UniProtKB/SwissProt variant VAR

Variant information

Variant position:

42

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 Glycine (G) to Serine (S) at position 42 (G42S, p.Gly42Ser).

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 glycine (G) to small size and polar (S)

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

BLOSUM score:

0

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 THC4; increases the pro-apoptotic function by triggering caspase activation more efficiently than wild-type; does not affect the redox function.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs121918552 [ dbSNP | Ensembl ]

Sequence information

Variant position:

42

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

Protein sequence length:

105

The length of the canonical sequence.

Location on the sequence:

EKGGKHKTGPNLHGLFGRKT G QAPGYSYTAANKNKGIIWGE

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                         EKGGKHKTGPNLHGLFGRKTGQAPGYSYTAANKNKG---IIWGE

Gorilla                       EKGGKHKTGPNLHGLFGRKTGQAPGYSYTAANKNKG---II

Rhesus macaque                EKGGKHKTGPNLHGLFGRKTGQAPGYSYTAANKNKG---IT

Chimpanzee                    EKGGKHKTGPNLHGLFGRKTGQAPGYSYTAANKNKG---II

Mouse                         EKGGKHKTGPNLHGLFGRKTGQAAGFSYTDANKNKG---IT

Rat                           EKGGKHKTGPNLHGLFGRKTGQAAGFSYTDANKNKG---IT

Pig                           EKGGKHKTGPNLHGLFGRKTGQAPGFSYTDANKNKG---IT

Bovine                        EKGGKHKTGPNLHGLFGRKTGQAPGFSYTDANKNKG---IT

Rabbit                        EKGGKHKTGPNLHGLFGRKTGQAVGFSYTDANKNKG---IT

Sheep                         EKGGKHKTGPNLHGLFGRKTGQAPGFSYTDANKNKG---IT

Horse                         EKGGKHKTGPNLHGLFGRKTGQAPGFTYTDANKNKG---IT

Chicken                       EKGGKHKTGPNLHGLFGRKTGQAEGFSYTDANKNKG---IT

Zebrafish                     ENGGKHKVGPNLWGLFGRKTGQAEGFSYTDANKSKG---IV

Slime mold                    ANGAPNKQGPNLYGLFFPKSRSFPGYAYSDPNKNTGKFCIM

Fission yeast                 EKGGANKVGPNLHGVFGRKTGQAEGFSYTEANRDKG---IT

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	2 – 105	Cytochrome c
Modified residue	49 – 49	Phosphotyrosine
Modified residue	56 – 56	N6-succinyllysine
Beta strand	39 – 42

Literature citations

A mutation of human cytochrome c enhances the intrinsic apoptotic pathway but causes only thrombocytopenia.
Morison I.M.; Cramer Borde E.M.C.; Cheesman E.J.; Cheong P.L.; Holyoake A.J.; Fichelson S.; Weeks R.J.; Lo A.; Davies S.M.K.; Wilbanks S.M.; Fagerlund R.D.; Ludgate M.W.; da Silva Tatley F.M.; Coker M.S.A.; Bockett N.A.; Hughes G.; Pippig D.A.; Smith M.P.; Capron C.; Ledgerwood E.C.;
Nat. Genet. 40:387-389(2008)
Cited for: VARIANT THC4 SER-42; IDENTIFICATION BY MASS SPECTROMETRY; CHARACTERIZATION OF VARIANT THC4 SER-42; X-RAY CRYSTALLOGRAPHY (2.75 ANGSTROMS) OF VARIANT THC4 SER-42 AND WILD TYPE;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P99999: Variant p.Gly42Ser