VARS1 Gene

Name valyl-tRNA synthetase 1
Description Aminoacyl-tRNA synthetases catalyze the aminoacylation of tRNA by their cognate amino acid. Because of their central role in linking amino acids with nucleotide triplets contained in tRNAs, aminoacyl-tRNA synthetases are thought to be among the first proteins that appeared in evolution. The protein encoded by this gene belongs to class-I aminoacyl-tRNA synthetase family and is located in the class III region of the major histocompatibility complex. [provided by RefSeq, Jul 2008]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nThe cytoplasmic valyl-tRNA synthetase (VARS1) is an essential enzyme that charges tRNA with valine to facilitate protein translation, and its proper function is critical for neurodevelopment. Recent clinical investigations have identified biallelic missense mutations in VARS1 that are linked to severe pediatric neurodevelopmental disorders, including global developmental delay, epileptic encephalopathy, and progressive microcephaly. Patient‐derived cells harboring these mutations exhibit markedly reduced enzyme activity and lower VARS1 mRNA and protein levels, underscoring its indispensability for normal brain growth and function."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n \nDissecting the molecular architecture of VARS1 reveals that it forms part of a larger macromolecular complex. Structural studies have demonstrated that human VARS1 associates with elongation factor 1 (EF-1H) in a stable high-molecular mass assembly, with the complex adopting a dimeric, two-domain configuration that likely facilitates the efficient, consecutive steps of tRNA aminoacylation and subsequent protein elongation during translation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "\n\nMore recently, VARS1 has emerged as an important modulator in cancer biology. In the context of resistance to MAPK-targeted therapies in melanoma, upregulation of VARS1 and its associated increase in valine-specific tRNA levels have been implicated in a codon-biased translational reprogramming. This reprogramming favors the expression of key metabolic enzymes, such as those involved in fatty acid oxidation, thus promoting cell survival under therapeutic stress. Notably, knockdown of VARS1 re-sensitizes resistant melanoma cells both in vitro and in vivo, positioning this enzyme as a promising target in overcoming therapy-resistant malignancies."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Jennifer Friedman, Desiree E Smith, Mahmoud Y Issa, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Biallelic mutations in valyl-tRNA synthetase gene VARS are associated with a progressive neurodevelopmental epileptic encephalopathy."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Commun (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41467-018-07067-3"}], "href": "https://doi.org/10.1038/s41467-018-07067-3"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30755602"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30755602"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Joshi Stephen, Sheela Nampoothiri, Aditi Banerjee, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Loss of function mutations in VARS encoding cytoplasmic valyl-tRNA synthetase cause microcephaly, seizures, and progressive cerebral atrophy."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Hum Genet (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00439-018-1882-3"}], "href": "https://doi.org/10.1007/s00439-018-1882-3"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29691655"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29691655"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Shoulei Jiang, Cindy L Wolfe, J Anthony Warrington, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Three-dimensional reconstruction of the valyl-tRNA synthetase/elongation factor-1H complex and localization of the delta subunit."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "FEBS Lett (2005)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.febslet.2005.09.062"}], "href": "https://doi.org/10.1016/j.febslet.2005.09.062"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "16229838"}], "href": "https://pubmed.ncbi.nlm.nih.gov/16229838"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Najla El-Hachem, Marine Leclercq, Miguel Susaeta Ruiz, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Valine aminoacyl-tRNA synthetase promotes therapy resistance in melanoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Cell Biol (2024)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41556-024-01439-2"}], "href": "https://doi.org/10.1038/s41556-024-01439-2"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "38849541"}], "href": "https://pubmed.ncbi.nlm.nih.gov/38849541"}]}]}]}
NCBI Gene ID 7407
API
Download Associations
Predicted Functions View VARS1's ARCHS4 Predicted Functions.
Co-expressed Genes View VARS1's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View VARS1's ARCHS4 Predicted Functions.

Functional Associations

VARS1 has 2,904 functional associations with biological entities spanning 5 categories (chemical, disease, phenotype or trait, functional term, phrase or reference, cell line, cell type or tissue, gene, protein or microRNA) extracted from 33 datasets.

