3e6j - Revision history

OCA at 12:58, 30 August 2023

OCA — Wed, 30 Aug 2023 12:58:50 GMT

←Older revision		Revision as of 12:58, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='3e6j' size='340' side='right'caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>		<StructureSection load='3e6j' size='340' side='right'caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Petma Petma~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E6J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E6J FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~"><~~scene name='pdbligand=GOL:GLYCEROL'~~>~~GOL~~</~~scene~~>, <~~scene name~~='~~pdbligand~~=~~SO4~~:~~SULFATE+ION'~~>~~SO4~~</~~scene~~>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 1.67Å</td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">VLR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 PETMA])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900036:H+type+2+antigen,+beta+anomer'>PRD_900036</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [https://pdbe.org/3e6j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [https://www.ebi.ac.uk/pdbsum/3e6j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e6j 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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [https://pdbe.org/3e6j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [https://www.ebi.ac.uk/pdbsum/3e6j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e6j ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2VGE8_PETMA Q2VGE8_PETMA]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Petma~~]]	+	[[Category: Petromyzon marinus]]
-	[[Category: Cooper~~, M D~~]]	+	[[Category: Cooper MD]]
-	[[Category: Han~~, B W~~]]	+	[[Category: Han BW]]
-	[[Category: Herrin~~, B R~~]]	+	[[Category: Herrin BR]]
-	[[Category: Wilson~~, I A]]~~	+	[[Category: Wilson IA]]
-	~~[[Category: Adaptive immunity]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Jawless fish]]~~	+
-	~~[[Category: Leucine-rich repeat]]~~	+
-	~~[[Category: Lrr]]~~	+
-	~~[[Category: Receptor]]~~	+
-	~~[[Category: Sea lamprey]]~~	+
-	~~[[Category: Variable lymphocyte receptor]]~~	+
-	~~[[Category: Vlr~~]]	+

OCA at 11:41, 16 February 2022

OCA — Wed, 16 Feb 2022 11:41:32 GMT

←Older revision		Revision as of 11:41, 16 February 2022
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	==Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide==		==Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide==
-	<StructureSection load='3e6j' size='340' side='right' caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>	+	<StructureSection load='3e6j' size='340' side='right'caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Petma Petma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3E6J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Petma Petma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E6J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~DR2~~:~~6-DEOXY-~~ALPHA-L-~~IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE~~'>~~DR2~~</scene>, <scene name='pdbligand=~~GOL~~:~~GLYCEROL~~'>~~GOL~~</scene>, <scene name='pdbligand=~~SO4~~:~~SULFATE+ION~~'>~~SO4~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 PETMA])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 PETMA])</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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [~~http~~://pdbe.org/3e6j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3e6j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3e6j 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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [https://pdbe.org/3e6j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [https://www.ebi.ac.uk/pdbsum/3e6j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e6j ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 30:		Line 30:
	==See Also==		==See Also==
	*[[Lamprey Variable Lymphocyte Receptor\|Lamprey Variable Lymphocyte Receptor]]		*[[Lamprey Variable Lymphocyte Receptor\|Lamprey Variable Lymphocyte Receptor]]
-	*[[Variable lymphocyte receptor\|Variable lymphocyte receptor]]	+	*[[Variable lymphocyte receptor 3D structures\|Variable lymphocyte receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Petma]]		[[Category: Petma]]
	[[Category: Cooper, M D]]		[[Category: Cooper, M D]]

OCA at 21:26, 2 December 2018

OCA — Sun, 02 Dec 2018 21:26:51 GMT

←Older revision		Revision as of 21:26, 2 December 2018
Line 1:		Line 1:
		+
	==Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide==		==Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide==
	<StructureSection load='3e6j' size='340' side='right' caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>		<StructureSection load='3e6j' size='340' side='right' caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 PETMA])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 PETMA])</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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://pdbe.org/3e6j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j 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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://pdbe.org/3e6j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3e6j ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e6/3e6j_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e6/3e6j_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 16:06, 8 February 2016

OCA — Mon, 08 Feb 2016 16:06:22 GMT

←Older revision		Revision as of 16:06, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3e6j' size='340' side='right' caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>		<StructureSection load='3e6j' size='340' side='right' caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Petromyzon_marinus Petromyzon marinus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E6J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Petma Petma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E6J FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 ~~Petromyzon marinus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 PETMA])</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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j 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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://pdbe.org/3e6j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<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=3e6j ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 25:
	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 3e6j" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Petromyzon marinus~~]]	+	[[Category: Petma]]
	[[Category: Cooper, M D]]		[[Category: Cooper, M D]]
	[[Category: Han, B W]]		[[Category: Han, B W]]

