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Protein

Pyridoxine/pyridoxamine 5'-phosphate oxidase 2

Gene

pdxH2

Organism
Hydrogenovibrio crunogenus (strain XCL-2) (Thiomicrospira crunogena)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the oxidation of either pyridoxine 5'-phosphate (PNP) or pyridoxamine 5'-phosphate (PMP) into pyridoxal 5'-phosphate (PLP).UniRule annotation

Catalytic activityi

Pyridoxamine 5'-phosphate + H2O + O2 = pyridoxal 5'-phosphate + NH3 + H2O2.UniRule annotation
Pyridoxine 5'-phosphate + O2 = pyridoxal 5'-phosphate + H2O2.UniRule annotation

Cofactori

FMNUniRule annotationNote: Binds 1 FMN per subunit.UniRule annotation

Pathwayi: pyridoxal 5'-phosphate salvage

This protein is involved in step 1 of the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxamine 5'-phosphate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Pyridoxine/pyridoxamine 5'-phosphate oxidase 1 (pdxH1), Pyridoxine/pyridoxamine 5'-phosphate oxidase 2 (pdxH2)
This subpathway is part of the pathway pyridoxal 5'-phosphate salvage, which is itself part of Cofactor metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxamine 5'-phosphate, the pathway pyridoxal 5'-phosphate salvage and in Cofactor metabolism.

Pathwayi: pyridoxal 5'-phosphate salvage

This protein is involved in step 1 of the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxine 5'-phosphate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Pyridoxine/pyridoxamine 5'-phosphate oxidase 1 (pdxH1), Pyridoxine/pyridoxamine 5'-phosphate oxidase 2 (pdxH2)
This subpathway is part of the pathway pyridoxal 5'-phosphate salvage, which is itself part of Cofactor metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxine 5'-phosphate, the pathway pyridoxal 5'-phosphate salvage and in Cofactor metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei67SubstrateUniRule annotation1
Binding sitei84FMNUniRule annotation1
Binding sitei106FMNUniRule annotation1
Binding sitei124SubstrateUniRule annotation1
Binding sitei128SubstrateUniRule annotation1
Binding sitei132SubstrateUniRule annotation1
Binding sitei186FMNUniRule annotation1
Binding sitei196FMNUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi62 – 67FMNUniRule annotation6
Nucleotide bindingi77 – 78FMNUniRule annotation2
Nucleotide bindingi141 – 142FMNUniRule annotation2

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processPyridoxine biosynthesis
LigandFlavoprotein, FMN

Enzyme and pathway databases

UniPathwayiUPA01068; UER00304
UPA01068; UER00305

Names & Taxonomyi

Protein namesi
Recommended name:
Pyridoxine/pyridoxamine 5'-phosphate oxidase 2UniRule annotation (EC:1.4.3.5UniRule annotation)
Alternative name(s):
PNP/PMP oxidase 2UniRule annotation
Short name:
PNPOx 2UniRule annotation
Pyridoxal 5'-phosphate synthase 2UniRule annotation
Gene namesi
Name:pdxH2UniRule annotation
Ordered Locus Names:Tcr_1992
OrganismiHydrogenovibrio crunogenus (strain XCL-2) (Thiomicrospira crunogena)
Taxonomic identifieri317025 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaThiotrichalesPiscirickettsiaceaeHydrogenovibrio
Proteomesi
  • UP000002713 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002558951 – 213Pyridoxine/pyridoxamine 5'-phosphate oxidase 2Add BLAST213

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi317025.Tcr_1992

Structurei

3D structure databases

ProteinModelPortaliQ31E41
SMRiQ31E41
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni9 – 12Substrate bindingUniRule annotation4
Regioni192 – 194Substrate bindingUniRule annotation3

Sequence similaritiesi

Belongs to the pyridoxamine 5'-phosphate oxidase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108S7T Bacteria
COG0259 LUCA
HOGENOMiHOG000242755
KOiK00275
OrthoDBiPOG091H054N

Family and domain databases

Gene3Di2.30.110.10, 1 hit
HAMAPiMF_01629 PdxH, 1 hit
InterProiView protein in InterPro
IPR000659 Pyridox_Oxase
IPR019740 Pyridox_Oxase_CS
IPR011576 Pyridox_Oxase_put
IPR019576 Pyridoxamine_oxidase_dimer_C
IPR012349 Split_barrel_FMN-bd
PANTHERiPTHR10851:SF0 PTHR10851:SF0, 1 hit
PfamiView protein in Pfam
PF10590 PNP_phzG_C, 1 hit
PF01243 Putative_PNPOx, 1 hit
PIRSFiPIRSF000190 Pyd_amn-ph_oxd, 1 hit
TIGRFAMsiTIGR00558 pdxH, 1 hit
PROSITEiView protein in PROSITE
PS01064 PYRIDOX_OXIDASE, 1 hit

Sequencei

Sequence statusi: Complete.

Q31E41-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTLNLADLRQ RYLKDGLDEN NTDDNPFVQF EKWFHQAQKS ELLEPNAMVL
60 70 80 90 100
STVNEVNQPS TRTVLLKQFS DDGFVFFTNY RSQKAKDIQH NPKVALHFNW
110 120 130 140 150
LELERQVKIQ GVAAKISLKD SMRYFATRPK GSQIGAWVSH QSEVISSKQL
160 170 180 190 200
LLSQFEKMKQ KFQSGEIPFP DFWGGYMVVP QQIEFWQGGD NRLHDRICYT
210
LKDNQWVKQR LAP
Length:213
Mass (Da):24,913
Last modified:December 6, 2005 - v1
Checksum:i773253FD016759B0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000109 Genomic DNA Translation: ABB42582.1

Genome annotation databases

EnsemblBacteriaiABB42582; ABB42582; Tcr_1992
KEGGitcx:Tcr_1992

Similar proteinsi

Entry informationi

Entry nameiPDXH2_HYDCU
AccessioniPrimary (citable) accession number: Q31E41
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 31, 2006
Last sequence update: December 6, 2005
Last modified: March 28, 2018
This is version 83 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

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health