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Protein

Pyridoxine-5'-phosphate oxidase

Gene

pnpo

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

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

Catalytic activityi

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

Cofactori

FMNBy similarityNote: Binds 1 FMN per subunit.By similarity

Pathwayi: pyridoxal 5'-phosphate salvage

This protein is involved in step 1 of the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxamine 5'-phosphate.
Proteins known to be involved in this subpathway in this organism are:
  1. Pyridoxine-5'-phosphate oxidase (pnpo)
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.
Proteins known to be involved in this subpathway in this organism are:
  1. Pyridoxine-5'-phosphate oxidase (pnpo)
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 sitei80Pyridoxal 5'-phosphateBy similarity1
Binding sitei117FMNBy similarity1
Binding sitei135Pyridoxal 5'-phosphateBy similarity1
Binding sitei139Pyridoxal 5'-phosphateBy similarity1
Binding sitei143Pyridoxal 5'-phosphateBy similarity1
Binding sitei197FMNBy similarity1
Binding sitei207FMNBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi75 – 78FMNBy similarity4
Nucleotide bindingi90 – 91FMNBy similarity2
Nucleotide bindingi96 – 97FMNBy similarity2
Nucleotide bindingi152 – 153FMNBy similarity2

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Pyridoxine biosynthesis

Keywords - Ligandi

Flavoprotein, FMN, Pyridoxal phosphate

Enzyme and pathway databases

ReactomeiR-DDI-964975. Vitamins B6 activation to pyridoxal phosphate.
UniPathwayiUPA01068; UER00304.
UPA01068; UER00305.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyridoxine-5'-phosphate oxidase (EC:1.4.3.5)
Alternative name(s):
Pyridoxamine-phosphate oxidase
Gene namesi
Name:pnpo
ORF Names:DDB_G0278107
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 3, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0278107.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003311201 – 227Pyridoxine-5'-phosphate oxidaseAdd BLAST227

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ54YS6.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi44689.DDB0231657.

Structurei

3D structure databases

ProteinModelPortaliQ54YS6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni20 – 23Pyridoxal 5'-phosphate bindingBy similarity4
Regioni203 – 205Pyridoxal 5'-phosphate bindingBy similarity3

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG2586. Eukaryota.
COG0259. LUCA.
InParanoidiQ54YS6.
KOiK00275.
OMAiQKKAAMC.
PhylomeDBiQ54YS6.

Family and domain databases

Gene3Di2.30.110.10. 1 hit.
HAMAPiMF_01629. PdxH. 1 hit.
InterProiIPR000659. Pyridox_Oxase.
IPR019740. Pyridox_Oxase_CS.
IPR011576. Pyridox_Oxase_FMN-bd.
IPR019576. Pyridoxamine_oxidase_dimer_C.
IPR012349. Split_barrel_FMN-bd.
[Graphical view]
PANTHERiPTHR10851:SF0. PTHR10851:SF0. 1 hit.
PfamiPF10590. PNPOx_C. 1 hit.
PF01243. Pyridox_oxidase. 1 hit.
[Graphical view]
PIRSFiPIRSF000190. Pyd_amn-ph_oxd. 1 hit.
SUPFAMiSSF50475. SSF50475. 1 hit.
TIGRFAMsiTIGR00558. pdxH. 1 hit.
PROSITEiPS01064. PYRIDOX_OXIDASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q54YS6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSINLDNEEL KNEDLVANMR KDYRMGELKE EGLLESPFKM FDMWLTQEIE
60 70 80 90 100
LKNEGAEPNA FTLATCSIER KPSARVVLLK HFDHQGFVFY TNYNSRKSKE
110 120 130 140 150
LSENPFASMT FLWTQKQVRI EGSVEKVDRL ESEKYFKSRP RSSQIGAWVS
160 170 180 190 200
EFQSSEVTKQ HLEEKTIEME NKFKDQEVPL PPFWGGWRIK PYAFEFWQGK
210 220
SGRIHDRFKY VPTDSNNDNW ITKRLSP
Length:227
Mass (Da):26,850
Last modified:May 24, 2005 - v1
Checksum:i3EBA15FAEED2A3FE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000023 Genomic DNA. Translation: EAL68226.1.
RefSeqiXP_642126.1. XM_637034.1.

Genome annotation databases

EnsemblProtistsiEAL68226; EAL68226; DDB_G0278107.
GeneIDi8621335.
KEGGiddi:DDB_G0278107.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000023 Genomic DNA. Translation: EAL68226.1.
RefSeqiXP_642126.1. XM_637034.1.

3D structure databases

ProteinModelPortaliQ54YS6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi44689.DDB0231657.

Proteomic databases

PaxDbiQ54YS6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsiEAL68226; EAL68226; DDB_G0278107.
GeneIDi8621335.
KEGGiddi:DDB_G0278107.

Organism-specific databases

dictyBaseiDDB_G0278107.

Phylogenomic databases

eggNOGiKOG2586. Eukaryota.
COG0259. LUCA.
InParanoidiQ54YS6.
KOiK00275.
OMAiQKKAAMC.
PhylomeDBiQ54YS6.

Enzyme and pathway databases

UniPathwayiUPA01068; UER00304.
UPA01068; UER00305.
ReactomeiR-DDI-964975. Vitamins B6 activation to pyridoxal phosphate.

Miscellaneous databases

PROiQ54YS6.

Family and domain databases

Gene3Di2.30.110.10. 1 hit.
HAMAPiMF_01629. PdxH. 1 hit.
InterProiIPR000659. Pyridox_Oxase.
IPR019740. Pyridox_Oxase_CS.
IPR011576. Pyridox_Oxase_FMN-bd.
IPR019576. Pyridoxamine_oxidase_dimer_C.
IPR012349. Split_barrel_FMN-bd.
[Graphical view]
PANTHERiPTHR10851:SF0. PTHR10851:SF0. 1 hit.
PfamiPF10590. PNPOx_C. 1 hit.
PF01243. Pyridox_oxidase. 1 hit.
[Graphical view]
PIRSFiPIRSF000190. Pyd_amn-ph_oxd. 1 hit.
SUPFAMiSSF50475. SSF50475. 1 hit.
TIGRFAMsiTIGR00558. pdxH. 1 hit.
PROSITEiPS01064. PYRIDOX_OXIDASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPNPO_DICDI
AccessioniPrimary (citable) accession number: Q54YS6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: May 24, 2005
Last modified: November 2, 2016
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.