OCA at 07:44, 20 January 2015

OCA — Tue, 20 Jan 2015 07:44:34 GMT

←Older revision		Revision as of 07:44, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E6J FirstGlance]. <br>		<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E6J FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 Petromyzon marinus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 Petromyzon marinus])</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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j 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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j 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 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Petromyzon marinus]]		[[Category: Petromyzon marinus]]
-	[[Category: Cooper, M D.]]	+	[[Category: Cooper, M D]]
-	[[Category: Han, B W.]]	+	[[Category: Han, B W]]
-	[[Category: Herrin, B R.]]	+	[[Category: Herrin, B R]]
-	[[Category: Wilson, I A.]]	+	[[Category: Wilson, I A]]
	[[Category: Adaptive immunity]]		[[Category: Adaptive immunity]]
	[[Category: Immune system]]		[[Category: Immune system]]

OCA at 10:52, 29 September 2014

OCA — Mon, 29 Sep 2014 10:52:23 GMT

←Older revision		Revision as of 10:52, 29 September 2014
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-	[[~~Image:~~3e6j.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide==
		+	<StructureSection load='3e6j' size='340' side='right' caption='[[3e6j]], [[Resolution\|resolution]] 1.67Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3e6j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3E6J FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DR2:6-DEOXY-ALPHA-L-IDOPYRANOSYL-(1- 2)-ALPHA-D-GLUCOPYRANOSYL-(1- 4)-2-(ACETYLAMINO)-2-DEOXY-BETA-L-GULOPYRANOSE'>DR2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7757 Petromyzon marinus])</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=3e6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e6j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3e6j RCSB], [http://www.ebi.ac.uk/pdbsum/3e6j 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/e6/3e6j_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 ==
		+	Variable lymphocyte receptors (VLRs) rather than antibodies play the primary role in recognition of antigens in the adaptive immune system of jawless vertebrates. Combinatorial assembly of leucine-rich repeat (LRR) gene segments achieves the required repertoire for antigen recognition. We have determined a crystal structure for a VLR-antigen complex, VLR RBC36 in complex with the H-antigen trisaccharide from human blood type O erythrocytes, at 1.67 angstrom resolution. RBC36 binds the H-trisaccharide on the concave surface of the LRR modules of the solenoid structure where three key hydrophilic residues, multiple van der Waals interactions, and the highly variable insert of the carboxyl-terminal LRR module determine antigen recognition and specificity. The concave surface assembled from the most highly variable regions of the LRRs, along with diversity in the sequence and length of the highly variable insert, can account for the recognition of diverse antigens by VLRs.

-	~~{{STRUCTURE_3e6j\| PDB=3e6j \| SCENE= }}~~	+	Antigen recognition by variable lymphocyte receptors.,Han BW, Herrin BR, Cooper MD, Wilson IA Science. 2008 Sep 26;321(5897):1834-7. PMID:18818359<ref>PMID:18818359</ref>

-	~~===Crystal Structure~~ of ~~Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18818359}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3e6j]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Petromyzon_marinus Petromyzon marinus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA].~~	+

	==See Also==		==See Also==
	*[[Lamprey Variable Lymphocyte Receptor\|Lamprey Variable Lymphocyte Receptor]]		*[[Lamprey Variable Lymphocyte Receptor\|Lamprey Variable Lymphocyte Receptor]]
	*[[Variable lymphocyte receptor\|Variable lymphocyte receptor]]		*[[Variable lymphocyte receptor\|Variable lymphocyte receptor]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018818359<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Petromyzon marinus]]		[[Category: Petromyzon marinus]]
	[[Category: Cooper, M D.]]		[[Category: Cooper, M D.]]

OCA at 10:42, 20 October 2012

OCA — Sat, 20 Oct 2012 10:42:09 GMT

←Older revision		Revision as of 10:42, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[3e6j]] is a 1 chain structure ~~of [[Lamprey Variable Lymphocyte Receptor]] and [[Variable lymphocyte receptor]]~~ with sequence from [http://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA].	+	[[3e6j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Petromyzon_marinus Petromyzon marinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E6J OCA].

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

OCA at 02:58, 26 July 2012

OCA — Thu, 26 Jul 2012 02:58:36 GMT

←Older revision		Revision as of 02:58, 26 July 2012
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	[[Image:3e6j.png\|left\|200px]]		[[Image:3e6j.png\|left\|200px]]

-	<!--
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-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_3e6j\| PDB=3e6j \| SCENE= }}		{{STRUCTURE_3e6j\| PDB=3e6j \| SCENE= }}

	===Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide===		===Crystal Structure of Variable Lymphocyte Receptor (VLR) RBC36 in Complex with H-trisaccharide===

-
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OCA: Protected "3e6j" [edit=sysop:move=sysop]

OCA — Wed, 13 Jun 2012 10:41:35 GMT

Protected "3e6j" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:41, 13 June 2012