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UniProtKB - P77150 (PDXY_ECOLI)
Protein
Pyridoxal kinase PdxY
Gene
pdxY
Organism
Escherichia coli (strain K12)
Status
Functioni
Pyridoxal kinase involved in the salvage pathway of pyridoxal 5'-phosphate (PLP). Catalyzes the phosphorylation of pyridoxal to PLP in vivo, but shows very low activity compared to PdxK. Displays a low level of pyridoxine kinase activity when overexpressed, which is however not physiologically relevant.
2 PublicationsCatalytic activityi
- EC:2.7.1.352 Publications
Cofactori
Mg2+UniRule annotation
: pyridoxal 5'-phosphate salvage Pathwayi
This protein is involved in step 1 of the subpathway that synthesizes pyridoxal 5'-phosphate from pyridoxal.1 Publication 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 key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 10 | Substrate1 Publication | 1 | |
Binding sitei | 112 | ATPBy similarity | 1 | |
Binding sitei | 144 | ATP; via carbonyl oxygenBy similarity | 1 | |
Binding sitei | 149 | ATPBy similarity | 1 | |
Binding sitei | 182 | ATPBy similarity | 1 | |
Binding sitei | 224 | Substrate1 Publication | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 209 – 212 | ATPBy similarity | 4 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-UniRule
- identical protein binding Source: EcoCyc
- magnesium ion binding Source: UniProtKB-UniRule
- pyridoxal kinase activity Source: EcoCyc
GO - Biological processi
- pyridoxal 5'-phosphate salvage Source: EcoliWiki
- pyridoxal metabolic process Source: EcoliWiki
- vitamin B6 biosynthetic process Source: EcoliWiki
Keywordsi
Molecular function | Kinase, Transferase |
Ligand | ATP-binding, Magnesium, Nucleotide-binding |
Enzyme and pathway databases
BioCyci | EcoCyc:PDXY-MONOMER |
UniPathwayi | UPA01068;UER00298 |
Names & Taxonomyi
Protein namesi | Recommended name: Pyridoxal kinase PdxY1 Publication (EC:2.7.1.352 Publications)Short name: PL kinase1 Publication Alternative name(s): Pyridoxal kinase 21 Publication Short name: PL kinase 21 Publication |
Gene namesi | Name:pdxY1 Publication Synonyms:ydgS Ordered Locus Names:b1636, JW1628 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Pathology & Biotechi
Disruption phenotypei
Cells lacking this gene and cells lacking both pdxY and pdxK are not auxotrophs, meaning that the de novo pathway of PLP biosynthesis is functional. For PLP salvage, the pdxY single mutant can use both pyridoxine and pyridoxal, the pdxK single mutant can use pyridoxal but not pyridoxine, and the double mutant can no longer use both compounds.1 Publication
Chemistry databases
DrugBanki | DB02153, 3-sulfino-L-alanine |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000213345 | 1 – 287 | Pyridoxal kinase PdxYAdd BLAST | 287 |
Proteomic databases
jPOSTi | P77150 |
PaxDbi | P77150 |
PRIDEi | P77150 |
Interactioni
Subunit structurei
Homodimer.
1 PublicationGO - Molecular functioni
- identical protein binding Source: EcoCyc
Protein-protein interaction databases
BioGRIDi | 4263486, 7 interactors |
IntActi | P77150, 2 interactors |
STRINGi | 511145.b1636 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
AlphaFoldDBi | P77150 |
SMRi | P77150 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P77150 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 45 – 46 | Substrate binding1 Publication | 2 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG2240, Bacteria |
HOGENOMi | CLU_046496_3_0_6 |
InParanoidi | P77150 |
OMAi | CPNQLEL |
PhylomeDBi | P77150 |
Family and domain databases
CDDi | cd01173, pyridoxal_pyridoxamine_kinase, 1 hit |
Gene3Di | 3.40.1190.20, 1 hit |
HAMAPi | MF_01639, PdxY, 1 hit |
InterProi | View protein in InterPro IPR013749, PM/HMP-P_kinase-1 IPR004625, PyrdxlKinase IPR023685, Pyridoxal_kinase_PdxY IPR029056, Ribokinase-like |
PANTHERi | PTHR10534, PTHR10534, 1 hit |
Pfami | View protein in Pfam PF08543, Phos_pyr_kin, 1 hit |
SUPFAMi | SSF53613, SSF53613, 1 hit |
TIGRFAMsi | TIGR00687, pyridox_kin, 1 hit |
i Sequence
Sequence statusi: Complete.
