1yhj - Revision history

OCA at 13:37, 13 March 2024

OCA — Wed, 13 Mar 2024 13:37:58 GMT

←Older revision		Revision as of 13:37, 13 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1yhj]] is a 1 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yhj]] is a 1 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=R6C:(2R)~~-~~2-{~~[~~6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-~~2~~-YL]AMINO}BUTAN-1-OL'>R6C</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.8Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number~~ [~~https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=~~2~~.7.1.35 2.7.1.35~~] </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [https://pdbe.org/1yhj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [https://www.ebi.ac.uk/pdbsum/1yhj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yhj ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [https://pdbe.org/1yhj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [https://www.ebi.ac.uk/pdbsum/1yhj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yhj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PDXK_SHEEP PDXK_SHEEP]] Required for synthesis of pyridoxal-5-phosphate from vitamin B6.	+	[https://www.uniprot.org/uniprot/PDXK_SHEEP PDXK_SHEEP] Required for synthesis of pyridoxal-5-phosphate from vitamin B6.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 20:
	</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=1yhj ConSurf].		</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=1yhj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Pyridoxal kinase (PDXK) catalyzes the phosphorylation of pyridoxal, pyridoxamine, and pyridoxine in the presence of ATP and Zn2+. This constitutes an essential step in the synthesis of pyridoxal 5'-phosphate (PLP), the active form of vitamin B6, a cofactor for over 140 enzymes. (R)-Roscovitine (CYC202, Seliciclib) is a relatively selective inhibitor of cyclin-dependent kinases (CDKs), currently evaluated for the treatment of cancers, neurodegenerative disorders, renal diseases, and several viral infections. Affinity chromatography investigations have shown that (R)-roscovitine also interacts with PDXK. To understand this interaction, we determined the crystal structure of PDXK in complex with (R)-roscovitine, N6-methyl-(R)-roscovitine, and O6-(R)-roscovitine, the two latter derivatives being designed to bind to PDXK but not to CDKs. Structural analysis revealed that these three roscovitines bind similarly in the pyridoxal-binding site of PDXK rather than in the anticipated ATP-binding site. The pyridoxal pocket has thus an unexpected ability to accommodate molecules different from and larger than pyridoxal. This work provides detailed structural information on the interactions between PDXK and roscovitine and analogs. It could also aid in the design of roscovitine derivatives displaying strict selectivity for either PDXK or CDKs.
-
-	Crystal structure of pyridoxal kinase in complex with roscovitine and derivatives.,Tang L, Li MH, Cao P, Wang F, Chang WR, Bach S, Reinhardt J, Ferandin Y, Galons H, Wan Y, Gray N, Meijer L, Jiang T, Liang DC J Biol Chem. 2005 Sep 2;280(35):31220-9. Epub 2005 Jun 28. PMID:15985434<ref>PMID:15985434</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1yhj" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Pyridoxal kinase\|Pyridoxal kinase]]		*[[Pyridoxal kinase\|Pyridoxal kinase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Ovis aries]]		[[Category: Ovis aries]]
-	~~[[Category: Pyridoxal kinase]]~~	+	[[Category: Bach S]]
-	[[Category: Bach, S]]	+	[[Category: Cao P]]
-	[[Category: Cao, P]]	+	[[Category: Chang W-R]]
-	[[Category: Chang, W R]]	+	[[Category: Ferandin Y]]
-	[[Category: Ferandin, Y]]	+	[[Category: Galons H]]
-	[[Category: Galons, H]]	+	[[Category: Gray N]]
-	[[Category: Gray, N]]	+	[[Category: Jiang T]]
-	[[Category: Jiang, T]]	+	[[Category: Koken M]]
-	[[Category: Koken, M]]	+	[[Category: Li M-H]]
-	[[Category: Li, M H]]	+	[[Category: Liang D-C]]
-	[[Category: Liang, D C]]	+	[[Category: Meijer L]]
-	[[Category: Meijer, L]]	+	[[Category: Reinhardt J]]
-	[[Category: Reinhardt, J]]	+	[[Category: Tang L]]
-	[[Category: Tang, L]]	+	[[Category: Wan Y]]
-	[[Category: Wan, Y]]	+	[[Category: Wang F]]
-	[[Category: Wang, F]]	+
-	~~[[Category: Alpha-beta structure]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 16:28, 3 November 2021

