UniProtKB/SwissProt variant VAR

Variant information

Variant position:

25

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 Tyrosine (Y) to Histidine (H) at position 25 (Y25H, p.Tyr25His).

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 (Y) to medium size and polar (H)

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 Luxembourg; unstable.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs281864821 [ dbSNP | Ensembl ]

Sequence information

Variant position:

25

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:

PADKTNVKAAWGKVGAHAGE Y GAEALERMFLSFPTTKTYFP

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                         PADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTYFP

Gorilla                       PADKTNVKAAWGKVGAHAGDYGAEALERMFLSFPTTKTYFP

                              PADKTNIKSTWDKIGGHAGDYGGEALDRTFQSFPTTKTYFP

Rhesus macaque                PADKSNVKAAWGKVGGHAGEYGAEALERMFLSFPTTKTYFP

Chimpanzee                    PADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTYFP

Mouse                         GEDKSNIKAAWGKIGGHGAEYGAEALERMFASFPTTKTYFP

Rat                           ADDKTNIKNCWGKIGGHGGEYGEEALQRMFAAFPTTKTYFS

Pig                           AADKANVKAAWGKVGGQAGAHGAEALERMFLGFPTTKTYFP

Bovine                        AADKGNVKAAWGKVGGHAAEYGAEALERMFLSFPTTKTYFP

Rabbit                        PADKTNIKTAWEKIGSHGGEYGAEAVERMFLGFPTTKTYFP

Sheep                         AADKSNVKAAWGKVGGNAGAYGAEALERMFLSFPTTKTYFP

Cat                           AADKSNVKACWGKIGSHAGEYGAEALERTFCSFPTTKTYFP

Horse                         AADKTNVKAAWSKVGGHAGEYGAEALERMFLGFPTTKTYFP

Chicken                       AADKNNVKGIFTKIAGHAEEYGAETLERMFTTYPPTKTYFP

Xenopus tropicalis            ADDKKHIKAIWPSVAAHGDKYGGEALHRMFMCAPKTKTYFP

Zebrafish                     DTDKAVVKAIWAKISPKADEIGAEALARMLTVYPQTKTYFS

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
Site	12 – 12	Not glycated
Site	25 – 26	(Microbial infection) Cleavage; by N.americanus apr-2
Modified residue	8 – 8	N6-succinyllysine; alternate
Modified residue	9 – 9	Phosphothreonine
Modified residue	12 – 12	N6-succinyllysine
Modified residue	17 – 17	N6-acetyllysine; alternate
Modified residue	17 – 17	N6-succinyllysine; alternate
Modified residue	25 – 25	Phosphotyrosine
Modified residue	36 – 36	Phosphoserine
Modified residue	41 – 41	N6-succinyllysine; alternate
Glycosylation	8 – 8	N-linked (Glc) (glycation) lysine; alternate
Glycosylation	17 – 17	N-linked (Glc) (glycation) lysine; alternate
Glycosylation	41 – 41	N-linked (Glc) (glycation) lysine; alternate
Helix	22 – 36

Literature citations

Hb Luxembourg [alpha 24(B5) Tyr----His]: a new unstable variant.
Groff P.; Galacteros F.; Kalmes G.; Blouquit Y.; Wajcman H.;
Hemoglobin 13:429-436(1989)
Cited for: VARIANT LUXEMBOURG HIS-25;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P69905: Variant p.Tyr25His