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P56990

- GLYA_NEIMB

UniProt

P56990 - GLYA_NEIMB

Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Neisseria meningitidis serogroup B (strain MC58)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 91 (01 Oct 2014)
      Sequence version 1 (01 Dec 2000)
      Previous versions | rss
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    Functioni

    Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism.UniRule annotation

    Catalytic activityi

    5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine.UniRule annotation

    Cofactori

    Pyridoxal phosphate.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei35 – 351Pyridoxal phosphateUniRule annotation
    Binding sitei55 – 551Pyridoxal phosphateUniRule annotation
    Binding sitei57 – 571SubstrateUniRule annotation
    Binding sitei64 – 641SubstrateUniRule annotation
    Binding sitei65 – 651Pyridoxal phosphateUniRule annotation
    Binding sitei99 – 991Pyridoxal phosphateUniRule annotation
    Binding sitei121 – 1211Substrate; via carbonyl oxygenUniRule annotation
    Binding sitei175 – 1751Pyridoxal phosphateUniRule annotation
    Binding sitei203 – 2031Pyridoxal phosphateUniRule annotation
    Binding sitei228 – 2281Pyridoxal phosphateUniRule annotation
    Binding sitei235 – 2351Pyridoxal phosphateUniRule annotation
    Binding sitei261 – 2611Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation
    Binding sitei361 – 3611Pyridoxal phosphateUniRule annotation

    GO - Molecular functioni

    1. glycine hydroxymethyltransferase activity Source: UniProtKB-HAMAP
    2. pyridoxal phosphate binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. glycine biosynthetic process from serine Source: UniProtKB-HAMAP
    2. tetrahydrofolate interconversion Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Transferase

    Keywords - Biological processi

    Amino-acid biosynthesis, One-carbon metabolism

    Keywords - Ligandi

    Pyridoxal phosphate

    Enzyme and pathway databases

    BioCyciNMEN122586:GHGG-1092-MONOMER.
    UniPathwayiUPA00193.
    UPA00288; UER01023.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Serine hydroxymethyltransferaseUniRule annotation (EC:2.1.2.1UniRule annotation)
    Short name:
    SHMTUniRule annotation
    Short name:
    Serine methylaseUniRule annotation
    Gene namesi
    Name:glyAUniRule annotation
    Ordered Locus Names:NMB1055
    OrganismiNeisseria meningitidis serogroup B (strain MC58)
    Taxonomic identifieri122586 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNeisserialesNeisseriaceaeNeisseria
    ProteomesiUP000000425: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 416416Serine hydroxymethyltransferasePRO_0000113623Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei229 – 2291N6-(pyridoxal phosphate)lysineUniRule annotation

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi122586.NMB1055.

    Structurei

    3D structure databases

    ProteinModelPortaliP56990.
    SMRiP56990. Positions 1-415.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni125 – 1273Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the SHMT family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0112.
    HOGENOMiHOG000239404.
    KOiK00600.
    OMAiVADPFEY.
    OrthoDBiEOG6Z0QB2.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    3.90.1150.10. 1 hit.
    HAMAPiMF_00051. SHMT.
    InterProiIPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    IPR001085. Ser_HO-MeTrfase.
    IPR019798. Ser_HO-MeTrfase_PLP_BS.
    [Graphical view]
    PANTHERiPTHR11680. PTHR11680. 1 hit.
    PfamiPF00464. SHMT. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000412. SHMT. 1 hit.
    SUPFAMiSSF53383. SSF53383. 1 hit.
    PROSITEiPS00096. SHMT. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P56990-1 [UniParc]FASTAAdd to Basket

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    MFSKSVTLAQ YDPDLAAAIA QEDQRQQDHV ELIASENYVS CAVMDAQGSQ    50
    LTNKYAEGYP GKRYYGGCEY VDIVEQLAID RVKELFGAAY ANVQPHSGSQ 100
    ANQAVYASVL KPGDTILGMS LAHGGHLTHG ASVNISGKLY NAVTYGLDEN 150
    EVLDYAEVER LALEHKPKMI VAGASAYALQ IDWAKFREIA DKVGAYLFVD 200
    MAHYAGLVAG GEYPNPVPFC DFVTTTTHKT LRGPRGGVIL CRDNTHEKAL 250
    NSSIFPSLQG GPLMHVIAAK AVAFKEALQP EFKQYAKQVK INAAAMAEEL 300
    VKRGLRIVSG RTESHVFLVD LQPMKITGKA AEAALGKAHI TVNKNAIPND 350
    PEKPFVTSGI RIGSAAMTTR GFNEADARVL ANLVADVLSN PEDEANLAKV 400
    RKQVTALCNK YPVYGA 416
    Length:416
    Mass (Da):44,916
    Last modified:December 1, 2000 - v1
    Checksum:i393E4BBF7825921C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE002098 Genomic DNA. Translation: AAF41452.1.
    PIRiB81126.
    RefSeqiNP_274089.1. NC_003112.2.

    Genome annotation databases

    EnsemblBacteriaiAAF41452; AAF41452; NMB1055.
    GeneIDi903374.
    KEGGinme:NMB1055.
    PATRICi20357651. VBINeiMen85645_1342.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE002098 Genomic DNA. Translation: AAF41452.1 .
    PIRi B81126.
    RefSeqi NP_274089.1. NC_003112.2.

    3D structure databases

    ProteinModelPortali P56990.
    SMRi P56990. Positions 1-415.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 122586.NMB1055.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAF41452 ; AAF41452 ; NMB1055 .
    GeneIDi 903374.
    KEGGi nme:NMB1055.
    PATRICi 20357651. VBINeiMen85645_1342.

    Phylogenomic databases

    eggNOGi COG0112.
    HOGENOMi HOG000239404.
    KOi K00600.
    OMAi VADPFEY.
    OrthoDBi EOG6Z0QB2.

    Enzyme and pathway databases

    UniPathwayi UPA00193 .
    UPA00288 ; UER01023 .
    BioCyci NMEN122586:GHGG-1092-MONOMER.

    Family and domain databases

    Gene3Di 3.40.640.10. 1 hit.
    3.90.1150.10. 1 hit.
    HAMAPi MF_00051. SHMT.
    InterProi IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    IPR001085. Ser_HO-MeTrfase.
    IPR019798. Ser_HO-MeTrfase_PLP_BS.
    [Graphical view ]
    PANTHERi PTHR11680. PTHR11680. 1 hit.
    Pfami PF00464. SHMT. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000412. SHMT. 1 hit.
    SUPFAMi SSF53383. SSF53383. 1 hit.
    PROSITEi PS00096. SHMT. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: MC58.

    Entry informationi

    Entry nameiGLYA_NEIMB
    AccessioniPrimary (citable) accession number: P56990
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: December 1, 2000
    Last modified: October 1, 2014
    This is version 91 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3