UniProtKB/SwissProt variant VAR

Variant information

Variant position:

2427

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 Leucine (L) to Proline (P) at position 2427 (L2427P, p.Leu2427Pro).

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 hydrophobic.

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

BLOSUM score:

-3

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 FCORD2; somatic mutation; increased TOR signaling; increased kinase activity.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs1085307113 [ dbSNP | Ensembl ]

Sequence information

Variant position:

2427

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

Protein sequence length:

2549

The length of the canonical sequence.

Location on the sequence:

LREHKDSVMAVLEAFVYDPL L NWRLMDTNTKGNKRSRTRTD

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                         LREHKDSVMAVLEAFVYDPLLNWRLMDTNTKGNKRSRTRTD

Mouse                         LREHKDSVMAVLEAFVYDPLLNWRLMDTNTKGNKRSRTRTD

Rat                           LREHKDSVMAVLEAFVYDPLLNWRLMDTNAKGNKRSRTRTD

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 – 2549	Serine/threonine-protein kinase mTOR
Domain	2156 – 2469	PI3K/PI4K catalytic
Modified residue	2446 – 2446	Phosphothreonine; by RPS6KB1
Turn	2425 – 2429

Literature citations

Brain somatic mutations in MTOR cause focal cortical dysplasia type II leading to intractable epilepsy.
Lim J.S.; Kim W.I.; Kang H.C.; Kim S.H.; Park A.H.; Park E.K.; Cho Y.W.; Kim S.; Kim H.M.; Kim J.A.; Kim J.; Rhee H.; Kang S.G.; Kim H.D.; Kim D.; Kim D.S.; Lee J.H.;
Nat. Med. 21:395-400(2015)
Cited for: FUNCTION; INVOLVEMENT IN FCORD2; VARIANTS FCORD2 HIS-624; ASP-1450; ARG-1483; HIS-1709; LYS-1977; CYS-2193; PHE-2215; GLN-2427 AND PRO-2427; CHARACTERIZATION OF VARIANTS FCORD2 ARG-1483; GLN-2427 AND PRO-2427;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P42345: Variant p.Leu2427Pro