UniProtKB/SwissProt variant VAR

Variant information

Variant position:

42

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

Type of variant:

LP/P [Disclaimer]

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 Cysteine (C) to Tyrosine (Y) at position 42 (C42Y, p.Cys42Tyr).

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 (C) to large size and aromatic (Y)

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 TPID.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs121964848 [ dbSNP | Ensembl ]

Sequence information

Variant position:

42

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

Protein sequence length:

249

The length of the canonical sequence.

Location on the sequence:

LGELIGTLNAAKVPADTEVV C APPTAYIDFARQKLDPKIAV

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                         LGELIGTLNAAKVP-ADTEVVCAPPTAYIDFARQKL-DPKIAV

Gorilla                       LGELIGTLNAAKVP-ADTKVVCAPPTAYIDFARQKL-DPKI

                              LGELITTLNAAKVP-ADTEVVCAPPTAYIDFARQKL-DAKI

Rhesus macaque                LGELIGTLNAAKVP-ADTEVVCAPPTAYIDFARQKL-DPKI

Chimpanzee                    LGELIGTLNAAKVP-ADTEVVCAPPTAYIDFARQKL-DPKI

Mouse                         LGELICTLNAANVP-AGTEVVCAPPTAYIDFARQKL-DPKI

Rat                           LGELICTLNAAKLP-ADTEVVCAPPTAYIDFARQKL-DPKI

Pig                           LGELINTLNAAKLP-ADTEVVCAPPTAYIDFARQKL-DPKI

Bovine                        LGELINTLNAAKVP-ADTEVVCAPPTAYIDFARQKL-DPKI

Rabbit                        LGELITTLNAAKVP-ADTEVVCAPPTAYIDFARQKL-DPKI

Chicken                       LGELIHTLNGAKLS-ADTEVVCGAPSIYLDFARQKL-DAKI

Xenopus laevis                LGELINTLNSGKMN-ADTEVVCGAPAIYLDFARQKL-DAKI

Xenopus tropicalis            LTELINTLNSGKIS-ADTEVVCGAPTIYLDFARQKL-DAKF

Caenorhabditis elegans        VDGIVTFLNASADN-SSVDVVVAPPAPYLAYAKSKL-KAGV

Drosophila                    IAEIAKTLSSAALD-PNTEVVIGCPAIYLMYARNLL-PCEL

Slime mold                    LESLSKGMNESVENKENVDIFIAPSYPYLEFLSNKLDNKKF

Baker's yeast                 IKEIVERLNTASIP-ENVEVVICPPATYLDYSVSLVKKPQV

Fission yeast                 MKTIIEGLNTTKLNVGDVETVIFPQNMYLITTRQQV-KKDI

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 – 249	Triosephosphate isomerase
Alternative sequence	1 – 82	Missing. In isoform 3.
Beta strand	38 – 43

Literature citations

Evidence for founder effect of the Glu104Asp substitution and identification of new mutations in triosephosphate isomerase deficiency.
Arya R.; Lalloz M.R.A.; Bellingham A.J.; Layton D.M.;
Hum. Mutat. 10:290-294(1997)
Cited for: VARIANTS TPID TYR-42; ASP-105 AND VAL-171;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P60174: Variant p.Cys42Tyr