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Protein

Pyridoxal kinase PdxY

Gene

pdxY

Organism
Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)
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 sitei8 – 81SubstrateUniRule annotation
Binding sitei110 – 1101ATPUniRule annotation
Binding sitei147 – 1471ATPUniRule annotation
Binding sitei219 – 2191SubstrateUniRule 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

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:DIP1715
OrganismiCorynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)
Taxonomic identifieri257309 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesCorynebacteriaceaeCorynebacterium
Proteomesi
  • UP000002198 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 283283Pyridoxal kinase PdxYPRO_0000269803Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliQ6NG19.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000258173.
KOiK00868.
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.

Q6NG19-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNILSIQSHV SYGHVGNSAA VFPLQRIGHE VWPVHTVNFS NHTGYGQWGG
60 70 80 90 100
ELIPAAQVRN VIDGMEQRGA FERIDAILSG YQGGSDIADV IVDAVARIKE
110 120 130 140 150
ANPQAVYACD PVMGNAKSGC FVSDLIPPLL RDKVVPVADI ITPNQFELEY
160 170 180 190 200
LTGVPAHDTT STLEAIAAAQ EMGPNTVLVT SVRRPETPAD AIEMIAANEQ
210 220 230 240 250
GAWLVRTPFI DFKRNGSGDV TAALFTGHYI RERDAADALA RTASSVFDLI
260 270 280
ETTFTADSRE LLIIESQEAI AHPRLQFEVE QIA
Length:283
Mass (Da):30,636
Last modified:January 9, 2007 - v2
Checksum:i5AD180CB62C0AD5F
GO

Sequence cautioni

The sequence CAE50244.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX248359 Genomic DNA. Translation: CAE50244.1. Different initiation.
RefSeqiWP_041627951.1. NC_002935.2.

Genome annotation databases

EnsemblBacteriaiCAE50244; CAE50244; DIP1715.
GeneIDi2650308.
KEGGicdi:DIP1715.
PATRICi21484650. VBICorDip47633_1698.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX248359 Genomic DNA. Translation: CAE50244.1. Different initiation.
RefSeqiWP_041627951.1. NC_002935.2.

3D structure databases

ProteinModelPortaliQ6NG19.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAE50244; CAE50244; DIP1715.
GeneIDi2650308.
KEGGicdi:DIP1715.
PATRICi21484650. VBICorDip47633_1698.

Phylogenomic databases

HOGENOMiHOG000258173.
KOiK00868.
OrthoDBiEOG69PQ1X.

Enzyme and pathway databases

UniPathwayiUPA01068; UER00298.

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 700971 / NCTC 13129 / Biotype gravis.

Entry informationi

Entry nameiPDXY_CORDI
AccessioniPrimary (citable) accession number: Q6NG19
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 9, 2007
Last sequence update: January 9, 2007
Last modified: May 11, 2016
This is version 73 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.