OCA — Wed, 03 Nov 2021 16:28:20 GMT

←Older revision		Revision as of 16:28, 3 November 2021
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	<StructureSection load='1yhj' size='340' side='right'caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1yhj' size='340' side='right'caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yhj]] is a 1 chain structure with 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yhj]] is a 1 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [~~http~~://pdbe.org/1yhj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1yhj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1yhj ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [https://pdbe.org/1yhj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [https://www.ebi.ac.uk/pdbsum/1yhj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yhj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PDXK_SHEEP PDXK_SHEEP]] Required for synthesis of pyridoxal-5-phosphate from vitamin B6.	+	[[https://www.uniprot.org/uniprot/PDXK_SHEEP PDXK_SHEEP]] Required for synthesis of pyridoxal-5-phosphate from vitamin B6.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 16:44, 29 January 2020

OCA — Wed, 29 Jan 2020 16:44:12 GMT

←Older revision		Revision as of 16:44, 29 January 2020
Line 1:		Line 1:

	==Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives==		==Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives==
-	<StructureSection load='1yhj' size='340' side='right' caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='1yhj' size='340' side='right'caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1yhj]] is a 1 chain structure with 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yhj]] is a 1 chain structure with 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Ovis aries]]		[[Category: Ovis aries]]
	[[Category: Pyridoxal kinase]]		[[Category: Pyridoxal kinase]]

OCA at 06:30, 25 April 2018

OCA — Wed, 25 Apr 2018 06:30:39 GMT

←Older revision		Revision as of 06:30, 25 April 2018
Line 1:		Line 1:
		+
	==Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives==		==Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives==
	<StructureSection load='1yhj' size='340' side='right' caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1yhj' size='340' side='right' caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://pdbe.org/1yhj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://pdbe.org/1yhj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1yhj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yh/1yhj_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yh/1yhj_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 14:38, 9 February 2016

OCA — Tue, 09 Feb 2016 14:38:42 GMT

←Older revision		Revision as of 14:38, 9 February 2016
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</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/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</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=1yhj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:13, 10 September 2015

OCA — Thu, 10 Sep 2015 23:13:37 GMT

←Older revision		Revision as of 23:13, 10 September 2015
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://pdbe.org/1yhj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1yhj" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 07:26, 25 December 2014

OCA — Thu, 25 Dec 2014 07:26:33 GMT

←Older revision		Revision as of 07:26, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1yhj]] is a 1 chain structure with 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yhj]] is a 1 chain structure with 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PDXK_SHEEP PDXK_SHEEP]] Required for synthesis of pyridoxal-5-phosphate from vitamin B6.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	[[Category: Ovis aries]]		[[Category: Ovis aries]]
	[[Category: Pyridoxal kinase]]		[[Category: Pyridoxal kinase]]
-	[[Category: Bach, S.]]	+	[[Category: Bach, S]]
-	[[Category: Cao, P.]]	+	[[Category: Cao, P]]
-	[[Category: Chang, W R.]]	+	[[Category: Chang, W R]]
-	[[Category: Ferandin, Y.]]	+	[[Category: Ferandin, Y]]
-	[[Category: Galons, H.]]	+	[[Category: Galons, H]]
-	[[Category: Gray, N.]]	+	[[Category: Gray, N]]
-	[[Category: Jiang, T.]]	+	[[Category: Jiang, T]]
-	[[Category: Koken, M.]]	+	[[Category: Koken, M]]
-	[[Category: Li, M H.]]	+	[[Category: Li, M H]]
-	[[Category: Liang, D C.]]	+	[[Category: Liang, D C]]
-	[[Category: Meijer, L.]]	+	[[Category: Meijer, L]]
-	[[Category: Reinhardt, J.]]	+	[[Category: Reinhardt, J]]
-	[[Category: Tang, L.]]	+	[[Category: Tang, L]]
-	[[Category: Wan, Y.]]	+	[[Category: Wan, Y]]
-	[[Category: Wang, F.]]	+	[[Category: Wang, F]]
	[[Category: Alpha-beta structure]]		[[Category: Alpha-beta structure]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 18:56, 29 September 2014

