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    kars1 lysyl-tRNA synthetase 1 [ Danio rerio (zebrafish) ]

    Gene ID: 280647, updated on 9-Dec-2024

    Summary

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    Official Symbol
    kars1provided by ZNC
    Official Full Name
    lysyl-tRNA synthetase 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-021115-8
    See related
    Ensembl:ENSDARG00000103799 AllianceGenome:ZFIN:ZDB-GENE-021115-8
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    kars; cb530; zgc:92483; wu:fa16h02
    Summary
    Predicted to enable ATP:ADP adenylyltransferase activity; lysine-tRNA ligase activity; and tRNA binding activity. Predicted to be involved in several processes, including diadenosine tetraphosphate biosynthetic process; lysyl-tRNA aminoacylation; and positive regulation of macrophage activation. Predicted to act upstream of or within tRNA aminoacylation for protein translation. Predicted to be part of aminoacyl-tRNA synthetase multienzyme complex. Predicted to be active in mitochondrion. Is expressed in several structures, including alar plate midbrain region; digestive system; immature eye; musculature system; and nervous system. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease recessive intermediate B and autosomal recessive nonsyndromic deafness 89. Orthologous to human KARS1 (lysyl-tRNA synthetase 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See kars1 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (67429430..67448884)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (67206068..67225532)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene polycystic kidney disease 1 like 2b Neighboring gene proteasome 26S subunit, non-ATPase 7 Neighboring gene nuclear factor of activated T cells 5b Neighboring gene small nucleolar RNA MBII-202 Neighboring gene glycine cleavage system protein H (aminomethyl carrier), b Neighboring gene ribosomal protein L13

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Mutations in KARS, encoding lysyl-tRNA synthetase, cause autosomal-recessive nonsyndromic hearing impairment DFNB89. Santos-Cortez RL, et al. Am J Hum Genet, 2013 Jul 11. PMID 23768514, Free PMC Article
    2. Deletion of Mtu1 (Trmu) in zebrafish revealed the essential role of tRNA modification in mitochondrial biogenesis and hearing function. Zhang Q, et al. Nucleic Acids Res, 2018 Nov 16. PMID 30137487, Free PMC Article
    3. Deletion of Gtpbp3 in zebrafish revealed the hypertrophic cardiomyopathy manifested by aberrant mitochondrial tRNA metabolism. Chen D, et al. Nucleic Acids Res, 2019 Jun 4. PMID 30916346, Free PMC Article
    4. Slc38a9 Deficiency Induces Apoptosis and Metabolic Dysregulation and Leads to Premature Death in Zebrafish. Wu X, et al. Int J Mol Sci, 2022 Apr 11. PMID 35457018, Free PMC Article
    5. XBP-1, a key regulator of unfolded protein response, activates transcription of IGF1 and Akt phosphorylation in zebrafish embryonic cell line. Hu MC, et al. Biochem Biophys Res Commun, 2007 Aug 3. PMID 17560942

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP:ADP adenylyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables aminoacyl-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables lysine-tRNA ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables lysine-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in basophil activation involved in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in diadenosine tetraphosphate biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lysyl-tRNA aminoacylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within lysyl-tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of macrophage activation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within tRNA aminoacylation for protein translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of aminoacyl-tRNA synthetase multienzyme complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    lysine--tRNA ligase
    NP_001002386.1
    NP_001315435.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001002386.2 → NP_001002386.1  lysine--tRNA ligase isoform 1

      See identical proteins and their annotated locations for NP_001002386.1

      Status: VALIDATED

      Source sequence(s)
      BC076028, CABZ01060768, CU651676
      UniProtKB/TrEMBL
      A0A8M1N092, Q6DHE6
      Related
      ENSDARP00000136176.1, ENSDART00000162553.2
      Conserved Domains (3) summary
      PLN02502
      Location:34 → 590
      PLN02502; lysyl-tRNA synthetase
      cd00775
      Location:250 → 588
      LysRS_core; Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three ...
      cd04322
      Location:139 → 247
      LysRS_N; LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. ...

    2. NM_001328506.1 → NP_001315435.1  lysine--tRNA ligase isoform 2

      Status: VALIDATED

      Source sequence(s)
      BC076028, CABZ01060768, CU651676
      UniProtKB/TrEMBL
      A0A0R4IC11, A0A8M1P3X7
      Related
      ENSDARP00000144447.1, ENSDART00000178646.2
      Conserved Domains (3) summary
      PLN02502
      Location:9 → 565
      PLN02502; lysyl-tRNA synthetase
      cd00775
      Location:225 → 563
      LysRS_core; Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three ...
      cd04322
      Location:114 → 222
      LysRS_N; LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. ...

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007118.7 Reference GRCz11 Primary Assembly

      Range
      67429430..67448884
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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