen HPA-4 (PEN or YUK). HPA-4A/PEN(A)/YUK(A) has Arg-169 and HPA-4B/PEN(B)/YUK(B) has Gln-169. HPA-4B is involved in neonatal alloimmune thrombocytopenia (NAIT or NATP). - Position 433 is associated with platelet-specific alloantigen MO. MO(-) has Pro-433 and MO(+) has Ala-433. MO(+) is involved in NAIT. - Position 515 is associated with platelet-specific alloantigen CA/TU. CA(-)/TU(-) has Arg-515 and CA(+)/TU(+) has Gln-515. CA(+) is involved in NAIT. - Position 662 is associated with platelet-specific alloantigen SR(A). SR(A)(-) has Arg-662 and SR(A)(+) has Cys-662. - Additional information on the polymorphism described.
Variant description:

In alloantigen HPA-1B. Any additional useful information about the variant.
Other resources:

Links to websites of interest for the variant.

Variant rs5918 [ dbSNP | Ensembl ]

Sequence information Variant position:

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

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

CQQCLAVSPMCAWCSDEALP L GSPRCDLKENLLKDNCAPES 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                         CQQCLAVSPMCAWCSDEALPLGSPRCDLKENLLKDNCAPES

Mouse                         CQQCLAVSPVCAWCSDETLSQGSPRCNLKENLLKDNCAPES

Rat                           CQQCLAVSPVCAWCSDESLPQNSPRCNLKKNLLKDKCSPES

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	27 – 788	Integrin beta-3
Topological domain	27 – 718	Extracellular
Domain	30 – 76	PSI
Disulfide bond	39 – 461
Disulfide bond	42 – 64
Disulfide bond	52 – 75
Beta strand	59 – 61

Literature citations
A new exon II polymorphism in the platelet glycoprotein IIIa.
Pascual C.; Balas A.; Garcia-Sanchez F.; Rodriguez de la Rua A.; Vicario J.L.;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 56-120; VARIANTS PRO-59 AND ARG-66; The human platelet alloantigens, PlA1 and PlA2, are associated with a leucine33/proline33 amino acid polymorphism in membrane glycoprotein IIIa, and are distinguishable by DNA typing.
Newman P.J.; Derbes R.S.; Aster R.H.;
J. Clin. Invest. 83:1778-1781(1989)
Cited for: VARIANT HPA-1B PRO-59; DESCRIPTION OF ALLOANTIGEN SYSTEM PL(A); 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 PRO-59; GLN-169 AND ILE-453; Molecular characterization of Glanzmann's thrombasthenia in Iran: identification of three novel mutations.
Kazemi A.; Abolghasemi H.; Kazemzadeh S.; Vahidi R.; Faranoush M.; Farsinejad A.; Ala F.;
Blood Coagul. Fibrinolysis 28:681-686(2017)
Cited for: VARIANT GT2 GLN-240; VARIANT PRO-59;

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.