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Protein

Phosphopantetheine adenylyltransferase

Gene

coaD

Organism
Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Reversibly transfers an adenylyl group from ATP to 4'-phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate.UniRule annotation2 Publications

Catalytic activityi

ATP + pantetheine 4'-phosphate = diphosphate + 3'-dephospho-CoA.UniRule annotation2 Publications

Cofactori

Mg2+UniRule annotation

Activity regulationi

Regulated by Coenzyme A (CoA) through feedback inhibition.2 Publications

Kineticsi

kcat is 288.5 min(-1) for the reverse reaction, with diphosphate and 3'-dephospho-CoA as substrates, which is nearly identical to that of the forward reaction fitted to the Hill equation. The enzyme seems to utilize a nonrapid-equilibrium random bi-bi mechanism with a preferred pathway to the ternary complex. A sigmoidal response is observed when ATP was varied at different fixed concentrations of pantetheine 4'-phosphate. Also exhibits nonhyperbolic kinetics when pantetheine 4'-phosphate was varied at a fixed saturating concentration of ATP.1 Publication
  1. KM=6.7 µM for 3'-dephospho-CoA1 Publication

    Pathwayi: coenzyme A biosynthesis

    This protein is involved in step 4 of the subpathway that synthesizes CoA from (R)-pantothenate.UniRule annotation
    Proteins known to be involved in the 5 steps of the subpathway in this organism are:
    1. Pantothenate kinase (coaA), Type III pantothenate kinase (coaX), Pantothenate kinase (coaA), Type III pantothenate kinase (coaX)
    2. Coenzyme A biosynthesis bifunctional protein CoaBC (coaBC), Coenzyme A biosynthesis bifunctional protein CoaBC (LH57_07625)
    3. Coenzyme A biosynthesis bifunctional protein CoaBC (coaBC), Coenzyme A biosynthesis bifunctional protein CoaBC (LH57_07625)
    4. Phosphopantetheine adenylyltransferase (coaD), Phosphopantetheine adenylyltransferase (coaD)
    5. Dephospho-CoA kinase (coaE), Dephospho-CoA kinase (coaE)
    This subpathway is part of the pathway coenzyme A biosynthesis, which is itself part of Cofactor biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes CoA from (R)-pantothenate, the pathway coenzyme A biosynthesis and in Cofactor biosynthesis.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei9SubstrateUniRule annotationCombined sources1 Publication1
    Binding sitei17ATPUniRule annotationCombined sources1 Publication1 Publication1
    Sitei17Transition state stabilizerUniRule annotation1
    Binding sitei41SubstrateUniRule annotation1
    Binding sitei73Substrate; via amide nitrogenUniRule annotationCombined sources1 Publication1
    Binding sitei87SubstrateUniRule annotation1
    Binding sitei98ATPUniRule annotationCombined sources1 Publication1
    Binding sitei105SubstrateCombined sources1 Publication1
    Binding sitei118ATPCombined sources1 Publication1 Publication1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi9 – 10ATPUniRule annotationCombined sources1 Publication1 Publication2
    Nucleotide bindingi88 – 90ATPUniRule annotationCombined sources1 Publication1 Publication3
    Nucleotide bindingi122 – 128ATPUniRule annotationCombined sources1 Publication1 Publication7

    GO - Molecular functioni

    • ATP binding Source: UniProtKB-KW
    • pantetheine-phosphate adenylyltransferase activity Source: MTBBASE

    GO - Biological processi

    Keywordsi

    Molecular functionNucleotidyltransferase, Transferase
    Biological processCoenzyme A biosynthesis
    LigandATP-binding, Magnesium, Nucleotide-binding

    Enzyme and pathway databases

    UniPathwayi
    UPA00241;UER00355

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Phosphopantetheine adenylyltransferase2 PublicationsUniRule annotation (EC:2.7.7.3UniRule annotation2 Publications)
    Alternative name(s):
    Dephospho-CoA pyrophosphorylaseUniRule annotation
    Pantetheine-phosphate adenylyltransferaseUniRule annotation
    Short name:
    PPAT2 PublicationsUniRule annotation
    Gene namesi
    Name:coaDUniRule annotation
    Synonyms:kdtB1 Publication
    Ordered Locus Names:Rv2965c
    ORF Names:MTCY349.22, u0002e
    OrganismiMycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
    Taxonomic identifieri83332 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium tuberculosis complex
    Proteomesi
    • UP000001584 Componenti: Chromosome

    Organism-specific databases

    TubercuListiRv2965c

    Subcellular locationi

    GO - Cellular componenti

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Initiator methionineiRemovedCombined sources
    ChainiPRO_00001562422 – 161Phosphopantetheine adenylyltransferaseAdd BLAST160

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Modified residuei2N-acetylthreonineCombined sources1

