UniProtKB/SwissProt variant VAR

Variant information

Variant position:

209

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

Type of variant:

US

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 Lysine (K) at position 209 (E209K, p.Glu209Lys).

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 acidic (E) to large size and basic (K)

The physico-chemical property of the reference and variant residues and the change implicated.

BLOSUM score:

1

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 PVNH2; unknown pathological significance.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs28937880 [ dbSNP | Ensembl ]

Sequence information

Variant position:

209

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

Protein sequence length:

1785

The length of the canonical sequence.

Location on the sequence:

MLNVIFTRMENQVLQEAREL E KPIQSKPQSPVIQAAAVSPK

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                         MLNVIFTRMENQVLQEARELEKPIQSKPQSPVIQAAAVSPK

Mouse                         MLNVIFTRMENQVLQEARELEKPMQSKPQSPVIQATAGSPK

Rat                           MLNVIFTRMENQVLQEARELEKPIQSKPQSPVIQATAGSPK

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	1 – 1785	Brefeldin A-inhibited guanine nucleotide-exchange protein 2
Region	2 – 224	DCB; DCB:DCB domain and DCB:HUS domain interaction
Modified residue	214 – 214	Phosphoserine
Modified residue	218 – 218	Phosphoserine
Modified residue	227 – 227	Phosphoserine

Literature citations

Mutations in ARFGEF2 implicate vesicle trafficking in neural progenitor proliferation and migration in the human cerebral cortex.
Sheen V.L.; Ganesh V.S.; Topcu M.; Sebire G.; Bodell A.; Hill R.S.; Grant P.E.; Shugart Y.Y.; Imitola J.; Khoury S.J.; Guerrini R.; Walsh C.A.;
Nat. Genet. 36:69-76(2004)
Cited for: INVOLVEMENT IN PVNH2; VARIANT PVNH2 LYS-209;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q9Y6D5: Variant p.Glu209Lys