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    SER3 phosphoglycerate dehydrogenase SER3 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 856814, updated on 9-Dec-2024

    Summary

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    Official Symbol
    SER3
    Official Full Name
    phosphoglycerate dehydrogenase SER3
    Primary source
    SGD:S000000883
    Locus tag
    YER081W
    See related
    AllianceGenome:SGD:S000000883; FungiDB:YER081W; VEuPathDB:YER081W
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Enables alpha-ketoglutarate reductase activity and phosphoglycerate dehydrogenase activity. Involved in serine family amino acid biosynthetic process. Located in cytoplasm. Human ortholog(s) of this gene implicated in Neu-Laxova syndrome 1; PHGDH deficiency; and amino acid metabolic disorder. Orthologous to human PHGDH (phosphoglycerate dehydrogenase). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See SER3 in Genome Data Viewer
    Location:
    chromosome: V
    Exon count:
    1
    Sequence:
    Chromosome: V; NC_001137.3 (322686..324095)

    Chromosome V - NC_001137.3Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene Aim9p Neighboring gene ncRNA Neighboring gene Utp7p Neighboring gene GET complex subunit GET2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001137.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Evidence that Swi/Snf directly represses transcription in S. cerevisiae. Martens JA, et al. Genes Dev, 2002 Sep 1. PMID 12208846, Free PMC Article
    2. 3-Phosphoglycerate Transhydrogenation Instead of Dehydrogenation Alleviates the Redox State Dependency of Yeast de Novo l-Serine Synthesis. Paczia N, et al. Biochemistry, 2019 Jan 29. PMID 30668112
    3. The Paf1 complex represses SER3 transcription in Saccharomyces cerevisiae by facilitating intergenic transcription-dependent nucleosome occupancy of the SER3 promoter. Pruneski JA, et al. Eukaryot Cell, 2011 Oct. PMID 21873510, Free PMC Article
    4. Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene. Martens JA, et al. Nature, 2004 Jun 3. PMID 15175754
    5. Intergenic transcription causes repression by directing nucleosome assembly. Hainer SJ, et al. Genes Dev, 2011 Jan 1. PMID 21156811, Free PMC Article

    See all (60) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Paf1 and Ctr9 repress SER3 by maintaining SRG1 transcription-dependent nucleosome occupancy.
      Title: The Paf1 complex represses SER3 transcription in Saccharomyces cerevisiae by facilitating intergenic transcription-dependent nucleosome occupancy of the SER3 promoter.
    2. Studies identified mutations altering eight histone residues (H3 residues V46, R49, V117, Q120, and K122 and H4 residues R36, I46, and S47) that strongly increase SER3 expression without reducing the transcription of the intergenic SRG1 ncDNA.
      Title: Identification of histone mutants that are defective for transcription-coupled nucleosome occupancy.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    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 NAD binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables alpha-ketoglutarate reductase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables alpha-ketoglutarate reductase activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    enables alpha-ketoglutarate reductase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoglycerate dehydrogenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoglycerate dehydrogenase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in L-serine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in amino acid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in carboxylic acid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in serine family amino acid biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm HDA PubMed 

    General protein information

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    Preferred Names
    phosphoglycerate dehydrogenase SER3
    NP_011004.3
    • 3-phosphoglycerate dehydrogenase and alpha-ketoglutarate reductase; 3PG dehydrogenase that catalyzes the first step in serine and glycine biosynthesis; alpha-ketoglutarate reductase, converting alpha-ketoglutarate to D-2-hydroxyglutarate (D-2HG); directly phosphorylated by TORC1 in a Pib2-dependent manner; localizes to the cytoplasm; ER3 has a paralog, SER33, that arose from the whole genome duplication

    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_001137.3 Reference assembly

      Range
      322686..324095
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001178972.3 → NP_011004.3  TPA: phosphoglycerate dehydrogenase SER3 [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_011004.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D3DLY8, P40054
      UniProtKB/TrEMBL
      A0SXJ5, A6ZR37, A6ZVJ9, B3LRJ9, B3LTS5, C7GKK5, C7GRR4, C8Z793, C8ZAH1, G2WCX2, G2WG74, N1P4Y2
      Conserved Domains (1) summary
      PRK11790
      Location:59 → 469
      PRK11790; phosphoglycerate dehydrogenase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P40054.1

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