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UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P41250: Variant p.Gly652Ala

Glycine--tRNA ligase
Gene: GARS1
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Variant information Variant position: help 652 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 Glycine (G) to Alanine (A) at position 652 (G652A, p.Gly652Ala). 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 glycine (G) to small size and hydrophobic (A) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: help 0 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 CMT2D; shows a large reduction in aminoacylation activity; demonstrates a change in subcellular location pattern; does not associate with granules. Any additional useful information about the variant.
Other resources: help Links to websites of interest for the variant.


Sequence information Variant position: help 652 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: help 739 The length of the canonical sequence.
Location on the sequence: help KELSEALTRHGVSHKVDDSS G SIGRRYARTDEIGVAFGVTI 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                         KELSEALTRHGVSHKVDDSSGSIGRRYARTDEIGVAFGVTI

Mouse                         KELSEALTRNGVSHKVDDSSGSIGRRYARTDEIGVAFGITI

Rat                           KELSEALTRNGVSHKVDDSSGSIGRRYARTDEIGVAFGITI

Caenorhabditis elegans        DAVKEELSRFEMSYKVDDSSGTIGRRYARTDEIGIPFGITV

Drosophila                    QKLSSALTKAELSHKVDDSSGSIGRRYARTDEIAIPYGITV

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 37 – 739 Glycine--tRNA ligase
Mutagenesis 658 – 658 Y -> F. Decrease in catalytic activity by more than 10-fold.
Beta strand 650 – 652



Literature citations
Impaired function is a common feature of neuropathy-associated glycyl-tRNA synthetase mutations.
Griffin L.B.; Sakaguchi R.; McGuigan D.; Gonzalez M.A.; Searby C.; Zuchner S.; Hou Y.M.; Antonellis A.;
Hum. Mutat. 35:1363-1371(2014)
Cited for: SUBCELLULAR LOCATION (ISOFORM 2); VARIANTS CMT2D VAL-111; ASN-200; PHE-265; ARG-294; LEU-298; PHE-334; ARG-472; ASN-554; ARG-580 AND ALA-652; VARIANT LEU-635; CHARACTERIZATION OF VARIANTS CMT2D VAL-111; GLY-125; PRO-183; ASN-200; PHE-265; ARG-294; LEU-298; PHE-334; ARG-472; ASN-554; ARG-580 AND ALA-652; CHARACTERIZATION OF VARIANT LEU-635; Severe childhood SMA and axonal CMT due to anticodon binding domain mutations in the GARS gene.
James P.A.; Cader M.Z.; Muntoni F.; Childs A.M.; Crow Y.J.; Talbot K.;
Neurology 67:1710-1712(2006)
Cited for: VARIANT LEU-635; VARIANTS CMT2D PHE-334 AND ALA-652;
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.