3ej5 - Revision history

OCA at 13:04, 30 August 2023

OCA — Wed, 30 Aug 2023 13:04:33 GMT

←Older revision		Revision as of 13:04, 30 August 2023
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	<StructureSection load='3ej5' size='340' side='right'caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3ej5' size='340' side='right'caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Castor_bean Castor bean~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=EJ5:4~~-[~~3-(~~2~~-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-~~5~~-YL)PROPYL]BENZOIC+ACID'>EJ5</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]] 2.5Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks'>[https~~:~~//en.wikipedia.org/wiki/rRNA_N~~-~~glycosylase rRNA N~~-~~glycosylase]~~, ~~with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22~~] </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [https://pdbe.org/3ej5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ej5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ej5 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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [https://pdbe.org/3ej5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ej5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ej5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RICI_RICCO RICI_RICCO]] Ricin is highly toxic to animal cells and to a lesser extent to plant cells. The A chain acts as a glycosidase that removes a specific adenine residue from an exposed loop of the 28S rRNA (A4324 in mammals), leading to rRNA breakage. As this loop is involved in elongation factor binding, modified ribosomes are catalytically inactive and unable to support protein synthesis. The A chain can inactivate a few thousand ribosomes per minute, faster than the cell can make new ones. Therefore a single A chain molecule can kill an animal cell. The B chain binds to beta-D-galactopyranoside moieties on cell surface glycoproteins and glycolipids and facilitates the entry into the cell of the A chain; B chains are also responsible for cell agglutination (Lectin activity).	+	[https://www.uniprot.org/uniprot/RICI_RICCO RICI_RICCO] Ricin is highly toxic to animal cells and to a lesser extent to plant cells. The A chain acts as a glycosidase that removes a specific adenine residue from an exposed loop of the 28S rRNA (A4324 in mammals), leading to rRNA breakage. As this loop is involved in elongation factor binding, modified ribosomes are catalytically inactive and unable to support protein synthesis. The A chain can inactivate a few thousand ribosomes per minute, faster than the cell can make new ones. Therefore a single A chain molecule can kill an animal cell. The B chain binds to beta-D-galactopyranoside moieties on cell surface glycoproteins and glycolipids and facilitates the entry into the cell of the A chain; B chains are also responsible for cell agglutination (Lectin activity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[Ricin\|Ricin]]	+	*[[Ricin 3D structures\|Ricin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Castor bean]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~RRNA N-glycosylase~~]]	+	[[Category: Ricinus communis]]
-	[[Category: Bai, Y]]	+	[[Category: Bai Y]]
-	[[Category: Monzingo~~, A F~~]]	+	[[Category: Monzingo AF]]
-	[[Category: Robertus~~, J D]]~~	+	[[Category: Robertus JD]]
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Plant defense]]~~	+
-	~~[[Category: Protein inhibitor complex]]~~	+
-	~~[[Category: Protein synthesis inhibitor]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 11:50, 16 February 2022

OCA — Wed, 16 Feb 2022 11:50:42 GMT

←Older revision		Revision as of 11:50, 16 February 2022
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	<StructureSection load='3ej5' size='340' side='right'caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3ej5' size='340' side='right'caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Castor_bean Castor bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Castor_bean Castor bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [~~http~~://pdbe.org/3ej5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ej5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ej5 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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [https://pdbe.org/3ej5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ej5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ej5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RICI_RICCO RICI_RICCO]] Ricin is highly toxic to animal cells and to a lesser extent to plant cells. The A chain acts as a glycosidase that removes a specific adenine residue from an exposed loop of the 28S rRNA (A4324 in mammals), leading to rRNA breakage. As this loop is involved in elongation factor binding, modified ribosomes are catalytically inactive and unable to support protein synthesis. The A chain can inactivate a few thousand ribosomes per minute, faster than the cell can make new ones. Therefore a single A chain molecule can kill an animal cell. The B chain binds to beta-D-galactopyranoside moieties on cell surface glycoproteins and glycolipids and facilitates the entry into the cell of the A chain; B chains are also responsible for cell agglutination (Lectin activity).	+	[[https://www.uniprot.org/uniprot/RICI_RICCO RICI_RICCO]] Ricin is highly toxic to animal cells and to a lesser extent to plant cells. The A chain acts as a glycosidase that removes a specific adenine residue from an exposed loop of the 28S rRNA (A4324 in mammals), leading to rRNA breakage. As this loop is involved in elongation factor binding, modified ribosomes are catalytically inactive and unable to support protein synthesis. The A chain can inactivate a few thousand ribosomes per minute, faster than the cell can make new ones. Therefore a single A chain molecule can kill an animal cell. The B chain binds to beta-D-galactopyranoside moieties on cell surface glycoproteins and glycolipids and facilitates the entry into the cell of the A chain; B chains are also responsible for cell agglutination (Lectin activity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:19, 7 August 2019

