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

Pyridoxal kinase

Gene

PDXK

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Required for synthesis of pyridoxal-5-phosphate from vitamin B6.

Catalytic activityi

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

Cofactori

Zn2+, Mg2+Note: Divalent metal cations. Zn2+ is more efficient than Mg2+.

pH dependencei

Optimum pH is 5.5-6.0.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei12SubstrateBy similarity1
Binding sitei47SubstrateBy similarity1
Binding sitei127SubstrateBy similarity1
Binding sitei235SubstrateBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi186 – 187ATPBy similarity2
Nucleotide bindingi223 – 234ATPBy similarityAdd BLAST12

GO - Molecular functioni

  • ATP binding Source: UniProtKB
  • lithium ion binding Source: UniProtKB
  • magnesium ion binding Source: UniProtKB
  • potassium ion binding Source: UniProtKB
  • protein homodimerization activity Source: UniProtKB
  • pyridoxal kinase activity Source: UniProtKB
  • pyridoxal phosphate binding Source: UniProtKB
  • sodium ion binding Source: UniProtKB
  • zinc ion binding Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionKinase, Transferase
LigandATP-binding, Metal-binding, Nucleotide-binding, Zinc

Enzyme and pathway databases

BioCyciMetaCyc:HS08466-MONOMER
BRENDAi2.7.1.35 2681
ReactomeiR-HSA-6798695 Neutrophil degranulation
R-HSA-964975 Vitamins B6 activation to pyridoxal phosphate
SABIO-RKiO00764

Names & Taxonomyi

Protein namesi
Recommended name:
Pyridoxal kinase (EC:2.7.1.35)
Alternative name(s):
Pyridoxine kinase
Gene namesi
Name:PDXK
Synonyms:C21orf124, C21orf97, PKH, PNK
ORF Names:PRED79
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi

Organism-specific databases

EuPathDBiHostDB:ENSG00000160209.18
HGNCiHGNC:8819 PDXK
MIMi179020 gene
neXtProtiNX_O00764

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Organism-specific databases

DisGeNETi8566
OpenTargetsiENSG00000160209
PharmGKBiPA33162

Chemistry databases

ChEMBLiCHEMBL1075181
DrugBankiDB04776 (2R)-2-({6-[benzyl(methyl)amino]-9-isopropyl-9H-purin-2-yl}amino)butan-1-ol
DB00147 Pyridoxal
DB00165 Pyridoxine

Polymorphism and mutation databases

BioMutaiPDXK

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002133351 – 312Pyridoxal kinaseAdd BLAST312

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineBy similarity1
Modified residuei59PhosphoserineCombined sources1
Modified residuei164PhosphoserineCombined sources1
Modified residuei213PhosphoserineCombined sources1
Modified residuei285PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiO00764
PaxDbiO00764
PeptideAtlasiO00764
PRIDEiO00764

2D gel databases

REPRODUCTION-2DPAGEiIPI00013004
O00764

PTM databases

iPTMnetiO00764
PhosphoSitePlusiO00764

Expressioni

Tissue specificityi

Ubiquitous. Isoform 3 is detected in adult testis and spermatozoa.

Gene expression databases

BgeeiENSG00000160209
CleanExiHS_PDXK
ExpressionAtlasiO00764 baseline and differential
GenevisibleiO00764 HS

Organism-specific databases

HPAiCAB033918
HPA030196
HPA030197
HPA030198

Interactioni

Subunit structurei

Homodimer.Curated

GO - Molecular functioni

  • protein homodimerization activity Source: UniProtKB

Protein-protein interaction databases

BioGridi114135, 24 interactors
CORUMiO00764
IntActiO00764, 5 interactors
MINTiO00764
STRINGi9606.ENSP00000291565

Chemistry databases

BindingDBiO00764

Structurei

Secondary structure

1312
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi6 – 17Combined sources12
Helixi21 – 30Combined sources10
Beta strandi34 – 45Combined sources12
Beta strandi54 – 56Combined sources3
Helixi59 – 71Combined sources13
Beta strandi78 – 82Combined sources5
Helixi88 – 104Combined sources17
Beta strandi109 – 112Combined sources4
Beta strandi117 – 119Combined sources3
Beta strandi120 – 123Combined sources4
Beta strandi125 – 128Combined sources4
Helixi132 – 138Combined sources7
Helixi141 – 143Combined sources3
Beta strandi145 – 147Combined sources3
Helixi151 – 158Combined sources8
Helixi165 – 178Combined sources14
Beta strandi181 – 185Combined sources5
Beta strandi198 – 208Combined sources11
Turni210 – 212Combined sources3
Beta strandi215 – 224Combined sources10
Helixi233 – 247Combined sources15
Helixi252 – 277Combined sources26
Turni286 – 289Combined sources4
Helixi294 – 296Combined sources3
Helixi297 – 301Combined sources5
Beta strandi310 – 312Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2AJPX-ray2.50A/B6-312[»]
2F7KX-ray2.80A/B1-312[»]
2YXTX-ray2.00A/B1-312[»]
2YXUX-ray2.20A/B1-312[»]
3FHXX-ray2.50A/B1-312[»]
3FHYX-ray2.30A/B1-312[»]
3KEUX-ray2.10A/B1-312[»]
4EN4X-ray2.15A/B1-312[»]
4EOHX-ray2.10A/B1-312[»]
ProteinModelPortaliO00764
SMRiO00764
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO00764

