UniProtKB/SwissProt variant VAR

Variant information

Variant position:

1377

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 Tryptophan (W) to Arginine (R) at position 1377 (W1377R, p.Trp1377Arg).

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 large size and aromatic (W) to large size and basic (R)

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 rs8140958 [ dbSNP | Ensembl ]

Sequence information

Variant position:

1377

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

Protein sequence length:

2365

The length of the canonical sequence.

Location on the sequence:

MLPAKQAELTRRSQAEPPHP W SPEKRPEGDRQLQGSPLPPR

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                         MLPAKQAELTRRSQAEPPHPWSPEKRPEGDRQLQGSPLPPR

Mouse                         KPSAKQAEPTRQSRTGPPHPKSPDKRPEGDRQLQRTSPPAR

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 – 2365	TRIO and F-actin-binding protein
Region	1168 – 1554	Disordered
Alternative sequence	1 – 1772	Missing. In isoform 1.
Alternative sequence	62 – 1774	Missing. In isoform 6 and isoform 7.
Alternative sequence	1317 – 2365	Missing. In isoform 5.

Literature citations

Mutations in a novel isoform of TRIOBP that encodes a filamentous-actin binding protein are responsible for DFNB28 recessive nonsyndromic hearing loss.
Shahin H.; Walsh T.; Sobe T.; Abu Sa'ed J.; Abu Rayan A.; Lynch E.D.; Lee M.K.; Avraham K.B.; King M.-C.; Kanaan M.;
Am. J. Hum. Genet. 78:144-152(2006)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3); TISSUE SPECIFICITY; VARIANTS DFNB28 ARG-1019 AND ARG-1377;

Identification of novel transcribed sequences on human chromosome 22 by expressed sequence tag mapping.
Hirosawa M.; Nagase T.; Murahashi Y.; Kikuno R.; Ohara O.;
DNA Res. 8:1-9(2001)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 713-2365; VARIANT ARG-1377;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q9H2D6: Variant p.Trp1377Arg