UniProtKB/SwissProt variant VAR

Variant information

Variant position:

104

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 Threonine (T) to Alanine (A) at position 104 (T104A, p.Thr104Ala).

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 polar (T) to small size and hydrophobic (A)

The physico-chemical property of the reference and variant residues and the change implicated.

BLOSUM score:

0

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 rs17850017 [ dbSNP | Ensembl ]

Sequence information

Variant position:

104

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

Protein sequence length:

145

The length of the canonical sequence.

Location on the sequence:

PEWHRWLHSMTDDPPTTKPL T ARKFIWTNHKFNVTGTPEQY

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                         PEWHRWLHSMTDDPPTTKPLTARKFIWTNHKFNVTGTPEQY

Gorilla                       PEWHRWLHSMTDDPPTTKPLTARKFIWTNHKFNMTGTPEQY

Chimpanzee                    PEWHRWLHSMTDDPPTTKPLTARKFIWTNHKFNVTGTPEQY

Mouse                         PEWHRWLHCMTDDPPTTNPPTARKFIWTNHKFNVSATPEQY

Bovine                        PEWHRWLHCMTDDPPTVKPPTARKFIWTNHKFNLSGTPQQY

Caenorhabditis elegans        PEWHSWLHHITDDAPSVKPPPTQDWVLEHKENTSIYADKKY

Slime mold                    PEYHSWIHHVSDKLPSEMLPFSPTYK-RPHIANPTGTDGAY

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 – 145	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
Alternative sequence	58 – 145	RHRWVVYTTEMNGKNTFWDVDGSMVPPEWHRWLHSMTDDPPTTKPLTARKFIWTNHKFNVTGTPEQYVPYSTTRKKIQEWIPPSTPYK -> IVGFTV. In isoform 2.

Literature citations

Cloning of human full-length CDSs in BD Creator(TM) system donor vector.
Kalnine N.; Chen X.; Rolfs A.; Halleck A.; Hines L.; Eisenstein S.; Koundinya M.; Raphael J.; Moreira D.; Kelley T.; LaBaer J.; Lin Y.; Phelan M.; Farmer A.;
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]; VARIANT ALA-104;

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]; VARIANT ALA-104;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q9UI09: Variant p.Thr104Ala