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    SHM1 serine transhydroxymethyltransferase 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829949, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SHM1
    Official Full Name
    serine transhydroxymethyltransferase 1
    Primary source
    TAIR:AT4G37930
    Locus tag
    AT4G37930
    See related
    Araport:AT4G37930
    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
    F20D10.50; F20D10_50; SERINE HYDROXYMETHYLTRANSFERASE 1; SERINE TRANSHYDROXYMETHYLASE; SERINE TRANSHYDROXYMETHYLTRANSFERASE; serine transhydroxymethyltransferase 1; SHMT1; STM
    Summary
    Encodes a protein with mitochondrial serine hydroxymethyltransferase activity, which functions in the photorespiratory pathway, catalyzes the conversion of serine and tetrahydrofolate to glycine and 5,10-methylene tetrahydrofolate. Involved in controlling cell damage caused by abiotic stress, such as high light and salt and the hypersensitive defense response of plants.
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    Genomic context

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    See SHM1 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    15
    Sequence:
    Chromosome: 4; NC_003075.7 (17831731..17835017, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene endoribonuclease E-like protein Neighboring gene subunit NDH-M of NAD(P)H:plastoquinone dehydrogenase complex Neighboring gene AGAMOUS-like 21 Neighboring gene Rhamnogalacturonate lyase 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. Photosynthesis and fluorescence quenching, and the mRNA levels of plastidic glutamine synthetase or of mitochondrial serine hydroxymethyltransferase (SHMT) in the leaves of the wild-type and of the SHMT-deficient stm mutant of Arabidopsis thaliana in relation to the rate of photorespiration. Beckmann K, et al. Planta, 1997. PMID 9232907
    2. Photorespiratory serine hydroxymethyltransferase 1 activity impacts abiotic stress tolerance and stomatal closure. Liu Y, et al. Plant Cell Environ, 2019 Sep. PMID 31134633
    3. Arabidopsis SHMT1, a serine hydroxymethyltransferase that functions in the photorespiratory pathway influences resistance to biotic and abiotic stress. Moreno JI, et al. Plant J, 2005 Feb. PMID 15659103
    4. The photorespiratory Arabidopsis shm1 mutant is deficient in SHM1. Voll LM, et al. Plant Physiol, 2006 Jan. PMID 16339799, Free PMC Article
    5. Impairment of the photorespiratory pathway accelerates photoinhibition of photosystem II by suppression of repair but not acceleration of damage processes in Arabidopsis. Takahashi S, et al. Plant Physiol, 2007 May. PMID 17400706, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. S31D mutation led to a reduction in salt-induced and ABA-induced stomatal closure
      Title: Photorespiratory serine hydroxymethyltransferase 1 activity impacts abiotic stress tolerance and stomatal closure.
    2. SHM1 and SHM2 operate in a redundant manner in one-carbon metabolism of nonphotorespiring cells with a high demand of one-carbon units.
      Title: The presequence of Arabidopsis serine hydroxymethyltransferase SHM2 selectively prevents import into mesophyll mitochondria.
    3. The senescence is initiated in shm1-1 under photorespiratory conditions. Transcription of the senescence marker SAG12 is enhanced in shm1-1.
      Title: D-2-hydroxyglutarate metabolism is linked to photorespiration in the shm1-1 mutant.
    4. Structural modeling of SHM1, SHM2, and SHM4 presented features that may explain the activity differences between the mitochondrial and cytosolic isozymes.
      Title: Folate polyglutamylation eliminates dependence of activity on enzyme concentration in mitochondrial serine hydroxymethyltransferases from Arabidopsis thaliana.
    5. results suggest that UBP16 is involved in salt tolerance in Arabidopsis by modulating sodium transport activity and repressing cell death at least partially through modulating SMH1stability and activity.
      Title: Ubiquitin-specific protease16 modulates salt tolerance in Arabidopsis by regulating Na(+)/H(+) antiport activity and serine hydroxymethyltransferase stability.
    6. SHMT1 interacts with GLU1 and this interaction is necessary for photorespiratory serine hydroxymethyltransferase (SHMT) activity.
      Title: Arabidopsis photorespiratory serine hydroxymethyltransferase activity requires the mitochondrial accumulation of ferredoxin-dependent glutamate synthase.
    7. SHM1 expression is required for mitochondrial serine hydroxymethyltransferase activity and proper function of the C2 cycle during growth in ambient air.
      Title: The photorespiratory Arabidopsis shm1 mutant is deficient in SHM1.
    8. The characterization and expression of SHMT1 in A. thaliana. [SHMT1]
      Title: Arabidopsis SHMT1, a serine hydroxymethyltransferase that functions in the photorespiratory pathway influences resistance to biotic and abiotic stress.
    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

    NM_119954.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables glycine hydroxymethyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables glycine hydroxymethyltransferase activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables poly(U) RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables pyridoxal phosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in L-serine metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in circadian rhythm IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in glycine biosynthetic process from serine IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within glycine decarboxylation via glycine cleavage system IMP
    Inferred from Mutant Phenotype
    more info
    		  
    involved_in glycine metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within photorespiration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in photorespiration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within plant-type hypersensitive response TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within response to cold IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to light stimulus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in tetrahydrofolate interconversion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in apoplast HDA PubMed 
    located_in chloroplast stroma HDA PubMed 
    located_in chloroplast thylakoid HDA PubMed 
    located_in cytosol HDA PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosolic ribosome HDA PubMed 
    located_in mitochondrial matrix ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus HDA PubMed 
    located_in plasma membrane HDA PubMed 
    located_in stromule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    serine transhydroxymethyltransferase 1
    NP_195506.1
    • serine transhydroxymethyltransferase 1 (SHM1); FUNCTIONS IN: poly(U) RNA binding, glycine hydroxymethyltransferase activity; INVOLVED IN: in 8 processes; LOCATED IN: in 9 components; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 17 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 hydroxymethyltransferase 2 (TAIR:AT5G26780.1); Has 11621 Blast hits to 11596 proteins in 2825 species: Archae - 258; Bacteria - 6371; Metazoa - 337; Fungi - 287; Plants - 346; Viruses - 6; Other Eukaryotes - 4016 (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
      17831731..17835017 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119954.4 → NP_195506.1  serine transhydroxymethyltransferase 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_195506.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q940M9, Q9SZJ5
      UniProtKB/TrEMBL
      A0A178UYX1, A0A5S9Y0H0, A0A654FWH3
      Conserved Domains (1) summary
      PLN03226
      Location:41 → 517
      PLN03226; serine hydroxymethyltransferase; Provisional
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SZJ5.1

    Gene LinkOut

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