UniProtKB/SwissProt variant VAR

Variant information

Variant position:

485

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

Type of variant:

LP/P [Disclaimer]

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 Arginine (R) to Glutamine (Q) at position 485 (R485Q, p.Arg485Gln).

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 basic (R) to medium size and polar (Q)

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 FFEVF1; does not inhibit DEPDC5 signaling; stimulates slightly kinase activity of mTORC1; does not change association with the GATOR complex; does not change RRAGA/RRAGC and RRAGB/RRAGC heterodimer formation.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs886039278 [ dbSNP | Ensembl ]

Sequence information

Variant position:

485

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

Protein sequence length:

1603

The length of the canonical sequence.

Location on the sequence:

QVFRLPGPSRAQCLTTCRSV R ERESHSRKSASSCDVSSSPS

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                         QVFRLPGPSRAQCLTTCRSVRERESHSRKSASSCDVSSSPS

Mouse                         QVFRLPGPSRAQRLATCRSVREQENHSRKSASSCDVSSSPS

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 – 1603	GATOR complex protein DEPDC5
Region	484 – 527	Disordered
Modified residue	505 – 505	Phosphoserine

Literature citations

Mutations of DEPDC5 cause autosomal dominant focal epilepsies.
Ishida S.; Picard F.; Rudolf G.; Noe E.; Achaz G.; Thomas P.; Genton P.; Mundwiller E.; Wolff M.; Marescaux C.; Miles R.; Baulac M.; Hirsch E.; Leguern E.; Baulac S.;
Nat. Genet. 45:552-555(2013)
Cited for: VARIANT FFEVF1 GLN-485; TISSUE SPECIFICITY;

Preliminary functional assessment and classification of DEPDC5 variants associated with focal epilepsy.
van Kranenburg M.; Hoogeveen-Westerveld M.; Nellist M.;
Hum. Mutat. 36:200-209(2015)
Cited for: VARIANTS FFEVF1 ILE-90; LEU-272; VAL-452; GLN-485; MET-864; ARG-1073 AND GLY-1162; CHARACTERIZATION OF VARIANTS FFEVF1 ILE-90; LEU-272; VAL-452; GLN-485; MET-864; ARG-1073 AND GLY-1162; IDENTIFICATION IN GATOR COMPLEX;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot O75140: Variant p.Arg485Gln