UniProtKB/SwissProt variant VAR

Variant information

Variant position:

900

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 Valine (V) to Isoleucine (I) at position 900 (V900I, p.Val900Ile).

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

Other resources:

Links to websites of interest for the variant.

Variant rs2298083 [ dbSNP | Ensembl ]

Sequence information

Variant position:

900

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

Protein sequence length:

1137

The length of the canonical sequence.

Location on the sequence:

NRSVMAQQANIDRRGKRSPG V FRPEQDPVPRMPFEKSLLEK

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                         NRSVMAQQANIDRRGKRSPGVFRPEQDPVPRMPFE--------------------------------------------------KSLLEK

Mouse                         NRAVMAQQPNMDRRSKRSPGVFRPEQDPVPRMPFEDPKSSP

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	2 – 1137	Protein SMG7
Modified residue	897 – 897	Phosphoserine
Alternative sequence	914 – 914	E -> EDPKSSPLLPPDLLKSLAALEEEEELIFSNPPDLYPALLGPLASLPGRSLF. In isoform 4 and isoform 5.

Literature citations

Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain.
Nagase T.; Seki N.; Ishikawa K.; Ohira M.; Kawarabayasi Y.; Ohara O.; Tanaka A.; Kotani H.; Miyajima N.; Nomura N.;
DNA Res. 3:321-329(1996)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2); VARIANT ILE-900;

The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).
The MGC Project Team;
Genome Res. 14:2121-2127(2004)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 2 AND 4); VARIANT ILE-900;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q92540: Variant p.Val900Ile