2qvn - Revision history

OCA at 11:41, 30 August 2023

OCA — Wed, 30 Aug 2023 11:41:41 GMT

←Older revision		Revision as of 11:41, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2qvn' size='340' side='right'caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>		<StructureSection load='2qvn' size='340' side='right'caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Plavs Plavs~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QVN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_vivax_Sal-1 Plasmodium vivax Sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QVN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>~~, ~~<scene name='pdbligand=NHE:2-~~[~~N-CYCLOHEXYLAMINO~~]~~ETHANE+SULFONIC+ACID'>NHE</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]] 2.19Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2pgf\|2pgf]]~~, ~~[[2pgr\|2pgr]]~~<~~/div></td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">Pv111245, PVX_111245 (~~[~~https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS~~]~~)</td></tr>~~	+
-	~~<tr id='activity~~'>~~<td class="sblockLbl"><b>Activity:~~</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [https://pdbe.org/2qvn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [https://www.ebi.ac.uk/pdbsum/2qvn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qvn 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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [https://pdbe.org/2qvn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [https://www.ebi.ac.uk/pdbsum/2qvn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qvn ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ADA_PLAVS ADA_PLAVS] Catalyzes the hydrolytic deamination of adenosine to produce inosine (PubMed:19728741). Unlike mammalian adenosine deaminases, also catalyzes the deamination of 5'-methylthioadenosine (MTA), a by-product of polyamine biosynthesis, to produce 5'-methylthioinosine (MTI) (PubMed:19728741). Plays an essential role in the purine salvage pathway which allows the parasite to use host cell purines for the synthesis of nucleic acids (PubMed:19728741).<ref>PMID:19728741</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Adenosine deaminase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Plavs~~]]	+	[[Category: Plasmodium vivax Sal-1]]
-	[[Category: Larson~~, E T~~]]	+	[[Category: Larson ET]]
-	[[Category: Merritt~~, E A]]~~	+	[[Category: Merritt EA]]
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Malaria]]~~	+
-	~~[[Category: Metallo-dependent hydrolase]]~~	+
-	~~[[Category: Msgpp]]~~	+
-	~~[[Category: Plasmodium]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Tim barrel~~]]	+

OCA at 04:07, 2 July 2021

OCA — Fri, 02 Jul 2021 04:07:26 GMT

←Older revision		Revision as of 04:07, 2 July 2021
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	==Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine==		==Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine==
-	<StructureSection load='2qvn' size='340' side='right' caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>	+	<StructureSection load='2qvn' size='340' side='right'caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Plavs Plavs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2QVN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Plavs Plavs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QVN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pgf\|2pgf]], [[2pgr\|2pgr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2pgf\|2pgf]], [[2pgr\|2pgr]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [~~http~~://pdbe.org/2qvn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2qvn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2qvn 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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [https://pdbe.org/2qvn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [https://www.ebi.ac.uk/pdbsum/2qvn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qvn ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qv/2qvn_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qv/2qvn_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>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 2qvn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2qvn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Adenosine deaminase 3D structures\|Adenosine deaminase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Adenosine deaminase]]		[[Category: Adenosine deaminase]]
		+	[[Category: Large Structures]]
	[[Category: Plavs]]		[[Category: Plavs]]
	[[Category: Larson, E T]]		[[Category: Larson, E T]]

OCA at 07:37, 25 October 2017

OCA — Wed, 25 Oct 2017 07:37:17 GMT

←Older revision		Revision as of 07:37, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine==		==Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine==
	<StructureSection load='2qvn' size='340' side='right' caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>		<StructureSection load='2qvn' size='340' side='right' caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>
Line 8:		Line 9:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://pdbe.org/2qvn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn 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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://pdbe.org/2qvn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qvn ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</div>		</div>
	<div class="pdbe-citations 2qvn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2qvn" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Adenosine deaminase\|Adenosine deaminase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:24, 7 February 2016

OCA — Sun, 07 Feb 2016 07:24:39 GMT

←Older revision		Revision as of 07:24, 7 February 2016
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	<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=2qvn ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:08, 9 September 2015

