UniProtKB/SwissProt variant VAR

Variant information

Variant position:

60

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 Glycine (G) to Valine (V) at position 60 (G60V, p.Gly60Val).

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 glycine (G) to medium size and hydrophobic (V)

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

Variant description:

In Tottori; unstable.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs281864846 [ dbSNP | Ensembl ]

Sequence information

Variant position:

60

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

Protein sequence length:

142

The length of the canonical sequence.

Location on the sequence:

TKTYFPHFDLSHGSAQVKGH G KKVADALTNAVAHVDDMPNA

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                         TKTYFPHF-DLSHGSAQVKGHGKKVADALTNAVAHVDDMPNA

Gorilla                       TKTYFPHF-DLSHGSAQVKGHGKKVADALTNAVAHVDDMPN

                              TKTYFPHF-DLSPGSAQVKAHGKKVADALTTAVAHLDDLPG

Rhesus macaque                TKTYFPHF-DLSHGSAQVKGHGKKVADALTLAVGHVDDMPN

Chimpanzee                    TKTYFPHF-DLSHGSAQVKGHGKKVADALTNAVAHVDDMPN

Mouse                         TKTYFPHF-DVSHGSAQVKGHGKKVADALASAAGHLDDLPG

Rat                           TKTYFSHI-DVSPGSAQVKAHGKKVADALAKAADHVEDLPG

Pig                           TKTYFPHF-NLSHGSDQVKAHGQKVADALTKAVGHLDDLPG

Bovine                        TKTYFPHF-DLSHGSAQVKGHGAKVAAALTKAVEHLDDLPG

Rabbit                        TKTYFPHF-DFTHGSEQIKAHGKKVSEALTKAVGHLDDLPG

Sheep                         TKTYFPHF-DLSHGSAQVKGHGEKVAAALTKAVGHLDDLPG

Cat                           TKTYFPHF-DLSHGSAQVKAHGQKVADALTQAVAHMDDLPT

Horse                         TKTYFPHF-DLSHGSAQVKAHGKKVGDALTLAVGHLDDLPG

Chicken                       TKTYFPHF-DLSHGSAQIKGHGKKVVAALIEAANHIDDIAG

Xenopus tropicalis            TKTYFPDF-DFSEHSKHILAHGKKVSDALNEACNHLDNIAG

Zebrafish                     TKTYFSHWADLSPGSGPVKKHGKTIMGAVGEAISKIDDLVG

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 – 142	Hemoglobin subunit alpha
Metal binding	59 – 59	Iron (heme b distal ligand)
Site	57 – 57	Not glycated
Site	60 – 61	(Microbial infection) Cleavage; by N.americanus apr-2
Site	61 – 61	Not glycated
Modified residue	41 – 41	N6-succinyllysine; alternate
Modified residue	50 – 50	Phosphoserine
Glycosylation	41 – 41	N-linked (Glc) (glycation) lysine; alternate
Glycosylation	62 – 62	N-linked (Glc) (glycation) lysine
Helix	54 – 72

Literature citations

Hemoglobin Tottori (alpha 59[E8] glycine replaced by valine).
Nakatsuji T.; Miwa S.; Ohba Y.; Miyaji T.; Matsumoto N.; Matsuoka I.;
Hemoglobin 5:427-439(1981)
Cited for: VARIANT TOTTORI VAL-60;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P69905: Variant p.Gly60Val