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    SHM3 serine hydroxymethyltransferase 3 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829387, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SHM3
    Official Full Name
    serine hydroxymethyltransferase 3
    Primary source
    TAIR:AT4G32520
    Locus tag
    AT4G32520
    See related
    Araport:AT4G32520
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    AtSHMT3; L23H3.3; serine hydroxymethyltransferase 3; SERINE HYDROXYMETHYLTRANSFERASE 3
    Summary
    Encodes a serine hydroxymethyltransferase SHMT3 located in the plastid.
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    Genomic context

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    See SHM3 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    12
    Sequence:
    Chromosome: 4; NC_003075.7 (15689436..15692989, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene K+ transporter 5 Neighboring gene HCO3- transporter family Neighboring gene ATPase, F0/V0 complex, subunit C protein Neighboring gene uncharacterized protein Neighboring gene Flavin-binding monooxygenase family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. One-carbon metabolism in plants: characterization of a plastid serine hydroxymethyltransferase. Zhang Y, et al. Biochem J, 2010 Aug 15. PMID 20518745
    2. Arabidopsis thaliana serine hydroxymethyltransferases: functions, structures, and perspectives. Nogués I, et al. Plant Physiol Biochem, 2022 Sep 15. PMID 35947902
    3. Arabidopsis G-protein interactome reveals connections to cell wall carbohydrates and morphogenesis. Klopffleisch K, et al. Mol Syst Biol, 2011 Sep 27. PMID 21952135, Free PMC Article
    4. Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism. Ito J, et al. J Proteome Res, 2011 Apr 1. PMID 21166475
    5. AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins. Ferro M, et al. Mol Cell Proteomics, 2010 Jun. PMID 20061580, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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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    NM_001125626.1
    NM_119404.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables glycine hydroxymethyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables pyridoxal phosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in glycine biosynthetic process from serine IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tetrahydrofolate interconversion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast stroma HDA PubMed 
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    NOT located_in cytosol RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    located_in plasma membrane HDA PubMed 
    located_in plastid IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    serine hydroxymethyltransferase 3
    NP_001119098.1
    • serine hydroxymethyltransferase 3 (SHM3); FUNCTIONS IN: glycine hydroxymethyltransferase activity; INVOLVED IN: glycine metabolic process, L-serine metabolic process; LOCATED IN: chloroplast, plastid; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Serine hydroxymethyltransferase, pyridoxal phosphate binding site (InterPro:IPR019798), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421), Serine hydroxymethyltransferase (InterPro:IPR001085); BEST Arabidopsis thaliana protein match is: serine transhydroxymethyltransferase 1 (TAIR:AT4G37930.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_567895.1
    • serine hydroxymethyltransferase 3 (SHM3); FUNCTIONS IN: glycine hydroxymethyltransferase activity; INVOLVED IN: glycine metabolic process, L-serine metabolic process; LOCATED IN: chloroplast, plastid; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Serine hydroxymethyltransferase, pyridoxal phosphate binding site (InterPro:IPR019798), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421), Serine hydroxymethyltransferase (InterPro:IPR001085); BEST Arabidopsis thaliana protein match is: serine transhydroxymethyltransferase 1 (TAIR:AT4G37930.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

    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_003075.7 Reference assembly

      Range
      15689436..15692989 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119404.3 → NP_567895.1  serine hydroxymethyltransferase 3 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_567895.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JUC7, Q94JQ3, Q9SUU0
      UniProtKB/TrEMBL
      A0A178UTK1, A0A5S9XXY6
      Conserved Domains (1) summary
      PLN03226
      Location:70 → 528
      PLN03226; serine hydroxymethyltransferase; Provisional

    2. NM_001125626.1 → NP_001119098.1  serine hydroxymethyltransferase 3 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001119098.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JUC7, Q94JQ3, Q9SUU0
      UniProtKB/TrEMBL
      A0A178UTK1, A0A5S9XXY6
      Conserved Domains (1) summary
      PLN03226
      Location:70 → 528
      PLN03226; serine hydroxymethyltransferase; Provisional
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q94JQ3.2

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