2zia - Revision history

OCA at 13:36, 1 November 2023

OCA — Wed, 01 Nov 2023 13:36:39 GMT

←Older revision		Revision as of 13:36, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zia' size='340' side='right'caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2zia' size='340' side='right'caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL9:2~~-~~CHLORO-2-DEOXYADENOSINE'>CL9</scene>~~, ~~<scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</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]] 1.8Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>DCK ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~9606 HUMAN])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74]~~ </~~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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [https://pdbe.org/2zia PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [https://www.ebi.ac.uk/pdbsum/2zia PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zia 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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [https://pdbe.org/2zia PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [https://www.ebi.ac.uk/pdbsum/2zia PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zia ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/DCK_HUMAN DCK_HUMAN]] Required for the phosphorylation of the deoxyribonucleosides deoxycytidine (dC), deoxyguanosine (dG) and deoxyadenosine (dA). Has broad substrate specificity, and does not display selectivity based on the chirality of the substrate. It is also an essential enzyme for the phosphorylation of numerous nucleoside analogs widely employed as antiviral and chemotherapeutic agents.<ref>PMID:18377927</ref> <ref>PMID:20614893</ref>	+	[https://www.uniprot.org/uniprot/DCK_HUMAN DCK_HUMAN] Required for the phosphorylation of the deoxyribonucleosides deoxycytidine (dC), deoxyguanosine (dG) and deoxyadenosine (dA). Has broad substrate specificity, and does not display selectivity based on the chirality of the substrate. It is also an essential enzyme for the phosphorylation of numerous nucleoside analogs widely employed as antiviral and chemotherapeutic agents.<ref>PMID:18377927</ref> <ref>PMID:20614893</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 31:

	==See Also==		==See Also==
		+	*[[ATPase 3D structures\|ATPase 3D structures]]
	*[[Deoxycytidine kinase 3D structures\|Deoxycytidine kinase 3D structures]]		*[[Deoxycytidine kinase 3D structures\|Deoxycytidine kinase 3D structures]]
	== References ==		== References ==
Line 38:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Deoxycytidine kinase]]~~	+	[[Category: Homo sapiens]]
-	~~[[Category: Human~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Lavie, A]]	+	[[Category: Lavie A]]
-	[[Category: Sabini, E]]	+	[[Category: Sabini E]]
-	~~[[Category: 2-chloro-2'-deoxyadenosine]]~~	+
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Cladribine]]~~	+
-	~~[[Category: Dck]]~~	+
-	~~[[Category: Deoxyadenosine analog]]~~	+
-	~~[[Category: Nucleoside]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Nucleus]]~~	+
-	~~[[Category: Phosphoprotein]]~~	+
-	~~[[Category: Purine]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Udp~~]]	+

OCA at 07:16, 10 November 2021

OCA — Wed, 10 Nov 2021 07:16:17 GMT

←Older revision		Revision as of 07:16, 10 November 2021
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	==C4S dCK variant of dCK in complex with cladribine+UDP==		==C4S dCK variant of dCK in complex with cladribine+UDP==
-	<StructureSection load='2zia' size='340' side='right' caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='2zia' size='340' side='right'caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [~~http~~://pdbe.org/2zia PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zia PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zia 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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [https://pdbe.org/2zia PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [https://www.ebi.ac.uk/pdbsum/2zia PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zia ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DCK_HUMAN DCK_HUMAN]] Required for the phosphorylation of the deoxyribonucleosides deoxycytidine (dC), deoxyguanosine (dG) and deoxyadenosine (dA). Has broad substrate specificity, and does not display selectivity based on the chirality of the substrate. It is also an essential enzyme for the phosphorylation of numerous nucleoside analogs widely employed as antiviral and chemotherapeutic agents.<ref>PMID:18377927</ref> <ref>PMID:20614893</ref>	+	[[https://www.uniprot.org/uniprot/DCK_HUMAN DCK_HUMAN]] Required for the phosphorylation of the deoxyribonucleosides deoxycytidine (dC), deoxyguanosine (dG) and deoxyadenosine (dA). Has broad substrate specificity, and does not display selectivity based on the chirality of the substrate. It is also an essential enzyme for the phosphorylation of numerous nucleoside analogs widely employed as antiviral and chemotherapeutic agents.<ref>PMID:18377927</ref> <ref>PMID:20614893</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:

