Expasy logo

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P54577: Variant p.Pro167Thr

Tyrosine--tRNA ligase, cytoplasmic
Gene: YARS1
Feedback?
Variant information Variant position: help 167 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 Proline (P) to Threonine (T) at position 167 (P167T, p.Pro167Thr). 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 medium size and hydrophobic (P) to medium size and polar (T) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: help -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: help In IMNEPD2; hypomorphic variant in yeast complementation assays; decreased homodimerization; does not affect localization to the cytoplasm. Any additional useful information about the variant.
Other resources: help Links to websites of interest for the variant.


Sequence information Variant position: help 167 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: help 528 The length of the canonical sequence.
Location on the sequence: help KAGAEVVKQVEHPLLSGLLY P GLQALDEEYLKVDAQFGGID 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                         KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGID

Mouse                         KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGVD

Rat                           KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGID

Bovine                        KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGVD

Chicken                       KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGVD

Xenopus laevis                KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGVD

Xenopus tropicalis            KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGVD

Zebrafish                     KAGAEVVKQVEHPLLSGLLYPGLQALDEEYLKVDAQFGGVD

Baker's yeast                 RAGADVVKQVANPLLSGLIYPLMQALDEQFLDVDCQFGGVD

Fission yeast                 RAGAEVVKQVASPLLSSLIYPGMQALDEQYLGVDVQFGGVD
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 – 528 Tyrosine--tRNA ligase, cytoplasmic
Chain 2 – 528 Tyrosine--tRNA ligase, cytoplasmic, N-terminally processed
Binding site 166 – 166
Binding site 170 – 170
Binding site 170 – 170
Binding site 173 – 173
Binding site 173 – 173
Helix 161 – 176



Literature citations
Homozygosity for a mutation affecting the catalytic domain of tyrosyl-tRNA synthetase (YARS) causes multisystem disease.
Williams K.B.; Brigatti K.W.; Puffenberger E.G.; Gonzaga-Jauregui C.; Griffin L.B.; Martinez E.D.; Wenger O.K.; Yoder M.A.; Kandula V.V.R.; Fox M.D.; Demczko M.M.; Poskitt L.; Furuya K.N.; Reid J.G.; Overton J.D.; Baras A.; Miles L.; Radhakrishnan K.; Carson V.J.; Antonellis A.; Jinks R.N.; Strauss K.A.;
Hum. Mol. Genet. 28:525-538(2019)
Cited for: VARIANT IMNEPD2 THR-167; CHARACTERIZATION OF VARIANT IMNEPD2 THR-167; INVOLVEMENT IN IMNEPD2; SUBCELLULAR LOCATION; SUBUNIT;
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.