OCA — Wed, 07 Aug 2019 07:19:28 GMT

←Older revision		Revision as of 07:19, 7 August 2019
Line 1:		Line 1:

	==complex of Ricin A chain and pyrimidine-based inhibitor==		==complex of Ricin A chain and pyrimidine-based inhibitor==
-	<StructureSection load='3ej5' size='340' side='right' caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3ej5' size='340' side='right'caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Castor_bean Castor bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Castor_bean Castor bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ej/3ej5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ej/3ej5_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 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Castor bean]]		[[Category: Castor bean]]
		+	[[Category: Large Structures]]
	[[Category: RRNA N-glycosylase]]		[[Category: RRNA N-glycosylase]]
	[[Category: Bai, Y]]		[[Category: Bai, Y]]

OCA at 09:12, 25 October 2017

OCA — Wed, 25 Oct 2017 09:12:47 GMT

←Older revision		Revision as of 09:12, 25 October 2017
Line 1:		Line 1:
		+
	==complex of Ricin A chain and pyrimidine-based inhibitor==		==complex of Ricin A chain and pyrimidine-based inhibitor==
	<StructureSection load='3ej5' size='340' side='right' caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3ej5' size='340' side='right' caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://pdbe.org/3ej5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://pdbe.org/3ej5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ej5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 03:35, 9 February 2016

OCA — Tue, 09 Feb 2016 03:35:32 GMT

←Older revision		Revision as of 03:35, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3ej5' size='340' side='right' caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3ej5' size='340' side='right' caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Ricinus_communis Ricinus communis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Castor_bean Castor bean]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://pdbe.org/3ej5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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=3ej5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 3ej5" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ricinus communis~~]]	+	[[Category: Castor bean]]
	[[Category: RRNA N-glycosylase]]		[[Category: RRNA N-glycosylase]]
	[[Category: Bai, Y]]		[[Category: Bai, Y]]

OCA at 04:07, 25 December 2014

OCA — Thu, 25 Dec 2014 04:07:57 GMT

←Older revision		Revision as of 04:07, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RICI_RICCO RICI_RICCO]] Ricin is highly toxic to animal cells and to a lesser extent to plant cells. The A chain acts as a glycosidase that removes a specific adenine residue from an exposed loop of the 28S rRNA (A4324 in mammals), leading to rRNA breakage. As this loop is involved in elongation factor binding, modified ribosomes are catalytically inactive and unable to support protein synthesis. The A chain can inactivate a few thousand ribosomes per minute, faster than the cell can make new ones. Therefore a single A chain molecule can kill an animal cell. The B chain binds to beta-D-galactopyranoside moieties on cell surface glycoproteins and glycolipids and facilitates the entry into the cell of the A chain; B chains are also responsible for cell agglutination (Lectin activity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	[[Category: Ricinus communis]]		[[Category: Ricinus communis]]
	[[Category: RRNA N-glycosylase]]		[[Category: RRNA N-glycosylase]]
-	[[Category: Bai, Y.]]	+	[[Category: Bai, Y]]
-	[[Category: Monzingo, A F.]]	+	[[Category: Monzingo, A F]]
-	[[Category: Robertus, J D.]]	+	[[Category: Robertus, J D]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 12:40, 29 September 2014