	==See Also==		==See Also==
-	*[[Deoxycytidine kinase\|Deoxycytidine kinase]]	+	*[[Deoxycytidine kinase 3D structures\|Deoxycytidine kinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 40:		Line 40:
	[[Category: Deoxycytidine kinase]]		[[Category: Deoxycytidine kinase]]
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Lavie, A]]		[[Category: Lavie, A]]
	[[Category: Sabini, E]]		[[Category: Sabini, E]]

OCA at 07:12, 18 October 2018

OCA — Thu, 18 Oct 2018 07:12:19 GMT

←Older revision		Revision as of 07:12, 18 October 2018
Line 1:		Line 1:
		+
	==C4S dCK variant of dCK in complex with cladribine+UDP==		==C4S dCK variant of dCK in complex with cladribine+UDP==
	<StructureSection load='2zia' size='340' side='right' caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2zia' size='340' side='right' caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://pdbe.org/2zia PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia 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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://pdbe.org/2zia PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zia ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zi/2zia_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zi/2zia_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 20:11, 8 February 2016

OCA — Mon, 08 Feb 2016 20:11:37 GMT

←Older revision		Revision as of 20:11, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='2zia' size='340' side='right' caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2zia' size='340' side='right' caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia 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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://pdbe.org/2zia PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<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=2zia ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 2zia" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[ATPase\|ATPase]]
	*[[Deoxycytidine kinase\|Deoxycytidine kinase]]		*[[Deoxycytidine kinase\|Deoxycytidine kinase]]
	== References ==		== References ==
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Deoxycytidine kinase]]		[[Category: Deoxycytidine kinase]]
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Lavie, A]]		[[Category: Lavie, A]]
	[[Category: Sabini, E]]		[[Category: Sabini, E]]

OCA at 01:51, 25 December 2014

OCA — Thu, 25 Dec 2014 01:51:28 GMT

←Older revision		Revision as of 01:51, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia 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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DCK_HUMAN DCK_HUMAN]] Required for the phosphorylation of the deoxyribonucleosides deoxycytidine (dC), deoxyguanosine (dG) and deoxyadenosine (dA). Has broad substrate specificity, and does not display selectivity based on the chirality of the substrate. It is also an essential enzyme for the phosphorylation of numerous nucleoside analogs widely employed as antiviral and chemotherapeutic agents.<ref>PMID:18377927</ref> <ref>PMID:20614893</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 39:
	[[Category: Deoxycytidine kinase]]		[[Category: Deoxycytidine kinase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Lavie, A.]]	+	[[Category: Lavie, A]]
-	[[Category: Sabini, E.]]	+	[[Category: Sabini, E]]
	[[Category: 2-chloro-2'-deoxyadenosine]]		[[Category: 2-chloro-2'-deoxyadenosine]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
Line 44:		Line 46:
	[[Category: Dck]]		[[Category: Dck]]
	[[Category: Deoxyadenosine analog]]		[[Category: Deoxyadenosine analog]]
-	[[Category: Deoxycytidine kinase]]
	[[Category: Nucleoside]]		[[Category: Nucleoside]]
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]

OCA at 04:57, 2 October 2014

OCA — Thu, 02 Oct 2014 04:57:26 GMT

←Older revision		Revision as of 04:57, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2zia.~~png~~\|~~left~~\|200px]]	+	==C4S dCK variant of dCK in complex with cladribine+UDP==
		+	<StructureSection load='2zia' size='340' side='right' caption='[[2zia]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zia]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZIA FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL9:2-CHLORO-2-DEOXYADENOSINE'>CL9</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p60\|1p60]], [[2no1\|2no1]], [[2no7\|2no7]], [[2zi3\|2zi3]], [[2zi4\|2zi4]], [[2zi5\|2zi5]], [[2zi6\|2zi6]], [[2zi7\|2zi7]], [[2zi9\|2zi9]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DCK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxycytidine_kinase Deoxycytidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.74 2.7.1.74] </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=2zia FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zia OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zia RCSB], [http://www.ebi.ac.uk/pdbsum/2zia 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/zi/2zia_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 ==
		+	Purine nucleoside analogues of medicinal importance, such as cladribine, require phosphorylation by deoxycytidine kinase (dCK) for pharmacological activity. Structural studies of ternary complexes of human dCK show that the enzyme conformation adjusts to the different hydrogen-bonding properties between dA and dG and to the presence of substituent at the 2-position present in dG and cladribine. Specifically, the carbonyl group in dG elicits a previously unseen conformational adjustment of the active site residues Arg104 and Asp133. In addition, dG and cladribine adopt the anti conformation, in contrast to the syn conformation observed with dA. Kinetic analysis reveals that cladribine is phosphorylated at the highest efficiency with UTP as donor. We attribute this to the ability of cladribine to combine advantageous properties from dA (favorable hydrogen-bonding pattern) and dG (propensity to bind to the enzyme in its anti conformation), suggesting that dA analogues with a substituent at the 2-position are likely to be better activated by human dCK.

