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Protein

Pyridoxal 5'-phosphate synthase subunit PdxT

Gene

pdxT

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the hydrolysis of glutamine to glutamate and ammonia as part of the biosynthesis of pyridoxal 5'-phosphate. The resulting ammonia molecule is channeled to the active site of PdxS.UniRule annotation1 Publication

Catalytic activityi

D-ribose 5-phosphate + D-glyceraldehyde 3-phosphate + L-glutamine = pyridoxal 5'-phosphate + L-glutamate + 3 H2O + phosphate.UniRule annotation1 Publication
L-glutamine + H2O = L-glutamate + NH3.UniRule annotation1 Publication

Kineticsi

kcat is 7.60 min(-1) for glutaminase activity.1 Publication
  1. KM=0.99 mM for L-glutamine1 Publication

    Pathwayi: pyridoxal 5'-phosphate biosynthesis

    This protein is involved in the pathway pyridoxal 5'-phosphate biosynthesis, which is part of Cofactor biosynthesis.UniRule annotation
    View all proteins of this organism that are known to be involved in the pathway pyridoxal 5'-phosphate biosynthesis and in Cofactor biosynthesis.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Active sitei79NucleophileUniRule annotationCurated1
    Binding sitei106L-glutamineUniRule annotation1 Publication1
    Active sitei170Charge relay systemUniRule annotationCurated1
    Active sitei172Charge relay systemUniRule annotationCurated1

    GO - Molecular functioni

    GO - Biological processi

    Keywordsi

    Molecular functionHydrolase, Lyase
    LigandPyridoxal phosphate

    Enzyme and pathway databases

    BioCyciBSUB:BSU00120-MONOMER
    MetaCyc:MONOMER-15503
    BRENDAi4.3.3.6 658
    UniPathwayiUPA00245

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Pyridoxal 5'-phosphate synthase subunit PdxTUniRule annotation (EC:4.3.3.6UniRule annotation1 Publication)
    Alternative name(s):
    Pdx2UniRule annotation
    Pyridoxal 5'-phosphate synthase glutaminase subunitUniRule annotation (EC:3.5.1.2UniRule annotation1 Publication)
    Gene namesi
    Name:pdxTUniRule annotation
    Synonyms:yaaE
    Ordered Locus Names:BSU00120
    OrganismiBacillus subtilis (strain 168)
    Taxonomic identifieri224308 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    Proteomesi
    • UP000001570 Componenti: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi10Q → A: 3-fold reduction in glutaminase activity. 1 Publication1
    Mutagenesisi10Q → E: Almost no activity. 1 Publication1
    Mutagenesisi10Q → N: 10-fold reduction in glutaminase activity. 1 Publication1
    Mutagenesisi15E → A: Almost no effect on glutaminase activity. 1 Publication1
    Mutagenesisi48E → A: No activity, disturbing interaction with PdxS. 1 Publication1
    Mutagenesisi106R → A: No activity, disturbing interaction with PdxS. 1 Publication1
    Mutagenesisi135R → A: No activity, disturbing interaction with PdxS. 1 Publication1
    Mutagenesisi170H → N: No activity. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001356321 – 196Pyridoxal 5'-phosphate synthase subunit PdxTAdd BLAST196

    Proteomic databases

    PaxDbiP37528
    PRIDEiP37528

    Interactioni

    Subunit structurei

    In the presence of PdxS, forms a dodecamer of heterodimers. Only shows activity in the heterodimer.UniRule annotation1 Publication

    Binary interactionsi

    Show more details

    GO - Molecular functioni

    • identical protein binding Source: IntAct

    Protein-protein interaction databases

    DIPiDIP-57719N
    IntActiP37528, 2 interactors
    MINTiP37528
    STRINGi224308.Bsubs1_010100000060