OCA — Wed, 09 Sep 2015 23:08:55 GMT

←Older revision		Revision as of 23:08, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='2qvn' size='340' side='right' caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>		<StructureSection load='2qvn' size='340' side='right' caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Plasmodium_vivax_sal-1 Plasmodium vivax sal-1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QVN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Plavs Plavs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QVN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pgf\|2pgf]], [[2pgr\|2pgr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pgf\|2pgf]], [[2pgr\|2pgr]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 ~~Plasmodium vivax Sal-1~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn 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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://pdbe.org/2qvn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	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 2qvn" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Adenosine deaminase]]		[[Category: Adenosine deaminase]]
-	[[Category: ~~Plasmodium vivax sal-1~~]]	+	[[Category: Plavs]]
	[[Category: Larson, E T]]		[[Category: Larson, E T]]
	[[Category: Merritt, E A]]		[[Category: Merritt, E A]]

OCA at 16:57, 19 January 2015

OCA — Mon, 19 Jan 2015 16:57:07 GMT

←Older revision		Revision as of 16:57, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_vivax_sal-1 Plasmodium vivax sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QVN FirstGlance]. <br>		<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_vivax_sal-1 Plasmodium vivax sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QVN FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pgf\|2pgf]], [[2pgr\|2pgr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pgf\|2pgf]], [[2pgr\|2pgr]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 Plasmodium vivax Sal-1])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 Plasmodium vivax Sal-1])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn 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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 37:
	[[Category: Adenosine deaminase]]		[[Category: Adenosine deaminase]]
	[[Category: Plasmodium vivax sal-1]]		[[Category: Plasmodium vivax sal-1]]
-	[[Category: Larson, E T.]]	+	[[Category: Larson, E T]]
-	[[Category: Merritt, E A.]]	+	[[Category: Merritt, E A]]
-	[[Category: ~~SGPP,~~ Structural ~~Genomics of Pathogenic Protozoa Consortium.~~]]	+	[[Category: Structural genomic]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Malaria]]		[[Category: Malaria]]
-	[[Category: Medical structural genomics of pathogenic protozoa consortium]]
	[[Category: Metallo-dependent hydrolase]]		[[Category: Metallo-dependent hydrolase]]
	[[Category: Msgpp]]		[[Category: Msgpp]]
	[[Category: Plasmodium]]		[[Category: Plasmodium]]
-	[[Category: Protein structure initiative]]	+	[[Category: PSI, Protein structure initiative]]
-	~~[[Category: Psi]]~~	+
-	~~[[Category: Structural genomic~~]]	+
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

OCA at 19:33, 30 September 2014

OCA — Tue, 30 Sep 2014 19:33:09 GMT

←Older revision		Revision as of 19:33, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2qvn.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine==
		+	<StructureSection load='2qvn' size='340' side='right' caption='[[2qvn]], [[Resolution\|resolution]] 2.19Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2qvn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_vivax_sal-1 Plasmodium vivax sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QVN FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pgf\|2pgf]], [[2pgr\|2pgr]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pv111245, PVX_111245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 Plasmodium vivax Sal-1])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] </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=2qvn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qvn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qvn RCSB], [http://www.ebi.ac.uk/pdbsum/2qvn 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/qv/2qvn_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 ==
		+	Plasmodium and other apicomplexan parasites are deficient in purine biosynthesis, relying instead on the salvage of purines from their host environment. Therefore, interference with the purine salvage pathway is an attractive therapeutic target. The plasmodial enzyme adenosine deaminase (ADA) plays a central role in purine salvage and, unlike mammalian ADA homologs, has a further secondary role in methylthiopurine recycling. For this reason, plasmodial ADA accepts a wider range of substrates, as it is responsible for deamination of both adenosine and 5'-methylthioadenosine. The latter substrate is not accepted by mammalian ADA homologs. The structural basis for this natural difference in specificity between plasmodial and mammalian ADA has not been well understood. We now report crystal structures of Plasmodium vivax ADA in complex with adenosine, guanosine, and the picomolar inhibitor 2'-deoxycoformycin. These structures highlight a drastic conformational change in plasmodial ADA upon substrate binding that has not been observed for mammalian ADA enzymes. Further, these complexes illuminate the structural basis for the differential substrate specificity and potential drug selectivity between mammalian and parasite enzymes.