Click the + buttons to view associations for VARS1 from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles tissue samples with high or low expression of VARS1 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
Carcinogenome Chemical Perturbation Carcinogenicity Signatures small molecule perturbations changing expression of VARS1 gene from the Carcinogenome Chemical Perturbation Carcinogenicity Signatures dataset.
CellMarker Gene-Cell Type Associations cell types associated with VARS1 gene from the CellMarker Gene-Cell Type Associations dataset.
ClinVar Gene-Phenotype Associations 2025 phenotypes associated with VARS1 gene from the curated ClinVar Gene-Phenotype Associations 2025 dataset.
CM4AI KOLF21J CRISPRi Gene Perturbation Atlas gene perturbations changing expression of VARS1 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
CM4AI U2OS Cell Map Protein Localization Assemblies assemblies containing VARS1 protein from integrated AP-MS and IF data from the CM4AI U2OS Cell Map Protein Localization Assemblies dataset.
COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 cellular components co-occuring with VARS1 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
DISEASES Curated Gene-Disease Association Evidence Scores 2025 diseases involving VARS1 gene from the DISEASES Curated Gene-Disease Association Evidence Scores 2025 dataset.
DISEASES Experimental Gene-Disease Association Evidence Scores 2025 diseases associated with VARS1 gene in GWAS datasets from the DISEASES Experimental Gene-Disease Assocation Evidence Scores 2025 dataset.
DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 diseases co-occuring with VARS1 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset.
GO Biological Process Annotations 2025 biological processes involving VARS1 gene from the curated GO Biological Process Annotations2025 dataset.
GO Molecular Function Annotations 2025 molecular functions performed by VARS1 gene from the curated GO Molecular Function Annotations 2025 dataset.
GTEx Tissue Gene Expression Profiles 2023 tissues with high or low expression of VARS1 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset.
GWAS Catalog SNP-Phenotype Associations 2025 phenotypes associated with VARS1 gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations 2025 dataset.
IMPC Knockout Mouse Phenotypes phenotypes of mice caused by VARS1 gene knockout from the IMPC Knockout Mouse Phenotypes dataset.
JASPAR Predicted Human Transcription Factor Targets 2025 transcription factors regulating expression of VARS1 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Human Transcription Factor Targets dataset.
JASPAR Predicted Mouse Transcription Factor Targets 2025 transcription factors regulating expression of VARS1 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Mouse Transcription Factor Targets 2025 dataset.
KEGG Pathways 2026 pathways involving VARS1 protein from the KEGG Pathways 2026 dataset.
LINCS L1000 CMAP Chemical Perturbation Consensus Signatures small molecule perturbations changing expression of VARS1 gene from the LINCS L1000 CMAP Chemical Perturbations Consensus Signatures dataset.
MoTrPAC Rat Endurance Exercise Training tissue samples with high or low expression of VARS1 gene relative to other tissue samples from the MoTrPAC Rat Endurance Exercise Training dataset.
MW Enzyme Metabolite Associations interacting metabolites for VARS1 protein from the MW Gene Metabolite Associations dataset.
Reactome Pathways 2024 pathways involving VARS1 protein from the Reactome Pathways 2024 dataset.
Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of VARS1 gene from the Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures dataset.
Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of VARS1 gene from the Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures dataset.
Rummagene Transcription Factor Associations 2026 transcription factors regulating expression of VARS1 gene from the Rummagene Transcription Factor Associations 2026 dataset.
RummaGEO Drug Perturbation Signatures drug perturbations changing expression of VARS1 gene from the RummaGEO Drug Perturbation Signatures dataset.
RummaGEO Gene Perturbation Signatures gene perturbations changing expression of VARS1 gene from the RummaGEO Gene Perturbation Signatures dataset.
Sci-Plex Drug Perturbation Signatures drug perturbations changing expression of VARS1 gene from the Sci-Plex Drug Perturbation Signatures dataset.
Tahoe Therapeutics Tahoe 100M Perturbation Atlas drug perturbations changing expression of VARS1 gene from the Tahoe Therapeutics Tahoe 100M Perturbation Atlas dataset.
TISSUES Curated Tissue Protein Expression Evidence Scores 2025 tissues with high expression of VARS1 protein from the TISSUES Curated Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 tissues with high expression of VARS1 protein in proteomics datasets from the TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 tissues co-occuring with VARS1 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset.
WikiPathways Pathways 2024 pathways involving VARS1 protein from the WikiPathways Pathways 2024 dataset.