2dvb - Revision history

OCA at 08:30, 25 October 2023

2023-10-25T08:30:43Z

←Older revision		Revision as of 08:30, 25 October 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DVB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN~~</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4~~</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</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]] 2.25Å</td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;~~'>~~[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [https://pdbe.org/2dvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [https://www.ebi.ac.uk/pdbsum/2dvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dvb 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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [https://pdbe.org/2dvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [https://www.ebi.ac.uk/pdbsum/2dvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dvb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/LECG_ARAHY LECG_ARAHY]] D-galactose specific lectin.	+	[https://www.uniprot.org/uniprot/LECG_ARAHY LECG_ARAHY] D-galactose specific lectin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 39:		Line 39:
	[[Category: Arachis hypogaea]]		[[Category: Arachis hypogaea]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jayaraman, N]]	+	[[Category: Jayaraman N]]
-	[[Category: Mitra, N]]	+	[[Category: Mitra N]]
-	[[Category: Natchiar~~, S K~~]]	+	[[Category: Natchiar SK]]
-	[[Category: Srinivas, O]]	+	[[Category: Srinivas O]]
-	[[Category: Surolia, A]]	+	[[Category: Surolia A]]
-	[[Category: Vijayan, M]]	+	[[Category: Vijayan M]]
-	~~[[Category: Agglutinin]]~~	+
-	~~[[Category: Carbohydrate specificity]]~~	+
-	~~[[Category: Legume lectin]]~~	+
-	~~[[Category: Open quaternary structure]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 17:17, 15 December 2021

2021-12-15T17:17:01Z

←Older revision		Revision as of 17:17, 15 December 2021
Line 3:		Line 3:
	<StructureSection load='2dvb' size='340' side='right'caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='2dvb' size='340' side='right'caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2DVB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DVB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=~~NGA~~:~~N-ACETYL-D-GALACTOSAMINE~~'>~~NGA~~</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</div></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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [~~http~~://pdbe.org/2dvb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2dvb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2dvb 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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [https://pdbe.org/2dvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [https://www.ebi.ac.uk/pdbsum/2dvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dvb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/LECG_ARAHY LECG_ARAHY]] D-galactose specific lectin.	+	[[https://www.uniprot.org/uniprot/LECG_ARAHY LECG_ARAHY]] D-galactose specific lectin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:21, 11 March 2020

2020-03-11T08:21:27Z

←Older revision		Revision as of 08:21, 11 March 2020
Line 1:		Line 1:

	==Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex==		==Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex==
-	<StructureSection load='2dvb' size='340' side='right' caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='2dvb' size='340' side='right'caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
		+	*[[Agglutinin 3D structures\|Agglutinin 3D structures]]
	*[[Galactose-binding lectin\|Galactose-binding lectin]]		*[[Galactose-binding lectin\|Galactose-binding lectin]]
	== References ==		== References ==
Line 37:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Arachis hypogaea]]		[[Category: Arachis hypogaea]]
		+	[[Category: Large Structures]]
	[[Category: Jayaraman, N]]		[[Category: Jayaraman, N]]
	[[Category: Mitra, N]]		[[Category: Mitra, N]]

OCA at 06:33, 6 June 2018

2018-06-06T06:33:58Z

←Older revision		Revision as of 06:33, 6 June 2018
Line 1:		Line 1:
		+
	==Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex==		==Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex==
	<StructureSection load='2dvb' size='340' side='right' caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='2dvb' size='340' side='right' caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=~~SO4~~:~~SULFATE+ION~~'>~~SO4~~</scene>, <scene name='pdbligand=~~NGA~~:~~N-ACETYL-D-GALACTOSAMINE~~'>~~NGA~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://pdbe.org/2dvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb 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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://pdbe.org/2dvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2dvb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/2dvb_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/2dvb_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>
	</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=2dvb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:12, 11 September 2015

2015-09-11T11:12:42Z

←Older revision		Revision as of 11:12, 11 September 2015
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb 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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://pdbe.org/2dvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2dvb" style="background-color:#fffaf0;"></div>

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

OCA at 15:40, 25 December 2014

2014-12-25T15:40:34Z

←Older revision		Revision as of 15:40, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb 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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LECG_ARAHY LECG_ARAHY]] D-galactose specific lectin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Arachis hypogaea]]		[[Category: Arachis hypogaea]]
-	[[Category: Jayaraman, N.]]	+	[[Category: Jayaraman, N]]
-	[[Category: Mitra, N.]]	+	[[Category: Mitra, N]]
-	[[Category: Natchiar, S K.]]	+	[[Category: Natchiar, S K]]
-	[[Category: Srinivas, O.]]	+	[[Category: Srinivas, O]]
-	[[Category: Surolia, A.]]	+	[[Category: Surolia, A]]
-	[[Category: Vijayan, M.]]	+	[[Category: Vijayan, M]]
	[[Category: Agglutinin]]		[[Category: Agglutinin]]
	[[Category: Carbohydrate specificity]]		[[Category: Carbohydrate specificity]]