    Structurei

    Secondary structure

    1196
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi3 – 7Combined sources5
    Beta strandi9 – 11Combined sources3
    Helixi14 – 22Combined sources9
    Beta strandi26 – 30Combined sources5
    Helixi33 – 38Combined sources6
    Beta strandi40 – 44Combined sources5
    Helixi49 – 58Combined sources10
    Helixi62 – 70Combined sources9
    Beta strandi75 – 78Combined sources4
    Helixi80 – 85Combined sources6
    Beta strandi86 – 89Combined sources4
    Beta strandi102 – 105Combined sources4
    Turni106 – 109Combined sources4
    Turni111 – 113Combined sources3
    Beta strandi114 – 120Combined sources7
    Beta strandi129 – 135Combined sources7
    Beta strandi138 – 142Combined sources5
    Beta strandi147 – 152Combined sources6
    Beta strandi155 – 161Combined sources7
    Beta strandi164 – 169Combined sources6
    Beta strandi173 – 175Combined sources3
    Helixi178 – 193Combined sources16

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1R9GX-ray2.50A/B1-196[»]
    2NV0X-ray1.73A/B1-196[»]
    2NV2X-ray2.12B/D/F/H/J/L/N/P/R/T/V/X1-196[»]
    ProteinModelPortaliP37528
    SMRiP37528
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP37528

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni47 – 49L-glutamine bindingUniRule annotation1 Publication3
    Regioni134 – 135L-glutamine bindingUniRule annotation1 Publication2

    Sequence similaritiesi

    Belongs to the glutaminase PdxT/SNO family.UniRule annotation

    Keywords - Domaini

    Glutamine amidotransferase

    Phylogenomic databases

    eggNOGiENOG4108UHX Bacteria
    COG0311 LUCA
    HOGENOMiHOG000039949
    InParanoidiP37528
    KOiK08681
    OMAiVFIRAPI
    PhylomeDBiP37528

    Family and domain databases

    CDDicd01749 GATase1_PB, 1 hit
    Gene3Di3.40.50.880, 1 hit
    HAMAPiMF_01615 PdxT, 1 hit
    InterProiView protein in InterPro
    IPR029062 Class_I_gatase-like
    IPR002161 PdxT/SNO
    IPR021196 PdxT/SNO_CS
    PANTHERiPTHR31559 PTHR31559, 1 hit
    PfamiView protein in Pfam
    PF01174 SNO, 1 hit
    PIRSFiPIRSF005639 Glut_amidoT_SNO, 1 hit
    SUPFAMiSSF52317 SSF52317, 1 hit
    TIGRFAMsiTIGR03800 PLP_synth_Pdx2, 1 hit
    PROSITEiView protein in PROSITE
    PS01236 PDXT_SNO_1, 1 hit
    PS51130 PDXT_SNO_2, 1 hit

    Sequencei

    Sequence statusi: Complete.

    P37528-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MLTIGVLGLQ GAVREHIHAI EACGAAGLVV KRPEQLNEVD GLILPGGEST
    60 70 80 90 100
    TMRRLIDTYQ FMEPLREFAA QGKPMFGTCA GLIILAKEIA GSDNPHLGLL
    110 120 130 140 150
    NVVVERNSFG RQVDSFEADL TIKGLDEPFT GVFIRAPHIL EAGENVEVLS
    160 170 180 190
    EHNGRIVAAK QGQFLGCSFH PELTEDHRVT QLFVEMVEEY KQKALV
    Length:196
    Mass (Da):21,447
    Last modified:October 1, 1994 - v1
    Checksum:i91111DEF75257882
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    D26185 Genomic DNA Translation: BAA05248.1
    AL009126 Genomic DNA Translation: CAB11788.1
    PIRiS66042
    RefSeqiNP_387893.1, NC_000964.3
    WP_003226797.1, NZ_JNCM01000024.1

    Genome annotation databases

    EnsemblBacteriaiCAB11788; CAB11788; BSU00120
    GeneIDi939971
    KEGGibsu:BSU00120
    PATRICifig|224308.179.peg.12

    Similar proteinsi

    Entry informationi

    Entry nameiPDXT_BACSU
    AccessioniPrimary (citable) accession number: P37528
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1994
    Last sequence update: October 1, 1994
    Last modified: May 23, 2018
    This is version 124 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, Direct protein sequencing, Reference proteome

    Documents

    1. Bacillus subtilis
      Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    4. SIMILARITY comments
      Index of protein domains and families
    5. Uncharacterized protein families (UPF)
      List of uncharacterized protein family (UPF) entries

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