-	~~{{STRUCTURE_2qvn\| PDB=2qvn \| SCENE= }}~~	+	Structures of substrate- and inhibitor-bound adenosine deaminase from a human malaria parasite show a dramatic conformational change and shed light on drug selectivity.,Larson ET, Deng W, Krumm BE, Napuli A, Mueller N, Van Voorhis WC, Buckner FS, Fan E, Lauricella A, DeTitta G, Luft J, Zucker F, Hol WG, Verlinde CL, Merritt EA J Mol Biol. 2008 Sep 12;381(4):975-88. Epub 2008 Jun 24. PMID:18602399<ref>PMID:18602399</ref>

-	~~===Crystal structure~~ of ~~adenosine deaminase from Plasmodium vivax in complex with guanosine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_18602399}}~~	+	==See Also==
-		+	*[[Adenosine deaminase\|Adenosine deaminase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2qvn~~]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_vivax_sal-1 Plasmodium vivax sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:018602399<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Adenosine deaminase]]		[[Category: Adenosine deaminase]]
	[[Category: Plasmodium vivax sal-1]]		[[Category: Plasmodium vivax sal-1]]

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

OCA — Mon, 07 Jan 2013 19:39:11 GMT

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

←Older revision

Revision as of 19:39, 7 January 2013

OCA at 19:39, 7 January 2013

OCA — Mon, 07 Jan 2013 19:39:07 GMT

←Older revision		Revision as of 19:39, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2qvn.png\|left\|200px]]		[[Image:2qvn.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2qvn", 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_2qvn\| PDB=2qvn \| SCENE= }}		{{STRUCTURE_2qvn\| PDB=2qvn \| SCENE= }}

	===Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine===		===Crystal structure of adenosine deaminase from Plasmodium vivax in complex with guanosine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18602399}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18602399 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18602399}}		{{ABSTRACT_PUBMED_18602399}}

	==About this Structure==		==About this Structure==
-	~~2QVN~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/~~Eukaryota Eukaryota~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA].	+	[[2qvn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_vivax_sal-1 Plasmodium vivax sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18602399~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018602399</ref><references group="xtra"/>
	[[Category: Adenosine deaminase]]		[[Category: Adenosine deaminase]]
-	[[Category: ~~Eukaryota~~]]	+	[[Category: Plasmodium vivax sal-1]]
	[[Category: Larson, E T.]]		[[Category: Larson, E T.]]
	[[Category: Merritt, E A.]]		[[Category: Merritt, E A.]]
	[[Category: SGPP, Structural Genomics of Pathogenic Protozoa Consortium.]]		[[Category: SGPP, Structural Genomics of Pathogenic Protozoa Consortium.]]
		+	[[Category: Hydrolase]]
	[[Category: Malaria]]		[[Category: Malaria]]
	[[Category: Medical structural genomics of pathogenic protozoa consortium]]		[[Category: Medical structural genomics of pathogenic protozoa consortium]]
Line 38:		Line 27:
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Tim barrel]]		[[Category: Tim barrel]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 12:15:05 2009''

OCA at 10:15, 16 February 2009

OCA — Mon, 16 Feb 2009 10:15:08 GMT

←Older revision		Revision as of 10:15, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2QVN is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Eukaryota Eukaryota]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA].	+	2QVN is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Eukaryota Eukaryota]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QVN OCA].

	==Reference==		==Reference==
-	Structures of substrate- and inhibitor-bound adenosine deaminase from a human malaria parasite show a dramatic conformational change and shed light on drug selectivity., Larson ET, Deng W, Krumm BE, Napuli A, Mueller N, Van Voorhis WC, Buckner FS, Fan E, Lauricella A, DeTitta G, Luft J, Zucker F, Hol WG, Verlinde CL, Merritt EA, J Mol Biol. 2008 Sep 12;381(4):975-88. Epub 2008 Jun 24. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18602399 18602399]~~	+	<ref group="xtra">PMID:18602399</ref><references group="xtra"/>
	[[Category: Adenosine deaminase]]		[[Category: Adenosine deaminase]]
	[[Category: Eukaryota]]		[[Category: Eukaryota]]
-	[[Category: Single protein]]
	[[Category: Larson, E T.]]		[[Category: Larson, E T.]]
	[[Category: Merritt, E A.]]		[[Category: Merritt, E A.]]
Line 40:		Line 39:
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Aug 20 11~~:28:~~08 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 12:15:05 2009''