OCA at 00:44, 30 September 2014

2014-09-30T00:44:15Z

←Older revision		Revision as of 00:44, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2dvb.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex==
		+	<StructureSection load='2dvb' size='340' side='right' caption='[[2dvb]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DVB FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2pel\|2pel]], [[2tep\|2tep]], [[1v6i\|1v6i]], [[1v6j\|1v6j]], [[1v6k\|1v6k]], [[2dh1\|2dh1]], [[2dv9\|2dv9]], [[2dva\|2dva]], [[2dvd\|2dvd]], [[2dvf\|2dvf]], [[2dvg\|2dvg]]</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=2dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dvb RCSB], [http://www.ebi.ac.uk/pdbsum/2dvb 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/dv/2dvb_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 ==
		+	Crystal structures of peanut lectin complexed with Galbeta1-3Gal, methyl-T-antigen, Galbeta1-6GalNAc, Galalpha1-3Gal and Galalpha1-6Glc and that of a crystal grown in the presence of Galalpha1-3Galbeta1-4Gal have been determined using data collected at 100 K. The use of water bridges as a strategy for generating carbohydrate specificity was previously deduced from the complexes of the lectin with lactose (Galbeta1-4Glc) and T-antigen (Galbeta1-3GalNAc). This has been confirmed by the analysis of the complexes with Galbeta1-3Gal and methyl-T-antigen (Galbeta1-3GalNAc-alpha-OMe). A detailed analysis of lectin-sugar interactions in the complexes shows that they are more extensive when the beta-anomer is involved in the linkage. As expected, the second sugar residue is ill-defined when the linkage is 1-->6. There are more than two dozen water molecules which occur in the hydration shells of all structures determined at resolutions better than 2.5 A. Most of them are involved in stabilizing the structure, particularly loops. Water molecules involved in lectin-sugar interactions are also substantially conserved. The lectin molecule is fairly rigid and does not appear to be affected by changes in temperature.

-	~~{{STRUCTURE_2dvb\| PDB=2dvb \| SCENE= }}~~	+	Structural studies on peanut lectin complexed with disaccharides involving different linkages: further insights into the structure and interactions of the lectin.,Natchiar SK, Srinivas O, Mitra N, Surolia A, Jayaraman N, Vijayan M Acta Crystallogr D Biol Crystallogr. 2006 Nov;62(Pt 11):1413-21. Epub 2006, Oct 18. PMID:17057347<ref>PMID:17057347</ref>

-	~~===Crystal structure of peanut lectin GAl-beta-1~~,~~6-GalNAc complex===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_17057347}}~~	+	==See Also==
-		+	*[[Galactose-binding lectin\|Galactose-binding lectin]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2dvb~~]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:017057347<~~/~~ref~~><~~ref group="xtra">PMID:008278370</ref><ref group="xtra">PMID:008656429</ref><ref group="xtra">PMID:014747696</ref><references group="xtra"~~/>	+
	[[Category: Arachis hypogaea]]		[[Category: Arachis hypogaea]]
	[[Category: Jayaraman, N.]]		[[Category: Jayaraman, N.]]

OCA at 12:17, 23 January 2013

2013-01-23T12:17:19Z

←Older revision		Revision as of 12:17, 23 January 2013
Line 1:		Line 1:
	[[Image:2dvb.png\|left\|200px]]		[[Image:2dvb.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2dvb", 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_2dvb\| PDB=2dvb \| SCENE= }}		{{STRUCTURE_2dvb\| PDB=2dvb \| SCENE= }}

	===Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex===		===Crystal structure of peanut lectin GAl-beta-1,6-GalNAc complex===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17057347}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17057347 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17057347}}		{{ABSTRACT_PUBMED_17057347}}

Line 22:		Line 11:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17057347~~</ref><ref group="xtra">PMID:~~8278370~~</ref><ref group="xtra">PMID:~~8656429~~</ref><ref group="xtra">PMID:~~14747696~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017057347</ref><ref group="xtra">PMID:008278370</ref><ref group="xtra">PMID:008656429</ref><ref group="xtra">PMID:014747696</ref><references group="xtra"/>
	[[Category: Arachis hypogaea]]		[[Category: Arachis hypogaea]]
	[[Category: Jayaraman, N.]]		[[Category: Jayaraman, N.]]

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

2011-03-14T19:43:13Z

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

←Older revision

Revision as of 19:43, 14 March 2011

OCA at 19:43, 14 March 2011

2011-03-14T19:43:11Z

←Older revision		Revision as of 19:43, 14 March 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2dvb.png\|left\|200px]]		[[Image:2dvb.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~2DVB~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA].	+	[[2dvb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arachis_hypogaea Arachis hypogaea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DVB OCA].

	==Reference==		==Reference==
Line 35:		Line 34:
	[[Category: Legume lectin]]		[[Category: Legume lectin]]
	[[Category: Open quaternary structure]]		[[Category: Open quaternary structure]]
-		+	[[Category: Sugar binding protein]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 20:42:52 2009''~~	+