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Q8W1X2 (PDXK_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 101. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Pyridoxal kinase

EC=2.7.1.35
Alternative name(s):
Protein SALT OVERLY SENSITIVE 4
Pyridoxal kinase-like protein SOS4
Pyridoxine kinase
Gene names
Name:PK
Synonyms:PDXK, SOS4
Ordered Locus Names:At5g37850
ORF Names:K18L3_10
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length309 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Catalyzes the transfer of a phosphate group from ATP to the 5-hydroxylmethyl group of pyridoxal to form the biologically active pyridoxal phosphate. Ref.7

Catalytic activity

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

Cofactor

Divalent cations. Zinc >> cobalt > magnesium > manganese > calcium.

Pathway

Cofactor biosynthesis; B6 vitamer interconversion; pyridoxal 5'-phosphate from pyridoxal: step 1/1.

Subunit structure

Homodimer.

Tissue specificity

Expressed ubiquitously in leaves, stems, roots, flowers and siliques.

Developmental stage

Becomes detectable 60 hours after imbibition of the seeds and remains constant up to 101 hours after imbibition.

Induction

Both long and short transcripts are down-regulated in roots but not in shoots by NaCl and abscisic acid treatment. Under cold stress, the expression of the short transcript is increased while the long one becomes undetectable.

Miscellaneous

Defective pyridoxal kinase results in both salt hypersensitive and root hairless phenotypes.

Sequence similarities

Belongs to the pyridoxine kinase family.

Biophysicochemical properties

Kinetic parameters:

KM=98 µM for ATP

KM=688 µM for pyridoxal

Vmax=1.604 mmol/min/mg enzyme

pH dependence:

Optimum pH is 6.0. Active from pH 4.5 to 10.5.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q8W1X2-1)

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.
Isoform 2 (identifier: Q8W1X2-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MPFSFPTTTTTSLPFHKDHNHFNLNRNLRSRNRRM
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 309309Pyridoxal kinase
PRO_0000213341

Regions

Nucleotide binding193 – 1942ATP By similarity
Nucleotide binding221 – 23313ATP By similarity

Sites

Binding site231Substrate By similarity
Binding site581Substrate By similarity
Binding site1341Substrate By similarity
Binding site2341Substrate By similarity

Natural variations

Alternative sequence11M → MPFSFPTTTTTSLPFHKDHN HFNLNRNLRSRNRRM in isoform 2.
VSP_004654

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified December 6, 2002. Version 2.
Checksum: 3630575692F2B271

FASTA30934,043
        10         20         30         40         50         60 
MTTPPVLSLA LPSDTGRVLS IQSHTVQGYV GNKSAVFPLQ LLGYDVDPIN SVQFSNHTGY 

        70         80         90        100        110        120 
PTFKGQVLNG QQLCDLIEGL EANDLLFYTH VLTGYIGSVS FLDTILEVIN KLRSVNPNLT 

       130        140        150        160        170        180 
YVCDPVMGDE GKLYVPEELV HVYREKVVPL ASMLTPNQFE AEKLTGLRIN SEEDGREACA 

       190        200        210        220        230        240 
ILHAAGPSKV VITSITIGGI LLLIGSHQKE KGLKPEQFKI LIHKIPAYFT GTGDLMTALL 

       250        260        270        280        290        300 
LGWSNKYPDN LDKAAELAVS TLQALLRRTL DDYKRAGYDP TSSSLEIRLI QSQEDIRNPK 


VELKAERYS 

« Hide

Isoform 2 [UniParc].

Checksum: 58DFE7EF6334C178
Show »

FASTA34338,167

References

« Hide 'large scale' references
[1]"Cloning and characterization of Arabidopsis thaliana pyridoxal kinase."
Lum H.-K., Kwok F., Lo S.C.L.
Planta 215:870-879(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), PROTEIN SEQUENCE OF 1-12.
Strain: cv. Columbia.
[2]"The Arabidopsis salt overly sensitive 4 mutants uncover a critical role for vitamin B6 in plant salt tolerance."
Shi H., Xiong L., Stevenson B., Lu T., Zhu J.-K.
Plant Cell 14:575-588(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORMS 1 AND 2).
Strain: cv. Columbia.
[3]"Structural analysis of Arabidopsis thaliana chromosome 5. VI. Sequence features of the regions of 1,367,185 bp covered by 19 physically assigned P1 and TAC clones."
Kotani H., Nakamura Y., Sato S., Asamizu E., Kaneko T., Miyajima N., Tabata S.
DNA Res. 5:203-216(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[4]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[5]"Empirical analysis of transcriptional activity in the Arabidopsis genome."
Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. expand/collapse author list , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Strain: cv. Columbia.
[6]"Full-length cDNA from Arabidopsis thaliana."
Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
[7]"SOS4, a pyridoxal kinase gene, is required for root hair development in Arabidopsis."
Shi H., Zhu J.-K.
Plant Physiol. 129:585-593(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF404865 mRNA. Translation: AAL57364.2.
AF400125 Genomic DNA. Translation: AAK94020.1.
AF400125 Genomic DNA. Translation: AAK94021.1.
AB012241 Genomic DNA. Translation: BAB09031.1.
CP002688 Genomic DNA. Translation: AED94239.1.
CP002688 Genomic DNA. Translation: AED94240.1.
AY136333 mRNA. Translation: AAM96999.1.
BT008815 mRNA. Translation: AAP68254.1.
AY084419 mRNA. Translation: AAM60993.1.
RefSeqNP_001078677.1. NM_001085208.1. [Q8W1X2-1]
NP_198601.2. NM_123144.3. [Q8W1X2-2]
UniGeneAt.28304.

3D structure databases

ProteinModelPortalQ8W1X2.
SMRQ8W1X2. Positions 17-305.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid19014. 1 interaction.

Proteomic databases

PaxDbQ8W1X2.
PRIDEQ8W1X2.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT5G37850.1; AT5G37850.1; AT5G37850. [Q8W1X2-2]
AT5G37850.2; AT5G37850.2; AT5G37850. [Q8W1X2-1]
GeneID833763.
KEGGath:AT5G37850.

Organism-specific databases

TAIRAT5G37850.

Phylogenomic databases

eggNOGCOG2240.
HOGENOMHOG000258174.
InParanoidQ8W1X2.
KOK00868.
OMAHVIKRTI.
PhylomeDBQ8W1X2.

Enzyme and pathway databases

BioCycARA:GQT-1103-MONOMER.
ARA:GQT-2581-MONOMER.
UniPathwayUPA00190; UER00298.

Gene expression databases

GenevestigatorQ8W1X2.

Family and domain databases

Gene3D3.40.1190.20. 1 hit.
InterProIPR013749. HMP-P_kinase-1.
IPR004625. PyrdxlP_synth_PyrdxlKinase.
IPR029056. Ribokinase-like.
[Graphical view]
PANTHERPTHR10534. PTHR10534. 1 hit.
PfamPF08543. Phos_pyr_kin. 1 hit.
[Graphical view]
SUPFAMSSF53613. SSF53613. 1 hit.
TIGRFAMsTIGR00687. pyridox_kin. 1 hit.
ProtoNetSearch...

Other

PROQ8W1X2.

Entry information

Entry namePDXK_ARATH
AccessionPrimary (citable) accession number: Q8W1X2
Secondary accession number(s): Q94EN4, Q9FKE1
Entry history
Integrated into UniProtKB/Swiss-Prot: December 6, 2002
Last sequence update: December 6, 2002
Last modified: June 11, 2014
This is version 101 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names