OCA — Mon, 29 Sep 2014 12:40:21 GMT

←Older revision		Revision as of 12:40, 29 September 2014
Line 1:		Line 1:
-	[[~~Image~~:3ej5.~~png\|left~~\|200px]]	+	==complex of Ricin A chain and pyrimidine-based inhibitor==
		+	<StructureSection load='3ej5' size='340' side='right' caption='[[3ej5]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EJ5 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EJ5:4-[3-(2-AMINO-4-HYDROXY-6-OXO-1,6-DIHYDROPYRIMIDIN-5-YL)PROPYL]BENZOIC+ACID'>EJ5</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22] </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=3ej5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ej5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ej5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ej5 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/ej/3ej5_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 ==
		+	Ricin is a potent heterodimeric cytotoxin; the B chain binds eucaryotic cell surfaces aiding uptake and the A chain, RTA, reaches the cytoplasm where it enzymatically depurinates a key ribosomal adenine, inhibiting protein synthesis. Ricin is known to be an agent in bioterrorist repertoires and there is great interest in finding, or creating, efficacious inhibitors of the toxin as potential antidotes. We have previously identified two families of bicyclic RTA inhibitors, pterins and purines. Both classes have poor solubility which impairs inhibitor development. Here we report the use of 2-amino-4,6-dihydroxy-pyrimidines as RTA inhibitors. Unlike previously observed single ring inhibitor platforms, these displace Tyr 80 and bind deep in the RTA specificity pocket. These compounds are at least 10 times more soluble than pterin-based inhibitors and appear to be useful new class of ricin inhibitors.

-	~~{{STRUCTURE_3ej5\| PDB=3ej5 \| SCENE= }}~~	+	The X-ray structure of ricin A chain with a novel inhibitor.,Bai Y, Monzingo AF, Robertus JD Arch Biochem Biophys. 2009 Mar 1;483(1):23-8. Epub 2008 Dec 30. PMID:19138659<ref>PMID:19138659</ref>

-	~~===complex~~ of ~~Ricin A chain and pyrimidine-based inhibitor===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19138659}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3ej5]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Ricinus_communis Ricinus communis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA].~~	+

	==See Also==		==See Also==
	*[[Ricin\|Ricin]]		*[[Ricin\|Ricin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019138659<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Ricinus communis]]		[[Category: Ricinus communis]]
	[[Category: RRNA N-glycosylase]]		[[Category: RRNA N-glycosylase]]

OCA at 12:30, 20 October 2012

OCA — Sat, 20 Oct 2012 12:30:07 GMT

←Older revision		Revision as of 12:30, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3ej5]] is a 1 chain structure ~~of [[Ricin]]~~ with sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA].	+	[[3ej5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA].

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

OCA: Protected "3ej5" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 08:55:38 GMT

Protected "3ej5" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:55, 26 July 2012

OCA at 08:55, 26 July 2012

OCA — Thu, 26 Jul 2012 08:55:36 GMT

←Older revision		Revision as of 08:55, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3ej5.png\|left\|200px]]		[[Image:3ej5.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ej5", 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_3ej5\| PDB=3ej5 \| SCENE= }}		{{STRUCTURE_3ej5\| PDB=3ej5 \| SCENE= }}

	===complex of Ricin A chain and pyrimidine-based inhibitor===		===complex of Ricin A chain and pyrimidine-based inhibitor===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19138659}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19138659 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19138659}}		{{ABSTRACT_PUBMED_19138659}}

	==About this Structure==		==About this Structure==
-	~~3EJ5~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA].	+	[[3ej5]] is a 1 chain structure of [[Ricin]] with sequence from [http://en.wikipedia.org/wiki/Ricinus_communis Ricinus communis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EJ5 OCA].
		+
		+	==See Also==
		+	*[[Ricin\|Ricin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19138659~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019138659</ref><references group="xtra"/>
	[[Category: Ricinus communis]]		[[Category: Ricinus communis]]
	[[Category: RRNA N-glycosylase]]		[[Category: RRNA N-glycosylase]]
Line 37:		Line 28:
	[[Category: Protein synthesis inhibitor]]		[[Category: Protein synthesis inhibitor]]
	[[Category: Toxin]]		[[Category: Toxin]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 6 10:53:50 2009''