UniProtKB/SwissProt variant VAR

Variant information

Variant position:

3

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 Leucine (L) to Arginine (R) at position 3 (L3R, p.Leu3Arg).

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 hydrophobic (L) to large size and basic (R)

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 ChongQing; O(2) affinity up.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs36030576 [ dbSNP | Ensembl ]

Sequence information

Variant position:

3

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:

MV L SPADKTNVKAAWGKVGAHAG

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                         MVLSPADKTNVKAAWGKVGAHAG

Gorilla                       -VLSPADKTNVKAAWGKVGAHAG

                              -VLSPADKTNIKSTWDKIGGHAG

Rhesus macaque                MVLSPADKSNVKAAWGKVGGHAG

Chimpanzee                    MVLSPADKTNVKAAWGKVGAHAG

Mouse                         MVLSGEDKSNIKAAWGKIGGHGA

Rat                           MVLSADDKTNIKNCWGKIGGHGG

Pig                           -VLSAADKANVKAAWGKVGGQAG

Bovine                        MVLSAADKGNVKAAWGKVGGHAA

Rabbit                        MVLSPADKTNIKTAWEKIGSHGG

Sheep                         MVLSAADKSNVKAAWGKVGGNAG

Cat                           -VLSAADKSNVKACWGKIGSHAG

Horse                         MVLSAADKTNVKAAWSKVGGHAG

Chicken                       MVLSAADKNNVKGIFTKIAGHAE

Xenopus tropicalis            MHLTADDKKHIKAIWPSVAAHGD

Zebrafish                     MSLSDTDKAVVKAIWAKISPKAD

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
Initiator methionine	1 – 1	Removed
Chain	2 – 142	Hemoglobin subunit alpha
Site	12 – 12	Not glycated
Modified residue	4 – 4	Phosphoserine
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
Glycosylation	8 – 8	N-linked (Glc) (glycation) lysine; alternate
Glycosylation	17 – 17	N-linked (Glc) (glycation) lysine; alternate

Literature citations

Hemoglobin Chongqing [alpha 2(NA2)Leu-->Arg] and hemoglobin Harbin [alpha 16(A14)Lys-->Met] found in China.
Zeng Y.-T.; Huang S.-Z.; Qiu X.-K.; Cheng G.-C.; Ren Z.-R.; Jin Q.-C.; Chen C.-Y.; Jiao C.-T.; Tang Z.-G.; Liu R.-H.; Bao X.-H.; Zeng L.-Z.; Duan Y.-Q.; Zhang G.-Y.;
Hemoglobin 8:569-581(1984)
Cited for: VARIANTS CHONGQING ARG-3 AND HARBIN MET-17;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P69905: Variant p.Leu3Arg