UniProtKB/SwissProt variant VAR

Variant information

Variant position:

76

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

Type of variant:

Disease [Disclaimer]

The variants are classified into three categories: Disease, Polymorphism and Unclassified.

Disease: Variants implicated in disease according to literature reports.
Polymorphism: Variants not reported to be implicated in disease.
Unclassified: Variants with uncertain implication in disease according to literature reports. Evidence against or in favor of a pathogenic role is limited and/or conflicting.

Residue change:

From Serine (S) to Proline (P) at position 76 (S76P, p.Ser76Pro).

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 (P)

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

Involvement in disease:

Mitochondrial complex I deficiency, nuclear type 17 (MC1DN17) [MIM:618239]: A form of mitochondrial complex I deficiency, the most common biochemical signature of mitochondrial disorders, a group of highly heterogeneous conditions characterized by defective oxidative phosphorylation, which collectively affects 1 in 5-10000 live births. Clinical disorders have variable severity, ranging from lethal neonatal disease to adult-onset neurodegenerative disorders. Phenotypes include macrocephaly with progressive leukodystrophy, non-specific encephalopathy, cardiomyopathy, myopathy, liver disease, Leigh syndrome, Leber hereditary optic neuropathy, and some forms of Parkinson disease. MC1DN17 transmission pattern is consistent with autosomal recessive inheritance. {ECO:0000269|PubMed:18614015, ECO:0000269|PubMed:22019594, ECO:0000269|PubMed:26741492}. Note=The disease is caused by mutations affecting the gene represented in this entry.

The name and a short description of the disease associated with the variant. For more information about the disease, the user can refer to OMIM, following the link provided after the disease acronym.

Variant description:

In MC1DN17.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs1057519084 [ dbSNP | Ensembl ]

Sequence information

Variant position:

76

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

Protein sequence length:

333

The length of the canonical sequence.

Location on the sequence:

GTDHYCLELLRKRDYEGYLC S LLLPAESRSSVFALRAFNVE

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                         GTDH-------YCLELLRKRDYEGYLCSLLLPAES-RSSVFALRAFNVE

Mouse                         GSHL-------YCLELLRKRDYESYLCSLLFPAEC-QRSAS

Rat                           DSHL-------YCLELLRKRDYESYLCSLLFPAEC-QRSAS

Bovine                        GTDR-------YCLELLRKRDYEGYLCSLLLPAES-RSSAF

Drosophila                    ---K-------HCMSLVEKYDYENYLCTLLLPREL-RRAAF

Slime mold                    VSDLAGNADYNFVFERIKTCDKENYINSLLISDPIARRVAY

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	45 – 333	NADH dehydrogenase (ubiquinone) complex I, assembly factor 6

Literature citations

A comprehensive genomic analysis reveals the genetic landscape of mitochondrial respiratory chain complex deficiencies.
Kohda M.; Tokuzawa Y.; Kishita Y.; Nyuzuki H.; Moriyama Y.; Mizuno Y.; Hirata T.; Yatsuka Y.; Yamashita-Sugahara Y.; Nakachi Y.; Kato H.; Okuda A.; Tamaru S.; Borna N.N.; Banshoya K.; Aigaki T.; Sato-Miyata Y.; Ohnuma K.; Suzuki T.; Nagao A.; Maehata H.; Matsuda F.; Higasa K.; Nagasaki M.; Yasuda J.; Yamamoto M.; Fushimi T.; Shimura M.; Kaiho-Ichimoto K.; Harashima H.; Yamazaki T.; Mori M.; Murayama K.; Ohtake A.; Okazaki Y.;
PLoS Genet. 12:E1005679-E1005679(2016)
Cited for: INVOLVEMENT IN MC1DN17; VARIANTS MC1DN17 VAL-69; PRO-76; THR-124; ASP-269 AND GLY-274;

UniProtKB/Swiss-Prot Q330K2: Variant p.Ser76Pro