Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Pyridoxine 5'-phosphate synthase

Gene

pdxJ

Organism
Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate.UniRule annotation

Catalytic activityi

1-deoxy-D-xylulose 5-phosphate + 3-amino-2-oxopropyl phosphate = pyridoxine 5'-phosphate + phosphate + 2 H2O.UniRule annotation

Pathwayi: pyridoxine 5'-phosphate biosynthesis

This protein is involved in step 5 of the subpathway that synthesizes pyridoxine 5'-phosphate from D-erythrose 4-phosphate.UniRule annotation
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. D-erythrose-4-phosphate dehydrogenase (epd)
  2. Erythronate-4-phosphate dehydrogenase (pdxB)
  3. Phosphoserine aminotransferase (serC)
  4. 4-hydroxythreonine-4-phosphate dehydrogenase (pdxA)
  5. Pyridoxine 5'-phosphate synthase (pdxJ)
This subpathway is part of the pathway pyridoxine 5'-phosphate 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 pyridoxine 5'-phosphate from D-erythrose 4-phosphate, the pathway pyridoxine 5'-phosphate biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei12 – 1213-amino-2-oxopropyl phosphateUniRule annotation
Binding sitei23 – 2313-amino-2-oxopropyl phosphateUniRule annotation
Active sitei48 – 481Proton acceptorUniRule annotation
Binding sitei50 – 5011-deoxy-D-xylulose 5-phosphateUniRule annotation
Binding sitei55 – 5511-deoxy-D-xylulose 5-phosphateUniRule annotation
Active sitei75 – 751Proton acceptorUniRule annotation
Binding sitei105 – 10511-deoxy-D-xylulose 5-phosphateUniRule annotation
Sitei156 – 1561Transition state stabilizerUniRule annotation
Active sitei196 – 1961Proton donorUniRule annotation
Binding sitei197 – 19713-amino-2-oxopropyl phosphate; via amide nitrogenUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Pyridoxine biosynthesis

Enzyme and pathway databases

BioCyciPFLU220664:GIX8-1077-MONOMER.
UniPathwayiUPA00244; UER00313.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyridoxine 5'-phosphate synthaseUniRule annotation (EC:2.6.99.2UniRule annotation)
Short name:
PNP synthaseUniRule annotation
Gene namesi
Name:pdxJUniRule annotation
Ordered Locus Names:PFL_1074
OrganismiPseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
Taxonomic identifieri220664 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
Proteomesi
  • UP000008540 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 248248Pyridoxine 5'-phosphate synthasePRO_0000231834Add
BLAST

Interactioni

Subunit structurei

Homooctamer; tetramer of dimers.UniRule annotation

Protein-protein interaction databases

STRINGi220664.PFL_1074.

Structurei

3D structure databases

ProteinModelPortaliQ4KHS8.
SMRiQ4KHS8. Positions 7-244.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni14 – 1521-deoxy-D-xylulose 5-phosphate bindingUniRule annotation
Regioni218 – 21923-amino-2-oxopropyl phosphate bindingUniRule annotation

Sequence similaritiesi

Belongs to the PNP synthase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CSZ. Bacteria.
COG0854. LUCA.
HOGENOMiHOG000258094.
KOiK03474.
OMAiERHIRYQ.
OrthoDBiPOG091H03D1.

Family and domain databases

CDDicd00003. PNPsynthase. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00279. PdxJ. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR004569. PyrdxlP_synth_PdxJ.
[Graphical view]
PfamiPF03740. PdxJ. 1 hit.
[Graphical view]
SUPFAMiSSF63892. SSF63892. 1 hit.
TIGRFAMsiTIGR00559. pdxJ. 1 hit.

Sequencei

Sequence statusi: Complete.

Q4KHS8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTTSNRILLG VNIDHVATLR QARGTRYPDP VKAALDAEEA GADGITVHLR
60 70 80 90 100
EDRRHIQERD VLLLKDVLQT RMNFEMGVTE EMMAFAERIR PAHICLVPET
110 120 130 140 150
RQELTTEGGL DVAGQEARIK AAVERLSKIG SEVSLFIDAD ERQIEASKRV
160 170 180 190 200
GAPAIELHTG RYADAQTPSE VAEELQRIVD GVAVGLAQGL IVNAGHGLHY
210 220 230 240
HNVEAVAAIK GINELNIGHA LVAHALFVGF KGAVAEMKAL ILAAAAKA
Length:248
Mass (Da):26,754
Last modified:August 2, 2005 - v1
Checksum:iAE36D542036C2903
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000076 Genomic DNA. Translation: AAY90361.1.
RefSeqiWP_011059424.1. NC_004129.6.

Genome annotation databases

EnsemblBacteriaiAAY90361; AAY90361; PFL_1074.
GeneIDi3477485.
KEGGipfl:PFL_1074.
PATRICi19871347. VBIPseFlu72549_1102.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000076 Genomic DNA. Translation: AAY90361.1.
RefSeqiWP_011059424.1. NC_004129.6.

3D structure databases

ProteinModelPortaliQ4KHS8.
SMRiQ4KHS8. Positions 7-244.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi220664.PFL_1074.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAY90361; AAY90361; PFL_1074.
GeneIDi3477485.
KEGGipfl:PFL_1074.
PATRICi19871347. VBIPseFlu72549_1102.

Phylogenomic databases

eggNOGiENOG4105CSZ. Bacteria.
COG0854. LUCA.
HOGENOMiHOG000258094.
KOiK03474.
OMAiERHIRYQ.
OrthoDBiPOG091H03D1.

Enzyme and pathway databases

UniPathwayiUPA00244; UER00313.
BioCyciPFLU220664:GIX8-1077-MONOMER.

Family and domain databases

CDDicd00003. PNPsynthase. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00279. PdxJ. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR004569. PyrdxlP_synth_PdxJ.
[Graphical view]
PfamiPF03740. PdxJ. 1 hit.
[Graphical view]
SUPFAMiSSF63892. SSF63892. 1 hit.
TIGRFAMsiTIGR00559. pdxJ. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiPDXJ_PSEF5
AccessioniPrimary (citable) accession number: Q4KHS8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 4, 2006
Last sequence update: August 2, 2005
Last modified: September 7, 2016
This is version 68 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

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.