Gene Gene information from NCBI Gene database.
Entrez ID 3035
Gene name Histidyl-tRNA synthetase 1
Gene symbol HARS1
Synonyms (NCBI Gene)
CMT2WHARSHRSUSH3B
Chromosome 5
Chromosome location 5q31.3
Summary Aminoacyl-tRNA synthetases are a class of enzymes that charge tRNAs with their cognate amino acids. The protein encoded by this gene is a cytoplasmic enzyme which belongs to the class II family of aminoacyl-tRNA synthetases. The enzyme is responsible for
SNPs SNP information provided by dbSNP.
9
SNP ID Visualize variation Clinical significance Consequence
rs1131040 C>A,T Pathogenic Coding sequence variant, missense variant
rs143473232 G>A,C Pathogenic Coding sequence variant, intron variant, missense variant
rs191391414 C>T Pathogenic, uncertain-significance Missense variant, coding sequence variant, intron variant
rs863225122 G>T Pathogenic Coding sequence variant, intron variant, missense variant
rs863225123 A>C Pathogenic Coding sequence variant, missense variant
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
25
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0003723 Function RNA binding IBA
GO:0004812 Function Aminoacyl-tRNA ligase activity IEA
GO:0004821 Function Histidine-tRNA ligase activity IBA
GO:0004821 Function Histidine-tRNA ligase activity IDA 29235198
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
142810 4816 ENSG00000170445
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P12081
Protein name Histidine--tRNA ligase, cytoplasmic (EC 6.1.1.21) (Histidyl-tRNA synthetase) (HisRS)
Protein function Catalyzes the ATP-dependent ligation of histidine to the 3'-end of its cognate tRNA, via the formation of an aminoacyl-adenylate intermediate (His-AMP) (PubMed:29235198). Plays a role in axon guidance (PubMed:26072516). {ECO:0000269|PubMed:26072
PDB 1X59 , 2LW7 , 4G84 , 4G85 , 4PHC , 4X5O , 5W6M , 6O76 , 8YOR , 8YP1
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00458 WHEP-TRS 7 53 WHEP-TRS domain Domain
PF13393 tRNA-synt_His 61 389 Histidyl-tRNA synthetase Domain
PF03129 HGTP_anticodon 410 501 Anticodon binding domain Domain
Tissue specificity TISSUE SPECIFICITY: Brain, heart, liver and kidney.
Sequence
Sequence length 509
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Aminoacyl-tRNA biosynthesis   Cytosolic tRNA aminoacylation
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
32
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Autosomal dominant Charcot-Marie-Tooth disease type 2W Likely pathogenic; Pathogenic rs2149845009, rs771201777, rs143473232, rs863225122, rs863225123, rs863225124, rs1554107200 RCV002244106
RCV002284018
RCV000201522
RCV000201516
RCV000201520
View all (2 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Spastic ataxia Pathogenic rs1581504953, rs1131040, rs1581505917 RCV001644877
RCV001644875
RCV001644876
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
ANKYLOSING SPONDYLITIS AND OTHER INFLAMMATORY SPONDYLOPATHIES Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTOIMMUNE DISEASES CTD
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CARCINOMA, RENAL CELL CTD
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CEREBELLAR ATAXIA Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acute Kidney Tubular Necrosis Renal tubular necrosis BEFREE 29303765
★☆☆☆☆
Found in Text Mining only
Adult Hodgkin Lymphoma Hodgkin Lymphoma BEFREE 12594818
★☆☆☆☆
Found in Text Mining only
Allergic rhinitis (disorder) Allergic rhinitis BEFREE 28100959
★☆☆☆☆
Found in Text Mining only
Antisocial Personality Disorder Antisocial Personality Disorder BEFREE 6241212
★☆☆☆☆
Found in Text Mining only
Anxiety Anxiety Disorder HPO_DG
★☆☆☆☆
Found in Text Mining only
Astigmatism Astigmatism HPO_DG
★☆☆☆☆
Found in Text Mining only
Atrial Fibrillation Atrial Fibrillation BEFREE 29506740
★☆☆☆☆
Found in Text Mining only
Autoimmune Diseases Autoimmune Diseases BEFREE 10430027, 17522890
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Autoimmune Diseases Autoimmune disease Pubtator 33131414 Associate
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Autosomal dominant Charcot-Marie-Tooth disease type 2W Charcot-Marie-Tooth Disease Orphanet
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)