UniProtKB/SwissProt variant VAR

Variant information

Variant position:

135

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 Serine (S) to Leucine (L) at position 135 (S135L, p.Ser135Leu).

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 small size and polar (S) to medium size and hydrophobic (L)

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

Variant description:

In HIDS.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs104895297 [ dbSNP | Ensembl ]

Sequence information

Variant position:

135

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

Protein sequence length:

396

The length of the canonical sequence.

Location on the sequence:

LYLSICRKQRALPSLDIVVW S ELPPGAGLGSSAAYSVCLAA

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                         LYLSICRKQRALPSLDIVVWSELPPGAGLGSSAAYSVCLAA

Mouse                         LYLAICRKQRTLPSLDMVVWSELPPGAGLGSSAAYSVCLAA

Rat                           LYLAICRKQRTLPSLDIMVWSELPPGAGLGSSAAYSVCVAA

Bovine                        LYLSICQSQRALPSLDITVWSELPTGAGLGSSAAYSVCLAA

Slime mold                    LFCALTKCTK---AYNIKITSDLPIGAGLGSSASFCVSICA

Baker's yeast                 MFVCLCPHAK---NIKFSLKSTLPIGAGLGSSASISVSLAL

Fission yeast                 LFTSLSSPSQ---GCTLTISSQVPLGAGLGSSATISVVVAT

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 – 396	Mevalonate kinase
Active site	146 – 146	Proton donor
Metal binding	146 – 146	Magnesium
Binding site	135 – 135	ATP
Mutagenesis	145 – 145	S -> A. Modest changes in KM for ATP. 20-fold increase in KM for mevalonate. Approximately 2-fold decrease in Vmax.
Mutagenesis	146 – 146	S -> A. Modest changes in KM for ATP. 20-fold increase in KM for mevalonate. 4000-fold decrease in Vmax.
Mutagenesis	149 – 149	Y -> A. No effect on kinase activity. Approximately 4- and 8-fold decrease affinities for ATP and mevalonate, respectively.
Beta strand	129 – 137

Literature citations

Organization of the mevalonate kinase (MVK) gene and identification of novel mutations causing mevalonic aciduria and hyperimmunoglobulinaemia D and periodic fever syndrome.
Houten S.M.; Koster J.; Romeijn G.-J.; Frenkel J.; Di Rocco M.; Caruso U.; Landrieu P.; Kelley R.I.; Kuis W.; Poll-The B.T.; Gibson K.M.; Wanders R.J.A.; Waterham H.R.;
Eur. J. Hum. Genet. 9:253-259(2001)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS HIDS PRO-20; PRO-39; LEU-135; THR-148; THR-268 AND ILE-377; VARIANTS MEVA PRO-20; PHE-264; THR-268; MET-310 AND THR-334;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q03426: Variant p.Ser135Leu