UniProtKB/Swiss-Prot Q96PX8: Variant p.Thr418Ser

SLIT and NTRK-like protein 1
Gene: SLITRK1
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Variant information Variant position:

418 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant:

LB/B 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 Threonine (T) to Serine (S) at position 418 (T418S, p.Thr418Ser). 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 (T) to small size and polar (S) 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:

Found in a patient with obsessive-compulsive disorder; likely pathogenic; decreased levels of mature protein; decreased localization to the cell membrane surface expression; decreased function in synaptogenesis. Any additional useful information about the variant.
Other resources:

Links to websites of interest for the variant.

Variant rs150504822 [ dbSNP | Ensembl ]

Sequence information Variant position:

418 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length:

696 The length of the canonical sequence.
Location on the sequence:

YKNLILLDLGNNNIATVENN T FKNLLDLRWLYMDSNYLDTL 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                         YKNLILLDLGNNNIATVENNTFKNLLDLRWLYMDSNYLDTL

Mouse                         YKNLILLDLGNNNIANIENNTFKNLLDLRWLYMDSNYLDTL

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	18 – 696	SLIT and NTRK-like protein 1
Topological domain	18 – 622	Extracellular
Repeat	400 – 421	LRR 8
Turn	416 – 421

Literature citations
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).
The MGC Project Team;
Genome Res. 14:2121-2127(2004)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]; VARIANT SER-418; Slitrk missense mutations associated with neuropsychiatric disorders distinctively impair Slitrk trafficking and synapse formation.
Kang H.; Han K.A.; Won S.Y.; Kim H.M.; Lee Y.H.; Ko J.; Um J.W.;
Front. Mol. Neurosci. 9:104-104(2016)
Cited for: FUNCTION; MUTAGENESIS OF VAL-85; CHARACTERIZATION OF VARIANTS ILE-400 AND SER-418; CHARACTERIZATION OF VARIANTS TTM LYS-584 AND GLY-593; Characterization of SLITRK1 variation in obsessive-compulsive disorder.
Ozomaro U.; Cai G.; Kajiwara Y.; Yoon S.; Makarov V.; Delorme R.; Betancur C.; Ruhrmann S.; Falkai P.; Grabe H.J.; Maier W.; Wagner M.; Lennertz L.; Moessner R.; Murphy D.L.; Buxbaum J.D.; Zuechner S.; Grice D.E.;
PLoS ONE 8:E70376-E70376(2013)
Cited for: VARIANTS ILE-400 AND SER-418;

Disclaimer: Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. They are not in any way intended to be used as a substitute for professional medical advice, diagnostic, treatment or care.