OCA — Mon, 29 Sep 2014 18:56:11 GMT

←Older revision		Revision as of 18:56, 29 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1yhj.~~png\|left~~\|200px]]	+	==Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives==
		+	<StructureSection load='1yhj' size='340' side='right' caption='[[1yhj]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1yhj]] is a 1 chain structure with 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=1YHJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YHJ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=R6C:(2R)-2-{[6-(BENZYLOXY)-9-ISOPROPYL-9H-PURIN-2-YL]AMINO}BUTAN-1-OL'>R6C</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yhj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yhj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yhj RCSB], [http://www.ebi.ac.uk/pdbsum/1yhj PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yh/1yhj_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</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/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pyridoxal kinase (PDXK) catalyzes the phosphorylation of pyridoxal, pyridoxamine, and pyridoxine in the presence of ATP and Zn2+. This constitutes an essential step in the synthesis of pyridoxal 5'-phosphate (PLP), the active form of vitamin B6, a cofactor for over 140 enzymes. (R)-Roscovitine (CYC202, Seliciclib) is a relatively selective inhibitor of cyclin-dependent kinases (CDKs), currently evaluated for the treatment of cancers, neurodegenerative disorders, renal diseases, and several viral infections. Affinity chromatography investigations have shown that (R)-roscovitine also interacts with PDXK. To understand this interaction, we determined the crystal structure of PDXK in complex with (R)-roscovitine, N6-methyl-(R)-roscovitine, and O6-(R)-roscovitine, the two latter derivatives being designed to bind to PDXK but not to CDKs. Structural analysis revealed that these three roscovitines bind similarly in the pyridoxal-binding site of PDXK rather than in the anticipated ATP-binding site. The pyridoxal pocket has thus an unexpected ability to accommodate molecules different from and larger than pyridoxal. This work provides detailed structural information on the interactions between PDXK and roscovitine and analogs. It could also aid in the design of roscovitine derivatives displaying strict selectivity for either PDXK or CDKs.

-	~~{{STRUCTURE_1yhj\| PDB=1yhj \| SCENE= }}~~	+	Crystal structure of pyridoxal kinase in complex with roscovitine and derivatives.,Tang L, Li MH, Cao P, Wang F, Chang WR, Bach S, Reinhardt J, Ferandin Y, Galons H, Wan Y, Gray N, Meijer L, Jiang T, Liang DC J Biol Chem. 2005 Sep 2;280(35):31220-9. Epub 2005 Jun 28. PMID:15985434<ref>PMID:15985434</ref>

-	~~===Crystal Structure~~ of ~~Pyridoxal Kinase in Complex with Roscovitine and Derivatives===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_15985434}}~~	+	==See Also==
-		+	*[[Pyridoxal kinase\|Pyridoxal kinase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1yhj~~]] is a 1 chain structure with 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=1YHJ OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:015985434<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Ovis aries]]		[[Category: Ovis aries]]
	[[Category: Pyridoxal kinase]]		[[Category: Pyridoxal kinase]]

OCA: Protected "1yhj" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 17:07:49 GMT

Protected "1yhj" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:07, 5 January 2013

OCA at 17:07, 5 January 2013

OCA — Sat, 05 Jan 2013 17:07:48 GMT

←Older revision		Revision as of 17:07, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1yhj.png\|left\|200px]]		[[Image:1yhj.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1yhj", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1yhj\| PDB=1yhj \| SCENE= }}		{{STRUCTURE_1yhj\| PDB=1yhj \| SCENE= }}

	===Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives===		===Crystal Structure of Pyridoxal Kinase in Complex with Roscovitine and Derivatives===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15985434}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15985434 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15985434}}		{{ABSTRACT_PUBMED_15985434}}

	==About this Structure==		==About this Structure==
-	~~1YHJ~~ is a 1 chain 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=1YHJ OCA].	+	[[1yhj]] is a 1 chain structure with 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=1YHJ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15985434~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015985434</ref><references group="xtra"/>
	[[Category: Ovis aries]]		[[Category: Ovis aries]]
	[[Category: Pyridoxal kinase]]		[[Category: Pyridoxal kinase]]
Line 42:		Line 30:
	[[Category: Wang, F.]]		[[Category: Wang, F.]]
	[[Category: Alpha-beta structure]]		[[Category: Alpha-beta structure]]
-		+	[[Category: Transferase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 10:32:46 2009''~~	+