P77150-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MMKNILAIQS HVVYGHAGNS AAEFPMRRLG ANVWPLNTVQ FSNHTQYGKW
60 70 80 90 100
TGCVMPPSHL TEIVQGIAAI DKLHTCDAVL SGYLGSAEQG EHILGIVRQV
110 120 130 140 150
KAANPQAKYF CDPVMGHPEK GCIVAPGVAE FHVRHGLPAS DIIAPNLVEL
160 170 180 190 200
EILCEHAVNN VEEAVLAARE LIAQGPQIVL VKHLARAGYS RDRFEMLLVT
210 220 230 240 250
ADEAWHISRP LVDFGMRQPV GVGDVTSGLL LVKLLQGATL QEALEHVTAA
260 270 280
VYEIMVTTKA MQEYELQVVA AQDRIAKPEH YFSATKL
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00096 Genomic DNA Translation: AAC74708.1 AP009048 Genomic DNA Translation: BAA15397.1 |
PIRi | F64920 |
RefSeqi | NP_416153.1, NC_000913.3 WP_001307229.1, NZ_SSTT01000001.1 |
Genome annotation databases
EnsemblBacteriai | AAC74708; AAC74708; b1636 BAA15397; BAA15397; BAA15397 |
GeneIDi | 66674472 946162 |
KEGGi | ecj:JW1628 eco:b1636 |
PATRICi | fig|511145.12.peg.1707 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00096 Genomic DNA Translation: AAC74708.1 AP009048 Genomic DNA Translation: BAA15397.1 |
PIRi | F64920 |
RefSeqi | NP_416153.1, NC_000913.3 WP_001307229.1, NZ_SSTT01000001.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1TD2 | X-ray | 2.22 | A/B | 1-287 | [»] | |
1VI9 | X-ray | 1.96 | A/B/C/D | 2-287 | [»] | |
AlphaFoldDBi | P77150 | |||||
SMRi | P77150 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4263486, 7 interactors |
IntActi | P77150, 2 interactors |
STRINGi | 511145.b1636 |
Chemistry databases
DrugBanki | DB02153, 3-sulfino-L-alanine |
Proteomic databases
jPOSTi | P77150 |
PaxDbi | P77150 |
PRIDEi | P77150 |
Genome annotation databases
EnsemblBacteriai | AAC74708; AAC74708; b1636 BAA15397; BAA15397; BAA15397 |
GeneIDi | 66674472 946162 |
KEGGi | ecj:JW1628 eco:b1636 |
PATRICi | fig|511145.12.peg.1707 |
Organism-specific databases
EchoBASEi | EB3699 |
Phylogenomic databases
eggNOGi | COG2240, Bacteria |
HOGENOMi | CLU_046496_3_0_6 |
InParanoidi | P77150 |
OMAi | CPNQLEL |
PhylomeDBi | P77150 |
Enzyme and pathway databases
UniPathwayi | UPA01068;UER00298 |
BioCyci | EcoCyc:PDXY-MONOMER |
Miscellaneous databases
EvolutionaryTracei | P77150 |
PROi | PR:P77150 |
Family and domain databases
CDDi | cd01173, pyridoxal_pyridoxamine_kinase, 1 hit |
Gene3Di | 3.40.1190.20, 1 hit |
HAMAPi | MF_01639, PdxY, 1 hit |
InterProi | View protein in InterPro IPR013749, PM/HMP-P_kinase-1 IPR004625, PyrdxlKinase IPR023685, Pyridoxal_kinase_PdxY IPR029056, Ribokinase-like |
PANTHERi | PTHR10534, PTHR10534, 1 hit |
Pfami | View protein in Pfam PF08543, Phos_pyr_kin, 1 hit |
SUPFAMi | SSF53613, SSF53613, 1 hit |
TIGRFAMsi | TIGR00687, pyridox_kin, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | PDXY_ECOLI | |
Accessioni | P77150Primary (citable) accession number: P77150 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 1, 1997 |
Last sequence update: | January 15, 2008 | |
Last modified: | May 25, 2022 | |
This is version 161 of the entry and version 3 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PATHWAY comments
Index of metabolic and biosynthesis pathways - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families