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Protein

Pyridoxal kinase PdxY

Gene

pdxY

Organism
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP.UniRule annotation

Catalytic activityi

ATP + pyridoxal = ADP + pyridoxal 5'-phosphate.UniRule annotation

Cofactori

Mg2+UniRule annotation

Pathwayi: pyridoxal 5'-phosphate salvage

This protein is involved in step 1 of the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxal.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Pyridoxal kinase PdxY (pdxY)
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 pyridoxal, the pathway pyridoxal 5'-phosphate salvage and in Cofactor metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei17 – 171SubstrateUniRule annotation
Binding sitei119 – 1191ATPUniRule annotation
Binding sitei156 – 1561ATPUniRule annotation
Binding sitei234 – 2341SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Ligandi

ATP-binding, Magnesium, Nucleotide-binding

Enzyme and pathway databases

BioCyciDRAD243230:GH46-2875-MONOMER.
UniPathwayiUPA01068; UER00298.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyridoxal kinase PdxYUniRule annotation (EC:2.7.1.35UniRule annotation)
Short name:
PL kinaseUniRule annotation
Gene namesi
Name:pdxYUniRule annotation
Ordered Locus Names:DR_A0184
OrganismiDeinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Taxonomic identifieri243230 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
Proteomesi
  • UP000002524 Componenti: Chromosome II

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 298298Pyridoxal kinase PdxYPRO_0000269805Add
BLAST

Proteomic databases

PRIDEiQ9RYX0.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi243230.DR_A0184.

Structurei

3D structure databases

ProteinModelPortaliQ9RYX0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the pyridoxine kinase family. PdxY subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4107XGF. Bacteria.
COG2240. LUCA.
HOGENOMiHOG000258173.
InParanoidiQ9RYX0.
KOiK00868.
OMAiVFSNTPH.
OrthoDBiEOG69PQ1X.

Family and domain databases

Gene3Di3.40.1190.20. 1 hit.
HAMAPiMF_01639. PdxY.
InterProiIPR013749. PM/HMP-P_kinase-1.
IPR004625. PyrdxlKinase.
IPR023685. Pyridoxal_kinase_PdxY.
IPR029056. Ribokinase-like.
[Graphical view]
PANTHERiPTHR10534. PTHR10534. 1 hit.
PfamiPF08543. Phos_pyr_kin. 1 hit.
[Graphical view]
SUPFAMiSSF53613. SSF53613. 1 hit.
TIGRFAMsiTIGR00687. pyridox_kin. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9RYX0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDSVTPTLPR NILSIQSWVS YGHVGNAAAI FPLQRLGFEV WGVHTVQFSN
60 70 80 90 100
HTGYGAWTGP VFEPGVIAEL LDGIEARGVL PQCDGVLSGY VGSGGTVAAV
110 120 130 140 150
VGAVGRVRQA HPQALYCCDP VMGDVGRGVF VHPDLPALIA AQAIPAADIV
160 170 180 190 200
TPNQFELELL TGQKVETLAD ALAAAHALRE RLNPAGPRIV LLTSLVRADA
210 220 230 240 250
PASSIETLAV TGEGSWLCRT PLLPLDPPRN GTGDAIAALF YGQFLRTGSA
260 270 280 290
EQALTLSMSA LYALLDLTHR LGTREIQLVA AQGEFERPRH LFAAERVE
Length:298
Mass (Da):31,540
Last modified:January 9, 2007 - v2
Checksum:i8C72ED98C98A4649
GO

Sequence cautioni

The sequence AAF12189.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001825 Genomic DNA. Translation: AAF12189.1. Different initiation.
PIRiB75615.
RefSeqiNP_285508.1. NC_001264.1.

Genome annotation databases

EnsemblBacteriaiAAF12189; AAF12189; DR_A0184.
GeneIDi1798074.
KEGGidra:DR_A0184.
PATRICi21633408. VBIDeiRad64572_3073.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001825 Genomic DNA. Translation: AAF12189.1. Different initiation.
PIRiB75615.
RefSeqiNP_285508.1. NC_001264.1.

3D structure databases

ProteinModelPortaliQ9RYX0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243230.DR_A0184.

Proteomic databases

PRIDEiQ9RYX0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAF12189; AAF12189; DR_A0184.
GeneIDi1798074.
KEGGidra:DR_A0184.
PATRICi21633408. VBIDeiRad64572_3073.

Phylogenomic databases

eggNOGiENOG4107XGF. Bacteria.
COG2240. LUCA.
HOGENOMiHOG000258173.
InParanoidiQ9RYX0.
KOiK00868.
OMAiVFSNTPH.
OrthoDBiEOG69PQ1X.

Enzyme and pathway databases

UniPathwayiUPA01068; UER00298.
BioCyciDRAD243230:GH46-2875-MONOMER.

Family and domain databases

Gene3Di3.40.1190.20. 1 hit.
HAMAPiMF_01639. PdxY.
InterProiIPR013749. PM/HMP-P_kinase-1.
IPR004625. PyrdxlKinase.
IPR023685. Pyridoxal_kinase_PdxY.
IPR029056. Ribokinase-like.
[Graphical view]
PANTHERiPTHR10534. PTHR10534. 1 hit.
PfamiPF08543. Phos_pyr_kin. 1 hit.
[Graphical view]
SUPFAMiSSF53613. SSF53613. 1 hit.
TIGRFAMsiTIGR00687. pyridox_kin. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.

Entry informationi

Entry nameiPDXY_DEIRA
AccessioniPrimary (citable) accession number: Q9RYX0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 9, 2007
Last sequence update: January 9, 2007
Last modified: May 11, 2016
This is version 93 of the entry and version 2 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.