-	~~{{STRUCTURE_2zia\| PDB=2zia \| SCENE= }}~~	+	Elucidation of Different Binding Modes of Purine Nucleosides to Human Deoxycytidine Kinase.,Sabini E, Hazra S, Konrad M, Lavie A J Med Chem. 2008 Jun 21;. PMID:18570408<ref>PMID:18570408</ref>

-	~~===C4S dCK variant~~ of ~~dCK in complex with cladribine+UDP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_18570408}}~~	+	==See Also==
-		+	*[[ATPase\|ATPase]]
-	==~~About this Structure~~==	+	*[[Deoxycytidine kinase\|Deoxycytidine kinase]]
-	[[~~2zia~~]] ~~is a 2 chain structure with sequence from~~ [~~http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens~~]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA~~].	+	== References ==
-		+	<references/>
-	==~~Reference~~==	+	__TOC__
-	<~~ref group="xtra">PMID:018570408<~~/~~ref~~><~~references group="xtra"~~/>	+	</StructureSection>
	[[Category: Deoxycytidine kinase]]		[[Category: Deoxycytidine kinase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]

OCA: Protected "2zia" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 22:10:10 GMT

Protected "2zia" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:10, 7 January 2013

OCA at 22:10, 7 January 2013

OCA — Mon, 07 Jan 2013 22:10:07 GMT

←Older revision		Revision as of 22:10, 7 January 2013
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-	{{Seed}}
	[[Image:2zia.png\|left\|200px]]		[[Image:2zia.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zia", 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.
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	{{STRUCTURE_2zia\| PDB=2zia \| SCENE= }}		{{STRUCTURE_2zia\| PDB=2zia \| SCENE= }}

	===C4S dCK variant of dCK in complex with cladribine+UDP===		===C4S dCK variant of dCK in complex with cladribine+UDP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18570408}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18570408 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_18570408}}		{{ABSTRACT_PUBMED_18570408}}

	==About this Structure==		==About this Structure==
-	~~2ZIA~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA].	+	[[2zia]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18570408~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018570408</ref><references group="xtra"/>
	[[Category: Deoxycytidine kinase]]		[[Category: Deoxycytidine kinase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
Line 41:		Line 29:
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Udp]]		[[Category: Udp]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 02:44:44 2009''

OCA at 00:44, 17 February 2009

OCA — Tue, 17 Feb 2009 00:44:45 GMT

←Older revision		Revision as of 00:44, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2ZIA is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA].	+	2ZIA is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZIA OCA].

	==Reference==		==Reference==
-	~~Elucidation of Different Binding Modes of Purine Nucleosides to Human Deoxycytidine Kinase., Sabini E, Hazra S, Konrad M, Lavie A, J Med Chem. 2008 Jun 21;.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18570408 18570408]~~	+	<ref group="xtra">PMID:18570408</ref><references group="xtra"/>
	[[Category: Deoxycytidine kinase]]		[[Category: Deoxycytidine kinase]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Lavie, A.]]		[[Category: Lavie, A.]]
	[[Category: Sabini, E.]]		[[Category: Sabini, E.]]
Line 43:		Line 42:
	[[Category: Udp]]		[[Category: Udp]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 06~~:26:~~22 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 02:44:44 2009''

OCA at 03:26, 28 July 2008

OCA — Mon, 28 Jul 2008 03:26:28 GMT

←Older revision		Revision as of 03:26, 28 July 2008
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	{{Seed}}		{{Seed}}
-	[[Image:2zia.~~jpg~~\|left\|200px]]	+	[[Image:2zia.png\|left\|200px]]

	<!--		<!--
Line 43:		Line 43:
	[[Category: Udp]]		[[Category: Udp]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed~~ Jul ~~9 10~~:36:02 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 06:26:22 2008''