    Keywords - PTMi

    Acetylation

    Proteomic databases

    PaxDbiP9WPA5

    PTM databases

    iPTMnetiP9WPA5

    Interactioni

    Subunit structurei

    Homohexamer; dimer of trimers.UniRule annotation1 Publication1 Publication

    Protein-protein interaction databases

    STRINGi83332.Rv2965c

    Structurei

    Secondary structure

    1161
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details

    3D structure databases

    ProteinModelPortaliP9WPA5
    SMRiP9WPA5
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the bacterial CoaD family.UniRule annotation

    Phylogenomic databases

    eggNOGiENOG4108ZEF Bacteria
    COG0669 LUCA
    KOiK00954
    OMAiEFQMALM
    PhylomeDBiP9WPA5

    Family and domain databases

    CDDicd02163 PPAT, 1 hit
    Gene3Di3.40.50.620, 1 hit
    HAMAPiMF_00151 PPAT_bact, 1 hit
    InterProiView protein in InterPro
    IPR004821 Cyt_trans-like
    IPR001980 PPAT
    IPR014729 Rossmann-like_a/b/a_fold
    PANTHERiPTHR21342:SF1 PTHR21342:SF1, 1 hit
    PfamiView protein in Pfam
    PF01467 CTP_transf_like, 1 hit
    PRINTSiPR01020 LPSBIOSNTHSS
    TIGRFAMsiTIGR01510 coaD_prev_kdtB, 1 hit
    TIGR00125 cyt_tran_rel, 1 hit

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P9WPA5-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MTGAVCPGSF DPVTLGHVDI FERAAAQFDE VVVAILVNPA KTGMFDLDER
    60 70 80 90 100
    IAMVKESTTH LPNLRVQVGH GLVVDFVRSC GMTAIVKGLR TGTDFEYELQ
    110 120 130 140 150
    MAQMNKHIAG VDTFFVATAP RYSFVSSSLA KEVAMLGGDV SELLPEPVNR
    160
    RLRDRLNTER T
    Length:161
    Mass (Da):17,628
    Last modified:April 16, 2014 - v1
    Checksum:iDE9F12E18D0C1721
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U00024 Genomic DNA Translation: AAA50946.1
    AL123456 Genomic DNA Translation: CCP45769.1
    PIRiB70671
    RefSeqiNP_217481.1, NC_000962.3
    WP_003414998.1, NZ_KK339370.1

    Genome annotation databases

    EnsemblBacteriaiCCP45769; CCP45769; Rv2965c
    GeneIDi888423
    KEGGimtu:Rv2965c

    Similar proteinsi

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U00024 Genomic DNA Translation: AAA50946.1
    AL123456 Genomic DNA Translation: CCP45769.1
    PIRiB70671
    RefSeqiNP_217481.1, NC_000962.3
    WP_003414998.1, NZ_KK339370.1

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1TFUX-ray1.99A1-157[»]
    3LCJX-ray2.10A1-161[»]
    3NBAX-ray2.68A/B/C/D1-157[»]
    3NBKX-ray1.58A/B/C/D1-157[»]
    3PNBX-ray2.11A/B/C/D1-157[»]
    3RBAX-ray1.59A1-157[»]
    3RFFX-ray1.76A1-157[»]
    3RHSX-ray1.59A1-157[»]
    3UC5X-ray1.70A1-157[»]
    4E1AX-ray1.62A1-161[»]
    4R0NX-ray2.00A/C/E/G/I/K2-157[»]
    ProteinModelPortaliP9WPA5
    SMRiP9WPA5
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi83332.Rv2965c

    PTM databases

    iPTMnetiP9WPA5

    Proteomic databases

    PaxDbiP9WPA5

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiCCP45769; CCP45769; Rv2965c
    GeneIDi888423
    KEGGimtu:Rv2965c

    Organism-specific databases

    TubercuListiRv2965c

    Phylogenomic databases

    eggNOGiENOG4108ZEF Bacteria
    COG0669 LUCA
    KOiK00954
    OMAiEFQMALM
    PhylomeDBiP9WPA5

    Enzyme and pathway databases

    UniPathwayi
    UPA00241;UER00355

    Family and domain databases

    CDDicd02163 PPAT, 1 hit
    Gene3Di3.40.50.620, 1 hit
    HAMAPiMF_00151 PPAT_bact, 1 hit
    InterProiView protein in InterPro
    IPR004821 Cyt_trans-like
    IPR001980 PPAT
    IPR014729 Rossmann-like_a/b/a_fold
    PANTHERiPTHR21342:SF1 PTHR21342:SF1, 1 hit
    PfamiView protein in Pfam
    PF01467 CTP_transf_like, 1 hit
    PRINTSiPR01020 LPSBIOSNTHSS
    TIGRFAMsiTIGR01510 coaD_prev_kdtB, 1 hit
    TIGR00125 cyt_tran_rel, 1 hit
    ProtoNetiSearch...

    Entry informationi

    Entry nameiCOAD_MYCTU
    AccessioniPrimary (citable) accession number: P9WPA5
    Secondary accession number(s): L0TCR8
    , O08023, P0A530, Q50452
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 16, 2014
    Last sequence update: April 16, 2014
    Last modified: September 12, 2018
    This is version 26 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    4. Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh
      Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh: entries and gene names
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