UniProtKB/SwissProt variant VAR

Variant information

Variant position:

2017

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 2017 (R2017Q, p.Arg2017Gln).

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 SOTOS; loss of enzyme activity.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs587784177 [ dbSNP | Ensembl ]

Sequence information

Variant position:

2017

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

Protein sequence length:

2696

The length of the canonical sequence.

Location on the sequence:

YMLTLDKDRIIDAGPKGNYA R FMNHCCQPNCETQKWSVNGD

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                         YMLTLDKDRIIDAGPKGNYARFMNHCCQPNCETQKWSVNGD

Mouse                         YMLTLDKDRIIDAGPKGNYARFMNHCCQPNCETQKWSVNGD

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 – 2696	Histone-lysine N-methyltransferase, H3 lysine-36 specific
Domain	1942 – 2059	SET
Helix	2015 – 2018

Literature citations

The structure of NSD1 reveals an autoregulatory mechanism underlying histone H3K36 methylation.
Qiao Q.; Li Y.; Chen Z.; Wang M.; Reinberg D.; Xu R.M.;
J. Biol. Chem. 286:8361-8368(2011)
Cited for: X-RAY CRYSTALLOGRAPHY (1.75 ANGSTROMS) OF 1852-2082 IN COMPLEX WITH S-ADENOSYL-L-METHIONINE AND ZINC IONS; FUNCTION; CATALYTIC ACTIVITY; MUTAGENESIS OF ARG-1914 AND ARG-1952; CHARACTERIZATION OF SOTOS VARIANTS GLN-1984; GLN-2005 AND GLN-2017;

NSD1 mutations are the major cause of Sotos syndrome and occur in some cases of Weaver syndrome but are rare in other overgrowth phenotypes.
Douglas J.; Hanks S.; Temple I.K.; Davies S.; Murray A.; Upadhyaya M.; Tomkins S.; Hughes H.E.; Cole T.R.P.; Rahman N.;
Am. J. Hum. Genet. 72:132-143(2003)
Cited for: VARIANTS SOTOS LEU-1616; PRO-1637; TRP-1674; VAL-1792; ARG-1925; GLN-2005; GLN-2017; GLN-2143 AND SER-2183; VARIANTS LEU-614; THR-691; PRO-726; PRO-1036; ILE-1091; ILE-2250 AND THR-2261;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q96L73: Variant p.Arg2017Gln