UniProtKB/SwissProt variant VAR

Variant information

Variant position:

407

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 Arginine (R) at position 407 (S407R, p.Ser407Arg).

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 large size and basic (R)

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 SPG4.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs1553317041 [ dbSNP | Ensembl ]

Sequence information

Variant position:

407

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

Protein sequence length:

616

The length of the canonical sequence.

Location on the sequence:

GKTMLAKAVAAESNATFFNI S AASLTSKYVGEGEKLVRALF

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                         GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Mouse                         GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Rat                           GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Pig                           GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Bovine                        GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Chicken                       GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Xenopus laevis                GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Xenopus tropicalis            GKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALF

Zebrafish                     GKTMLAKAVAMESNATFFNISAATLTSKYVGEGEKLVRALF

Caenorhabditis elegans        GKTLLAKAVAGESKQMFFNISASSLTSKWVGDSEKTIRGLF

Drosophila                    GKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALF

Slime mold                    GKTMIAKAVAYESKVTFFSISSSSLTSKYVGDGEKLVRALF

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 – 616	Spastin
Topological domain	78 – 616	Cytoplasmic
Region	228 – 616	Sufficient for microtubule severing
Mutagenesis	388 – 388	K -> A. Abrogates ATPase activity and abolishes microtubule severing.
Mutagenesis	415 – 415	Y -> A. Abrogates binding to the tail of alpha-tubulin and beta-3-tubulin, impairs ATPase activity and abolishes microtubule severing.
Beta strand	402 – 407

Literature citations

Mutation analysis of the spastin gene (SPG4) in patients in Germany with autosomal dominant hereditary spastic paraplegia.
Sauter S.M.; Miterski B.; Klimpe S.; Boensch D.; Schoels L.; Visbeck A.; Papke T.; Hopf H.C.; Engel W.; Deufel T.; Epplen J.T.; Neesen J.;
Hum. Mutat. 20:127-132(2002)
Cited for: VARIANTS SPG4 ARG-407; TYR-551 AND ILE-615;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q9UBP0: Variant p.Ser407Arg