Pyridoxal kinase

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<StructureSection load='' size='400' side='right' scene='54/543357/Cv/1' caption='E. Coli pyridoxal kinase 1 complex with pyridoxal [[2ddw]]'>
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[[Image:3keu.png|left|200px|thumb|Crystal structure of human pyridoxal kinase complex with Mg+2 ion, ATP and pyridoxal-5’-phosphate [[3keu]]]]
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== Function ==
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{{STRUCTURE_2ddw| PDB=2ddw | SIZE=350| SCENE= |right|CAPTION=E. Coli pyridoxal kinase complex with pyridoxal [[2ddw]] }}
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'''Pyridoxal kinase''' (PDX) catalyzes the transfer of phosphate (Pi) from ATP to 5’ alcohol of pyridoxine, pyridoxamine and pyridoxal<ref>PMID:25655354</ref>.
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== Structural highlights ==
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<scene name='54/543357/Cv/4'>PDX1 active site</scene><ref>PMID:16740960</ref>.
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</StructureSection>
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== 3D Structures of pyridoxal kinase ==
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
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{{#tree:id=OrganizedByTopic|openlevels=0|
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*'''Pyridoxal kinase'''
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**[[2f7k]] – hPDX - human<br />
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**[[1lhp]] – sPDX – sheep<br />
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**[[6yjz]] – mPDX - mouse<br />
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**[[2ddm]] – EcPDX1 – ''Escherichia coli''<br />
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**[[3h74]] – LpPDX – ''Lactobacillus planarum'' <br />
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**[[3zs7]] – PDX – ''Trypanosoma brucei'' <br />
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**[[4c5j]] – SaPDX – ''Staphylococcus aureus'' <br />
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**[[5tqi]] - PDX - ''Burkholderia multivorans''<br />
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**[[5trw]] - PDX - ''Burkholderia xenovorans''<br />
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**[[5b6a]] - PDX - ''Pseudomonas aeruginosa''<br />
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**[[5zw9]] – ScPDX – ''Salmonella choleraesuis''<br />
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*Pyridoxal kinase complex with pyridoxal compounds
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**[[3fhx]] – hPDX (mutant) + Mg + Na + ATP + pyridoxal + PLP <br />
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**[[3keu]] – hPDX + Mg + ATP + PLP<br />
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**[[1rft]] – sPDX + Zn + K + AMPPCP + pyridoxamine<br />
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**[[1rfu]] – sPDX + Zn + ADP + PLP<br />
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**[[2ddw]] – EcPDX1 + pyridoxal<br />
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**[[4c5l]] – SaPDX + pyridoxal<br />
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**[[4c5n]] – SaPDX + pyridoxal + AMPPCP<br />
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**[[4s1i]] – EhPDX + Mg + PLP - ''Entamoeba histolytica'' <br />
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**[[6su9]] – PDX + pyridoxal + AMPPNP – ''Plasmodium falciparum''<br />
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**[[6k91]], [[6k92]] – LdPDX + ADP + pyridoxine derivative – ''Leishmania donovani''<br />
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**[[6k90]] – LdPDX + ADP + pyridoxamine <br />
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**[[5zwa]], [[5zwb]] – ScPDX + ADP + PLP<br />
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*Other pyridoxal kinase complexes
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**[[2ajp]] – hPDX + Mg + ANP <br />
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**[[2yxt]] – hPDX + Na + Pi<br />
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**[[2yxu]] – hPDX + Mg + Na + ATP + Pi<br />
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**[[3fhy]] – hPDX (mutant) + Mg + Na + ATP <br />
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**[[4en4]] – hPDX + Mg + ATP + ginkotoxin<br />
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**[[4eoh]] – hPDX + Na + theophylline<br />
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**[[1lhr]] – sPDX + Zn + K + ATP<br />
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**[[1rfv]] – sPDX + Zn + ADP <br />
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**[[1ygj]], [[1ygk]], [[1yhj]] – sPDX + roscovitine<br />
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**[[6yk0]] – mPDX + ATPgS <br />
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**[[6yk1]] – mPDX + ATPgS + artesunate<br />
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**[[2ddo]] – EcPDX1 + Mg + ATP + Pi<br />
