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    glyA serine hydroxymethyltransferase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 947022, updated on 3-Dec-2024

    Summary

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    Official Symbol
    glyA
    Official Full Name
    serine hydroxymethyltransferase
    Primary source
    ECOCYC:EG10408
    Locus tag
    b2551
    See related
    ASAP:ABE-0008389
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
    Lineage
    Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
    Also known as
    ECK2548
    Summary
    Serine hydroxymethyltransferase converts serine to glycine, transferring a methyl group to tetrahydrofolate, thus forming 5,10-methylene-tetrahydrofolate (5,10-mTHF). [More information is available at EcoCyc: EG10408].
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    Genomic context

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    Sequence:
    NC_000913.3 (2684254..2685507, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DUF5107 domain-containing protein YphG Neighboring gene putative DNA-binding transcriptional regulator, NAGC-like Neighboring gene nitric oxide dioxygenase Neighboring gene nitrogen regulatory protein PII-1

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Studies on the regulation of one-carbon metabolism. II. Repression-derepression of serine hydroxymethyltransferase by methionine in Escherichia coli 113-3. Mansouri A, et al. J Biol Chem, 1972 Jan 25. PMID 4550600
    2. GLYCINE SYNTHESIS AND METABOLISM IN ESCHERICHIA COLI. PIZER LI. J Bacteriol, 1965 Apr. PMID 14276110, Free PMC Article
    3. Crystal structure at 2.4 A resolution of E. coli serine hydroxymethyltransferase in complex with glycine substrate and 5-formyl tetrahydrofolate. Scarsdale JN, et al. J Mol Biol, 2000 Feb 11. PMID 10656824
    4. MetR-mediated repression of the glyA gene in Escherichia coli. Lorenz E, et al. FEMS Microbiol Lett, 1996 Nov 1. PMID 8900067
    5. Escherichia coli cis- and trans-acting mutations that increase glyA gene expression. Lorenz E, et al. Mol Gen Genet, 1996 Jan 15. PMID 8569691

    See all (58) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Inhibition of glycine cleavage system by pyridoxine 5'-phosphate causes synthetic lethality in glyA yggS and serA yggS in Escherichia coli.
      Title: Inhibition of glycine cleavage system by pyridoxine 5'-phosphate causes synthetic lethality in glyA yggS and serA yggS in Escherichia coli.
    2. A bioinformatic study shows that Tyr55 (at the active site) and Arg235 are strongly conserved within the serine hydroxymethyltransferase family and are involved in a cation-pi interaction in the large majority of available SHMT structures.
      Title: Role of a conserved active site cation-pi interaction in Escherichia coli serine hydroxymethyltransferase.
    3. N-terminus verified by Edman degradation on complete protein
      Title: The gcvB gene encodes a small untranslated RNA involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli.
    4. Results describe the mechanism of addition of pyridoxal 5'-phosphate to Escherichia coli apo-serine hydroxymethyltransferase.
      Title: The mechanism of addition of pyridoxal 5'-phosphate to Escherichia coli apo-serine hydroxymethyltransferase.
    5. activation of glyA by CsgD requires the participation of the regulatory proteins, MetR and PurR
      Title: Role of MetR and PurR in the activation of glyA by CsgD in Escherichia coli K-12.
    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 EcoCyc

    Function Evidence Code Pubs
    enables L-allo-threonine aldolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables glycine hydroxymethyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables glycine hydroxymethyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables glycine hydroxymethyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables glycine hydroxymethyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables pyridoxal phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables pyridoxal phosphate binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables pyridoxal phosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within L-serine biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within L-serine catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in amino acid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in glycine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in glycine biosynthetic process from serine IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within glycine biosynthetic process from serine IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in glycine biosynthetic process from serine IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within glycine biosynthetic process from serine IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within glycine catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in one-carbon metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tetrahydrofolate interconversion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tetrahydrofolate metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol HDA PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane HDA PubMed 

    General protein information

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    Preferred Names
    serine hydroxymethyltransferase
    NP_417046.1

    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_000913.3 Reference assembly

      Range
      2684254..2685507 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417046.1 serine hydroxymethyltransferase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417046.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A8S7T8K8, A0AAN5ZHF1
      Conserved Domains (1) summary
      PRK00011
      Location:6 → 417
      glyA; serine hydroxymethyltransferase; Reviewed
    Nucleotide Protein
    Heading Accession and Version

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