UniProtKB/SwissProt variant VAR

Variant information

Variant position:

20

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

Type of variant:

Polymorphism

The variants are classified into three categories: Disease, Polymorphism and Unclassified.

Disease: Variants implicated in disease according to literature reports.
Polymorphism: Variants not reported to be implicated in disease.
Unclassified: Variants with uncertain implication in disease according to literature reports. Evidence against or in favor of a pathogenic role is limited and/or conflicting.

Residue change:

From Leucine (L) to Arginine (R) at position 20 (L20R, p.Leu20Arg).

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 hydrophobic (L) 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

Variant description:

In Le(-).

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs28362459 [ dbSNP | Ensembl ]

Sequence information

Variant position:

20

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

Protein sequence length:

361

The length of the canonical sequence.

Location on the sequence:

MDPLGAAKPQWPWRRCLAA L LFQLLVAVCFFSYLRVSRDD

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                         MDPLGAAKPQWPWRRCLAALLFQLLVAVCFFSYLRVSRDD

Chimpanzee                    MDPLGAAKPQWPWRRCLAALLFQLLVAVCFFSYLRVSRDD

Bovine                        MYPPGCAKVKCSWHHCLPGLLLQLLLALCFFSYLRMSQEK

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 – 361	Galactoside 3(4)-L-fucosyltransferase
Transmembrane	16 – 34	Helical; Signal-anchor for type II membrane protein

Literature citations

Submission
SeattleSNPs variation discovery resource;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS SER-5; ARG-20; ARG-68; MET-105; CYS-160; ASN-162; SER-170; ARG-223; MET-270; MET-325 AND GLN-327;

Alpha (1,3/1,4)fucosyltransferase (FucT-III) gene is inactivated by a single amino acid substitution in Lewis histo-blood type negative individuals.
Nishihara S.; Yazawa S.; Iwasaki H.; Nakazato M.; Kudo T.; Ando T.; Narimatsu H.;
Biochem. Biophys. Res. Commun. 196:624-631(1993)
Cited for: VARIANTS LE(-) ARG-20; SER-170 AND ALA-336;

Analysis of Lewis fucosyltransferase genes from the human gastric mucosa of Lewis-positive and -negative individuals.
Koda Y.; Kimura H.; Mekada E.;
Blood 82:2915-2919(1993)
Cited for: VARIANTS LE(-) ARG-20 AND SER-170;

Molecular basis for Lewis alpha(1,3/1,4)-fucosyltransferase gene deficiency (FUT3) found in Lewis-negative Indonesian pedigrees.
Mollicone R.; Reguigne I.; Kelly R.J.; Fletcher A.; Watt J.; Chatfield S.; Aziz A.; Cameron H.S.; Weston B.W.; Lowe J.B.; Oriol R.;
J. Biol. Chem. 269:20987-20994(1994)
Cited for: VARIANTS LE(-) ARG-20 AND LYS-356;

DNA sequencing and screening for point mutations in the human Lewis 'FUT3' gene enables molecular genotyping of the human Lewis blood group system.
Elmgren A.; Boerjeson C.; Svensson L.; Rydberg L.; Larson G.;
Vox Sang. 70:97-103(1996)
Cited for: VARIANTS LE(-) ARG-20; ARG-68; MET-105 AND LYS-356;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P21217: Variant p.Leu20Arg