Family & Domainsi

Sequence similaritiesi

Belongs to the pyridoxine kinase family.Curated

Phylogenomic databases

eggNOGiKOG2599 Eukaryota
COG2240 LUCA
GeneTreeiENSGT00390000003874
HOGENOMiHOG000258174
HOVERGENiHBG000732
InParanoidiO00764
KOiK00868
OMAiCPNQLEL
OrthoDBiEOG091G0EKE
PhylomeDBiO00764
TreeFamiTF315004

Family and domain databases

CDDicd01173 pyridoxal_pyridoxamine_kinase, 1 hit
Gene3Di3.40.1190.20, 1 hit
InterProiView protein in InterPro
IPR013749 PM/HMP-P_kinase-1
IPR004625 PyrdxlKinase
IPR029056 Ribokinase-like
PANTHERiPTHR10534 PTHR10534, 1 hit
PfamiView protein in Pfam
PF08543 Phos_pyr_kin, 1 hit
SUPFAMiSSF53613 SSF53613, 1 hit
TIGRFAMsiTIGR00687 pyridox_kin, 1 hit

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O00764-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MEEECRVLSI QSHVIRGYVG NRAATFPLQV LGFEIDAVNS VQFSNHTGYA
60 70 80 90 100
HWKGQVLNSD ELQELYEGLR LNNMNKYDYV LTGYTRDKSF LAMVVDIVQE
110 120 130 140 150
LKQQNPRLVY VCDPVLGDKW DGEGSMYVPE DLLPVYKEKV VPLADIITPN
160 170 180 190 200
QFEAELLSGR KIHSQEEALR VMDMLHSMGP DTVVITSSDL PSPQGSNYLI
210 220 230 240 250
VLGSQRRRNP AGSVVMERIR MDIRKVDAVF VGTGDLFAAM LLAWTHKHPN
260 270 280 290 300
NLKVACEKTV STLHHVLQRT IQCAKAQAGE GVRPSPMQLE LRMVQSKRDI
310
EDPEIVVQAT VL
Length:312
Mass (Da):35,102
Last modified:July 1, 1997 - v1
Checksum:i2DBDCAB5D8640569
GO
Isoform 2 (identifier: O00764-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     83-110: Missing.

Note: No experimental confirmation available.
Show »
Length:284
Mass (Da):31,808
Checksum:iB85FE3EFD5A6B55D
GO
Isoform 3 (identifier: O00764-3) [UniParc]FASTAAdd to basket
Also known as: PKH-T

The sequence of this isoform differs from the canonical sequence as follows:
     1-73: Missing.

Show »
Length:239
Mass (Da):26,827
Checksum:i588E6BECD72D9640
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0106711 – 73Missing in isoform 3. 1 PublicationAdd BLAST73
Alternative sequenceiVSP_00465383 – 110Missing in isoform 2. 1 PublicationAdd BLAST28

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U89606 mRNA Translation: AAC51233.1
AY303972 mRNA Translation: AAP73047.1
AP001752 Genomic DNA Translation: BAA95540.1
BC000123 mRNA Translation: AAH00123.1
BC005825 mRNA Translation: AAH05825.1
CCDSiCCDS13699.1 [O00764-1]
RefSeqiNP_003672.1, NM_003681.4 [O00764-1]
XP_005261256.1, XM_005261199.2 [O00764-3]
XP_011528062.1, XM_011529760.2 [O00764-3]
XP_011528063.1, XM_011529761.1 [O00764-3]
XP_016883972.1, XM_017028483.1 [O00764-3]
XP_016883973.1, XM_017028484.1 [O00764-3]
UniGeneiHs.284491

Genome annotation databases

EnsembliENST00000291565; ENSP00000291565; ENSG00000160209 [O00764-1]
ENST00000468090; ENSP00000418359; ENSG00000160209 [O00764-2]
GeneIDi8566
KEGGihsa:8566
UCSCiuc002zdn.4 human [O00764-1]

Keywords - Coding sequence diversityi

Alternative splicing

Entry informationi

Entry nameiPDXK_HUMAN
AccessioniPrimary (citable) accession number: O00764
Secondary accession number(s): Q7Z2Y0, Q9BS02
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: July 1, 1997
Last modified: May 23, 2018
This is version 176 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 21
    Human chromosome 21: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

Cookie policy

We would like to use anonymized google analytics cookies to gather statistics on how uniprot.org is used in aggregate. Learn more

UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health