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Q5YPA6

- MEND_NOCFA

UniProt

Q5YPA6 - MEND_NOCFA

Protein

2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase

Gene

menD

Organism
Nocardia farcinica (strain IFM 10152)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 69 (01 Oct 2014)
      Sequence version 1 (23 Nov 2004)
      Previous versions | rss
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    Functioni

    Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate (SEPHCHC).UniRule annotation

    Catalytic activityi

    Isochorismate + 2-oxoglutarate = 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate + CO2.UniRule annotation

    Cofactori

    Magnesium or manganese.UniRule annotation
    Binds 1 thiamine pyrophosphate per subunit.UniRule annotation

    Pathwayi

    GO - Molecular functioni

    1. 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity Source: UniProtKB-EC
    2. metal ion binding Source: UniProtKB-KW
    3. thiamine pyrophosphate binding Source: InterPro

    GO - Biological processi

    1. menaquinone biosynthetic process Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Transferase

    Keywords - Biological processi

    Menaquinone biosynthesis

    Keywords - Ligandi

    Magnesium, Manganese, Metal-binding, Thiamine pyrophosphate

    Enzyme and pathway databases

    BioCyciNFAR247156:GJ9T-5204-MONOMER.
    UniPathwayiUPA00079; UER00164.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseUniRule annotation (EC:2.2.1.9UniRule annotation)
    Short name:
    SEPHCHC synthaseUniRule annotation
    Alternative name(s):
    Menaquinone biosynthesis protein MenDUniRule annotation
    Gene namesi
    Name:menDUniRule annotation
    Ordered Locus Names:NFA_51330
    OrganismiNocardia farcinica (strain IFM 10152)
    Taxonomic identifieri247156 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeNocardia
    ProteomesiUP000006820: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 5455452-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthasePRO_0000341790Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi247156.nfa51330.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5YPA6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the TPP enzyme family. MenD subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1165.
    KOiK02551.
    OMAiWRSAVCR.
    OrthoDBiEOG6NWBQW.

    Family and domain databases

    Gene3Di3.40.50.970. 2 hits.
    HAMAPiMF_01659. MenD.
    InterProiIPR004433. MenaQ_synth_MenD.
    IPR029061. THDP-binding.
    IPR012001. Thiamin_PyroP_enz_TPP-bd_dom.
    IPR011766. TPP_enzyme-bd_C.
    [Graphical view]
    PfamiPF02775. TPP_enzyme_C. 1 hit.
    PF02776. TPP_enzyme_N. 1 hit.
    [Graphical view]
    PIRSFiPIRSF004983. MenD. 1 hit.
    SUPFAMiSSF52518. SSF52518. 2 hits.
    TIGRFAMsiTIGR00173. menD. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q5YPA6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNPSTAQARV VVDELVRGGV RDVVLCPGSR NAPLAFALQA ADAAGRLRLH    50
    MRIDERTAGF LAIGLAISAG APVPVVMTSG TAVANLGPAV LEANYARVPL 100
    IVLSANRPYE MLGTGANQTV EQLGLFGSQV RATISLGLAE ADGAGAGSYD 150
    QQNSVWRSAV CRVLAAARGT RSGNAGPVHF DIPLREPLVP DLAEGEAEPA 200
    GRAGGAPWTA TQYATLDVPL EIDLTPDTVV VSGHGAGLRP ELAHLPTVAE 250
    PTAPMHGPAL HPLALPLLTP RQAIITGRPT LHRQVSRLLA DPAVTVYALT 300
    TGPRWPDVSG NVVGTGTRAV TSGGPRPEWL AHCRELDEKA RQVVRAELAG 350
    HPKPTGLHVA AVVMDALREG DQLLLGASNP VRDAALVATP RPGVRVLSNR 400
    GVAGIDGTVS TAVGAALAHP GRTIALIGDL TFLHDAAGLL IGRGEPRPAD 450
    LTIVVANDDG GGIFELLEQG DPQYAGVFER VFGTPHGMDL AALCAAYRIP 500
    HRQVDPAELA AELAGDAHGL RVLEVITERS SLRELHATVR AKIAP 545
    Length:545
    Mass (Da):56,577
    Last modified:November 23, 2004 - v1
    Checksum:iFB1DA1B4E63A4696
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006618 Genomic DNA. Translation: BAD59985.1.
    RefSeqiYP_121349.1. NC_006361.1.

    Genome annotation databases

    EnsemblBacteriaiBAD59985; BAD59985; NFA_51330.
    GeneIDi3111276.
    KEGGinfa:nfa51330.
    PATRICi22739847. VBINocFar94200_5142.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006618 Genomic DNA. Translation: BAD59985.1 .
    RefSeqi YP_121349.1. NC_006361.1.

    3D structure databases

    ProteinModelPortali Q5YPA6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 247156.nfa51330.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD59985 ; BAD59985 ; NFA_51330 .
    GeneIDi 3111276.
    KEGGi nfa:nfa51330.
    PATRICi 22739847. VBINocFar94200_5142.

    Phylogenomic databases

    eggNOGi COG1165.
    KOi K02551.
    OMAi WRSAVCR.
    OrthoDBi EOG6NWBQW.

    Enzyme and pathway databases

    UniPathwayi UPA00079 ; UER00164 .
    BioCyci NFAR247156:GJ9T-5204-MONOMER.

    Family and domain databases

    Gene3Di 3.40.50.970. 2 hits.
    HAMAPi MF_01659. MenD.
    InterProi IPR004433. MenaQ_synth_MenD.
    IPR029061. THDP-binding.
    IPR012001. Thiamin_PyroP_enz_TPP-bd_dom.
    IPR011766. TPP_enzyme-bd_C.
    [Graphical view ]
    Pfami PF02775. TPP_enzyme_C. 1 hit.
    PF02776. TPP_enzyme_N. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF004983. MenD. 1 hit.
    SUPFAMi SSF52518. SSF52518. 2 hits.
    TIGRFAMsi TIGR00173. menD. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: IFM 10152.

    Entry informationi

    Entry nameiMEND_NOCFA
    AccessioniPrimary (citable) accession number: Q5YPA6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 1, 2008
    Last sequence update: November 23, 2004
    Last modified: October 1, 2014
    This is version 69 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