UniProtKB/SwissProt variant VAR

Variant information

Variant position:

118

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 Cysteine (C) to Tyrosine (Y) at position 118 (C118Y, p.Cys118Tyr).

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 medium size and polar (C) to large size and aromatic (Y)

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 SCN8; decreased granulocyte proliferation; increased apoptosis.

Any additional useful information about the variant.

Sequence information

Variant position:

118

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

Protein sequence length:

504

The length of the canonical sequence.

Location on the sequence:

KGKQNVIMFVGLQGSGKTTT C SKLAYYYQRKGWKTCLICAD

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                         KGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICAD

                              KGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICAD

Mouse                         KGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICAD

Rat                           KGKQNVIMFVGLQGSGKTTTCSKLAYFYQRKGWKTCLICAD

Bovine                        KGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICAD

Zebrafish                     KGKNNVIMFVGLQGSGKTTTCSKLAYYFQRKGWKTCLICAD

Slime mold                    KGKSNIVMFVGLQGAGKTTSVTKLAYFYKKKGFSTAIVCAD

Baker's yeast                 KRKTNIIMFVGLQGSGKTTSCTKLAVYYSKRGFKVGLVCAD

Fission yeast                 KGRPSVIMMVGLQGSGKTTTCSKLALHYQRRGLKSCLVAAD

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 – 504	Signal recognition particle 54 kDa protein
Region	1 – 295	NG domain
Helix	114 – 127

Literature citations

Mutations in the SRP54 gene cause severe congenital neutropenia as well as Shwachman-Diamond-like syndrome.
Bellanne-Chantelot C.; Schmaltz-Panneau B.; Marty C.; Fenneteau O.; Callebaut I.; Clauin S.; Docet A.; Damaj G.L.; Leblanc T.; Pellier I.; Stoven C.; Souquere S.; Antony-Debre I.; Beaupain B.; Aladjidi N.; Barlogis V.; Bauduer F.; Bensaid P.; Boespflug-Tanguy O.; Berger C.; Bertrand Y.; Carausu L.; Fieschi C.; Galambrun C.; Schmidt A.; Journel H.; Mazingue F.; Nelken B.; Quah T.C.; Oksenhendler E.; Ouachee M.; Pasquet M.; Saada V.; Suarez F.; Pierron G.; Vainchenker W.; Plo I.; Donadieu J.;
Blood 132:1318-1331(2018)
Cited for: FUNCTION; DEVELOPMENTAL STAGE; SUBCELLULAR LOCATION; VARIANTS SCN8 ARG-113; THR-117 DEL; TYR-118; TYR-136; ASP-223; GLU-226 AND ASP-274; CHARACTERIZATION OF VARIANTS SCN8 THR-117 DEL; TYR-118; TYR-136 AND ASP-223;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P61011: Variant p.Cys118Tyr