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**[[2i5b]] – PDX + ADP – ''Bacillus subtilis''<br />
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**[[6k8z]] – LdPDX + ADP<br />
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**[[3hyo]] – LpPDX + Mg + ADP <br />
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**[[3ibq]] – LpPDX + Mg + ATP <br />
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**[[4c5k]] – SaPDX + ADP<br />
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**[[4c5m]] – SaPDX + AMPPCP<br />
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**[[4s1m]] – EhPDX + Mg <br />
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**[[4s1h]] – EhPDX + Mg + ADP <br />
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}}
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== References ==
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<references/>
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'''Pyridoxal kinase''' (PDK) catalyzes the transfer of phosphate (Pi) from ATP to 5’ alcohol of pyridoxine, pyridoxamine and pyridoxal.
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== 3D Structures of pyridoxal kinase ==
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
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[[1lhp]] – sPDK – sheep<br />
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[[2f7k]] – hPDK - human<br />
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[[2ddm]] – EcPDK – ''Escherichia coli''<br />
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[[3h74]] – LpPDK – ''Lactobacillus planarum'' <br />
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[[3zs7]] – PDK – ''Trypanosoma brucei'' <br />
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[[4c5j]] – SaPDK – ''Staphylococcus aureus'' <br />
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===Pyridoxal kinase complex with pyridoxal compounds===
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[[1rft]] – sPDK + Zn + K + AMPPCP + pyridoxamine<br />
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[[1rfu]] – sPDK + Zn + ADP + pyridoxal-5’-phosphate<br />
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[[2ddw]] – EcPDK + pyridoxal<br />
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[[4c5l]] – SaPDK + pyridoxal<br />
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[[4c5n]] – SaPDK + pyridoxal + AMPPCP<br />
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[[3fhx]] – hPDK (mutant) + Mg + Na + ATP + pyridoxal + pyridoxal-5’-phosphate <br />
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[[3keu]] – hPDK + Mg + ATP + pyridoxal-5’-phosphate<br />
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===Other pyridoxal kinase complexes===
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[[1lhr]] – sPDK + Zn + K + ATP<br />
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[[1rfv]] – sPDK + Zn + ADP <br />
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[[1ygj]], [[1ygk]], [[1yhj]] – sPDK + roscovitine<br />
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[[2ajp]] – hPDK + Mg + ANP <br />
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[[2ddo]] – EcPDK + Mg + ATP + Pi<br />
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[[2i5b]] – PDK + ADP – Bacillus subtilis<br />
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[[2yxt]] – hPDK + Na + Pi<br />
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[[2yxu]] – hPDK + Mg + Na + ATP + Pi<br />
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[[3fhy]] – hPDK (mutant) + Mg + Na + ATP <br />
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[[3hyo]] – LpPDK + Mg + ADP <br />
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[[3ibq]] – LpPDK + Mg + ATP <br />
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[[4en4]] – hPDK + Mg + ATP + ginkotoxin<br />
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[[4eoh]] – hPDK + Na + theophylline<br />
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[[4c5k]] – SaPDK + ADP<br />
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[[4c5m]] – SaPDK + AMPPCP<br />
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[[Category:Topic Page]]
[[Category:Topic Page]]

Current revision

E. Coli pyridoxal kinase 1 complex with pyridoxal 2ddw

Drag the structure with the mouse to rotate

3D Structures of pyridoxal kinase

Updated on 04-October-2023

References

  1. ↑ di Salvo ML, Nogues I, Parroni A, Tramonti A, Milano T, Pascarella S, Contestabile R. On the mechanism of Escherichia coli pyridoxal kinase inhibition by pyridoxal and pyridoxal 5'-phosphate. Biochim Biophys Acta. 2015 Sep;1854(9):1160-6. doi: 10.1016/j.bbapap.2015.01.013., Epub 2015 Feb 3. PMID:25655354 doi:http://dx.doi.org/10.1016/j.bbapap.2015.01.013
  2. ↑ Safo MK, Musayev FN, di Salvo ML, Hunt S, Claude JB, Schirch V. Crystal structure of pyridoxal kinase from the Escherichia coli pdxK gene: implications for the classification of pyridoxal kinases. J Bacteriol. 2006 Jun;188(12):4542-52. PMID:16740960 doi:188/12/4542

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky, Joel L. Sussman

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