1rfv

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{{Seed}}
 
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[[Image:1rfv.png|left|200px]]
 
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==Crystal structure of pyridoxal kinase complexed with ADP==
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The line below this paragraph, containing "STRUCTURE_1rfv", creates the "Structure Box" on the page.
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<StructureSection load='1rfv' size='340' side='right'caption='[[1rfv]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1rfv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Ovis_aries Ovis aries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RFV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RFV FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_1rfv| PDB=1rfv | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1rfv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rfv OCA], [https://pdbe.org/1rfv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rfv RCSB], [https://www.ebi.ac.uk/pdbsum/1rfv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rfv ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PDXK_SHEEP PDXK_SHEEP] Required for synthesis of pyridoxal-5-phosphate from vitamin B6.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/rf/1rfv_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1rfv ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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To understand the processes involved in the catalytic mechanism of pyridoxal kinase (PLK),1 we determined the crystal structures of PLK.AMP-PCP-pyridoxamine, PLK.ADP.PLP, and PLK.ADP complexes. Comparisons of these structures have revealed that PLK exhibits different conformations during its catalytic process. After the binding of AMP-PCP (an analogue that replaced ATP) and pyridoxamine to PLK, this enzyme retains a conformation similar to that of the PLK.ATP complex. The distance between the reacting groups of the two substrates is 5.8 A apart, indicating that the position of ATP is not favorable to spontaneous transfer of its phosphate group. However, the structure of PLK.ADP.PLP complex exhibited significant changes in both the conformation of the enzyme and the location of the ligands at the active site. Therefore, it appears that after binding of both substrates, the enzyme-substrate complex requires changes in the protein structure to enable the transfer of the phosphate group from ATP to vitamin B(6). Furthermore, a conformation of the enzyme-substrate complex before the transition state of the enzymatic reaction was also hypothesized.
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===Crystal structure of pyridoxal kinase complexed with ADP===
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Conformational changes in the reaction of pyridoxal kinase.,Li MH, Kwok F, Chang WR, Liu SQ, Lo SC, Zhang JP, Jiang T, Liang DC J Biol Chem. 2004 Apr 23;279(17):17459-65. Epub 2004 Jan 13. PMID:14722069<ref>PMID:14722069</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1rfv" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_14722069}}, adds the Publication Abstract to the page
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*[[Pyridoxal kinase|Pyridoxal kinase]]
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(as it appears on PubMed at http://www.pubmed.gov), where 14722069 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_14722069}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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1RFV is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Ovis_aries Ovis aries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RFV OCA].
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==Reference==
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Conformational changes in the reaction of pyridoxal kinase., Li MH, Kwok F, Chang WR, Liu SQ, Lo SC, Zhang JP, Jiang T, Liang DC, J Biol Chem. 2004 Apr 23;279(17):17459-65. Epub 2004 Jan 13. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14722069 14722069]
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Crystal structure of brain pyridoxal kinase, a novel member of the ribokinase superfamily., Li MH, Kwok F, Chang WR, Lau CK, Zhang JP, Lo SC, Jiang T, Liang DC, J Biol Chem. 2002 Nov 29;277(48):46385-90. Epub 2002 Sep 15. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12235162 12235162]
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Crystallization and preliminary crystallographic studies of pyridoxal kinase from sheep brain., Li MH, Kwok F, An XM, Chang WR, Lau CK, Zhang JP, Liu SQ, Leung YC, Jiang T, Liang DC, Acta Crystallogr D Biol Crystallogr. 2002 Sep;58(Pt 9):1479-81. Epub 2002, Aug 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12198308 12198308]
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[[Category: Ovis aries]]
[[Category: Ovis aries]]
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[[Category: Pyridoxal kinase]]
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[[Category: Jiang T]]
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[[Category: Single protein]]
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[[Category: Li M-H]]
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[[Category: Jiang, T.]]
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[[Category: Liang D-C]]
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[[Category: Li, M H.]]
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[[Category: Liang, D C.]]
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[[Category: Transferase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 09:47:10 2008''
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Current revision

Crystal structure of pyridoxal kinase complexed with ADP

PDB ID 1rfv

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