UniProtKB/SwissProt variant VAR

Variant information

Variant position:

639

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 Glutamate (E) to Aspartate (D) at position 639 (E639D, p.Glu639Asp).

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:

Similar physico-chemical property. Both residues are medium size and acidic.

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

Other resources:

Links to websites of interest for the variant.

Variant rs3744644 [ dbSNP | Ensembl ]

Sequence information

Variant position:

639

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

Protein sequence length:

830

The length of the canonical sequence.

Location on the sequence:

LSRGAQSGPEGREAEESTGP E EAEAPESFPAAASPGDSATG

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                         LSRGAQSGPEGREAEESTGPEEAEAPESFPAAASPGDSATG

Mouse                         LSRGAQPRPEGQEAEESTGPEQVNTEEDAPTATSSGDPATS

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	20 – 830	Scavenger receptor class F member 1
Topological domain	443 – 830	Cytoplasmic
Region	581 – 688	Disordered
Alternative sequence	338 – 830	Missing. In isoform 4.
Alternative sequence	343 – 830	Missing. In isoform 5.
Alternative sequence	570 – 830	Missing. In isoform 3.

Literature citations

Expression cloning of a novel scavenger receptor from human endothelial cells.
Adachi H.; Tsujimoto M.; Arai H.; Inoue K.;
J. Biol. Chem. 272:31217-31220(1997)
Cited for: NUCLEOTIDE SEQUENCE [MRNA]; VARIANTS VAL-425; ASP-639; TRP-662 AND SER-667;

Characterization of the human gene encoding the scavenger receptor expressed by endothelial cell and its regulation by a novel transcription factor, endothelial zinc finger protein-2.
Adachi H.; Tsujimoto M.;
J. Biol. Chem. 277:24014-24021(2002)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORM 1); NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2; 3; 4 AND 5); VARIANTS VAL-425; ASP-639 AND SER-667;

Prediction of the coding sequences of unidentified human genes. IV. The coding sequences of 40 new genes (KIAA0121-KIAA0160) deduced by analysis of cDNA clones from human cell line KG-1.
Nagase T.; Seki N.; Tanaka A.; Ishikawa K.; Nomura N.;
DNA Res. 2:167-174(1995)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]; VARIANTS VAL-425; ASP-639; TRP-662 AND SER-667;

The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).
The MGC Project Team;
Genome Res. 14:2121-2127(2004)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]; VARIANTS VAL-425; ASP-639 AND SER-667;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q14162: Variant p.Glu639Asp