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UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot O43426: Variant p.Tyr849Cys

Polyphosphatidylinositol phosphatase SYNJ1
Gene: SYNJ1
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Variant information Variant position: help 849 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant: help 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: help From Tyrosine (Y) to Cysteine (C) at position 849 (Y849C, p.Tyr849Cys). 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: help Change from large size and aromatic (Y) to medium size and polar (C) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: help -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: help In DEE53; severely decreased phosphoinositide 5-phosphatase activity. Any additional useful information about the variant.
Other resources: help Links to websites of interest for the variant.


Sequence information Variant position: help 849 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: help 1573 The length of the canonical sequence.
Location on the sequence: help ASFQDESKILYTWTPGTLLH Y GRAELKTSDHRPVVALIDID 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: help The multiple alignment of the region surrounding the variant against various orthologous sequences. 
Human                         ASFQDESKILYTWTPGTLLHYGRAELKTSDHRPVVALIDID

Mouse                         ASFQDESKILYTWTPGTLLHYGRAELKTSDHRPVVALIDID

Rat                           ASFQDESKILYTWTPGTLLHYGRAELKTSDHRPVVALIDID
Sequence annotation in neighborhood: help 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.
TypePositionsDescription
Chain 1 – 1573 Polyphosphatidylinositol phosphatase SYNJ1
Domain 528 – 873 5-PPase
Modified residue 830 – 830 Phosphoserine
Alternative sequence 525 – 1573 Missing. In isoform 4.
Beta strand 845 – 851



Literature citations
Loss of SYNJ1 dual phosphatase activity leads to early onset refractory seizures and progressive neurological decline.
Hardies K.; Cai Y.; Jardel C.; Jansen A.C.; Cao M.; May P.; Djemie T.; Hachon Le Camus C.; Keymolen K.; Deconinck T.; Bhambhani V.; Long C.; Sajan S.A.; Helbig K.L.; Suls A.; Balling R.; Helbig I.; De Jonghe P.; Depienne C.; De Camilli P.; Weckhuysen S.;
Brain 139:2420-2430(2016)
Cited for: FUNCTION; CATALYTIC ACTIVITY; INVOLVEMENT IN DEE53; VARIANTS DEE53 CYS-849; ILE-981 AND SER-1018; CHARACTERIZATION OF VARIANTS DEE53 CYS-849; ILE-981 AND SER-1018;
A structure of substrate-bound Synaptojanin1 provides new insights in its mechanism and the effect of disease mutations.
Paesmans J.; Martin E.; Deckers B.; Berghmans M.; Sethi R.; Loeys Y.; Pardon E.; Steyaert J.; Verstreken P.; Galicia C.; Versees W.;
Elife 9:e64922-e64922(2020)
Cited for: X-RAY CRYSTALLOGRAPHY (2.30 ANGSTROMS) OF 528-873 IN COMPLEX WITH 1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHO-(1D-MYO-INOSITOL-3,4,5-TRISPHOSPHATE) AND MG(2+); FUNCTION; CATALYTIC ACTIVITY; COFACTOR; BIOPHYSICOCHEMICAL PROPERTIES; IDENTIFICATION OF 5-PPASE DOMAIN; CHARACTERIZATION OF VARIANTS PARK20 CYS-793; CYS-800 AND CYS-849; ACTIVE SITE;
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.