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    YNL040W putative alanine--tRNA ligase [ Saccharomyces cerevisiae S288C ]

    Gene ID: 855688, updated on 1-Aug-2024

    Summary

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    Gene symbol
    YNL040W
    Gene description
    putative alanine--tRNA ligase
    Primary source
    FungiDB:YNL040W
    Locus tag
    YNL040W
    See related
    SGD:S000004985; AllianceGenome:SGD:S000004985; VEuPathDB:YNL040W
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Predicted to enable Ser-tRNA(Ala) hydrolase activity. Predicted to be involved in regulation of translational fidelity. Located in cytoplasm. Orthologous to human PTGES3L-AARSD1 (PTGES3L-AARSD1 readthrough). [provided by Alliance of Genome Resources, Apr 2022]
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    Genomic context

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    See YNL040W in Genome Data Viewer
    Location:
    chromosome: XIV
    Exon count:
    1
    Sequence:
    Chromosome: XIV; NC_001146.8 (553380..554750)

    Chromosome XIV - NC_001146.8Genomic Context describing neighboring genes Neighboring gene Golgi transport complex subunit COG6 Neighboring gene uncharacterized protein Neighboring gene transcription factor TFIIIB subunit BDP1 Neighboring gene phosphatidylinositol N-acetylglucosaminyltransferase GPI15

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001146.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A global investigation of gene deletion strains that affect premature stop codon bypass in yeast, Saccharomyces cerevisiae. Samanfar B, et al. Mol Biosyst, 2014 Apr. PMID 24535059
    2. Paradox of mistranslation of serine for alanine caused by AlaRS recognition dilemma. Guo M, et al. Nature, 2009 Dec 10. PMID 20010690, Free PMC Article
    3. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD). Balakrishnan R, et al. Nucleic Acids Res, 2005 Jan 1. PMID 15608219, Free PMC Article
    4. Analysis of deletion phenotypes and GFP fusions of 21 novel Saccharomyces cerevisiae open reading frames. Brachat A, et al. Yeast, 2000 Feb. PMID 10649453
    5. Mud2 functions in transcription by recruiting the Prp19 and TREX complexes to transcribed genes. Minocha R, et al. Nucleic Acids Res, 2018 Oct 12. PMID 30053068, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. deletion of YNL040W increased the rate of premature stop codon bypass and reduced the rate of protein synthesis connecting its activity to the process of protein biosynthesis.
      Title: A global investigation of gene deletion strains that affect premature stop codon bypass in yeast, Saccharomyces cerevisiae.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by SGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables Ser-tRNA(Ala) hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables aminoacyl-tRNA ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in aminoacyl-tRNA metabolism involved in translational fidelity IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in regulation of translational fidelity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm HDA PubMed 

    General protein information

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    Preferred Names
    putative alanine--tRNA ligase
    NP_014358.3
    • hypothetical protein; has strong similarity to alanyl-tRNA synthases from Eubacteria; null mutant displays decreased translation rate and increased readthrough of premature stop codons; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL040W is not an essential gene

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_001146.8 Reference assembly

      Range
      553380..554750
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001182879.3 → NP_014358.3  TPA: putative alanine--tRNA ligase [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_014358.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D6W1D9, P53960
      UniProtKB/TrEMBL
      B5VQZ7, G2WM63, N1NZK3
      Conserved Domains (1) summary
      COG2872
      Location:11 → 281
      AlaX; Ser-tRNA(Ala) deacylase AlaX (editing enzyme) [Translation, ribosomal structure and biogenesis]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P53960.1

    Gene LinkOut

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