2vmc - Revision history

OCA at 15:24, 13 December 2023

OCA — Wed, 13 Dec 2023 15:24:56 GMT

←Older revision		Revision as of 15:24, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='2vmc' size='340' side='right'caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2vmc' size='340' side='right'caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Dictyostelium_discoideum_ax2~~ Dictyostelium discoideum ~~ax2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VMC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dictyostelium_discoideum_AX2 Dictyostelium discoideum AX2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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]] 1.9Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [https://pdbe.org/2vmc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [https://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc 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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [https://pdbe.org/2vmc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [https://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/DIS2_DICDI DIS2_DICDI]] Galactose-binding lectin. May be necessary for the primary process of spore formation and may be involved in spore coat formation.	+	[https://www.uniprot.org/uniprot/DIS2_DICDI DIS2_DICDI] Galactose-binding lectin. May be necessary for the primary process of spore formation and may be involved in spore coat formation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Dictyostelium discoideum ~~ax2~~]]	+	[[Category: Dictyostelium discoideum AX2]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Imberty, A]]	+	[[Category: Imberty A]]
-	[[Category: Saboia, K]]	+	[[Category: Saboia K]]
-	[[Category: Satre, M]]	+	[[Category: Satre M]]
-	[[Category: Varrot, A]]	+	[[Category: Varrot A]]
-	~~[[Category: Aggregation]]~~	+
-	~~[[Category: Cell adhesion]]~~	+
-	~~[[Category: Ddr]]~~	+
-	~~[[Category: Lectin~~]]	+

OCA at 11:40, 30 March 2022

OCA — Wed, 30 Mar 2022 11:40:15 GMT

←Older revision		Revision as of 11:40, 30 March 2022
Line 3:		Line 3:
	<StructureSection load='2vmc' size='340' side='right'caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2vmc' size='340' side='right'caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2VMC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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" id="ligandDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</div></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [~~http~~://pdbe.org/2vmc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc 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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [https://pdbe.org/2vmc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [https://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DIS2_DICDI DIS2_DICDI]] Galactose-binding lectin. May be necessary for the primary process of spore formation and may be involved in spore coat formation.	+	[[https://www.uniprot.org/uniprot/DIS2_DICDI DIS2_DICDI]] Galactose-binding lectin. May be necessary for the primary process of spore formation and may be involved in spore coat formation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:08, 25 June 2020

OCA — Thu, 25 Jun 2020 08:08:36 GMT

←Older revision		Revision as of 08:08, 25 June 2020
Line 1:		Line 1:

	==Structure of the complex of discoidin II from Dictyostelium discoideum with N-acetyl-galactosamine==		==Structure of the complex of discoidin II from Dictyostelium discoideum with N-acetyl-galactosamine==
-	<StructureSection load='2vmc' size='340' side='right' caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='2vmc' size='340' side='right'caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2VMC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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" id="ligandDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://pdbe.org/2vmc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://pdbe.org/2vmc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Dictyostelium discoideum ax2]]		[[Category: Dictyostelium discoideum ax2]]
		+	[[Category: Large Structures]]
	[[Category: Imberty, A]]		[[Category: Imberty, A]]
	[[Category: Saboia, K]]		[[Category: Saboia, K]]

OCA at 21:04, 19 September 2018

OCA — Wed, 19 Sep 2018 21:04:13 GMT

←Older revision		Revision as of 21:04, 19 September 2018
Line 1:		Line 1:
-	==~~STRUCTURE OF THE COMPLEX OF DISCOIDIN~~ II ~~FROM DICTYOSTELIUM DISCOIDEUM WITH~~ N-~~ACETYL~~-~~GALACTOSAMINE~~==	+
		+	==Structure of the complex of discoidin II from Dictyostelium discoideum with N-acetyl-galactosamine==
	<StructureSection load='2vmc' size='340' side='right' caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2vmc' size='340' side='right' caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=CA:~~CALCIUM+ION~~'>CA</scene>, <scene name='pdbligand=CL:~~CHLORIDE~~+ION'>CL</scene>, <scene name='pdbligand=~~EDO~~:~~1,2-ETHANEDIOL~~'>~~EDO~~</scene>, <scene name='pdbligand=~~A2G~~:~~N-ACETYL-~~2-~~DEOXY-2-AMINO-GALACTOSE~~'>~~A2G~~</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=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://pdbe.org/2vmc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc 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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://pdbe.org/2vmc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vmc 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/vm/2vmc_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vm/2vmc_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 06:36, 10 February 2016

OCA — Wed, 10 Feb 2016 06:36:34 GMT

←Older revision		Revision as of 06:36, 10 February 2016
Line 2:		Line 2:
	<StructureSection load='2vmc' size='340' side='right' caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2vmc' size='340' side='right' caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Dictyostelium_discoideum~~ Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum_ax2 Dictyostelium discoideum ax2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</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=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</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">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc 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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://pdbe.org/2vmc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc 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=2vmc 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 2vmc" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Dictyostelium discoideum]]	+	[[Category: Dictyostelium discoideum ax2]]
	[[Category: Imberty, A]]		[[Category: Imberty, A]]
	[[Category: Saboia, K]]		[[Category: Saboia, K]]

OCA at 12:29, 25 December 2014

OCA — Thu, 25 Dec 2014 12:29:04 GMT

←Older revision		Revision as of 12:29, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</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=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</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">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc 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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DIS2_DICDI DIS2_DICDI]] Galactose-binding lectin. May be necessary for the primary process of spore formation and may be involved in spore coat formation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Dictyostelium discoideum]]		[[Category: Dictyostelium discoideum]]
-	[[Category: Imberty, A.]]	+	[[Category: Imberty, A]]
-	[[Category: Saboia, K.]]	+	[[Category: Saboia, K]]
-	[[Category: Satre, M.]]	+	[[Category: Satre, M]]
-	[[Category: Varrot, A.]]	+	[[Category: Varrot, A]]
	[[Category: Aggregation]]		[[Category: Aggregation]]
	[[Category: Cell adhesion]]		[[Category: Cell adhesion]]
	[[Category: Ddr]]		[[Category: Ddr]]
	[[Category: Lectin]]		[[Category: Lectin]]

OCA at 04:19, 3 October 2014

OCA — Fri, 03 Oct 2014 04:19:00 GMT

←Older revision		Revision as of 04:19, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_2vmc\| PDB=2vmc \| SCENE= }}~~	+	==STRUCTURE OF THE COMPLEX OF DISCOIDIN II FROM DICTYOSTELIUM DISCOIDEUM WITH N-ACETYL-GALACTOSAMINE==
-	===STRUCTURE OF THE COMPLEX OF DISCOIDIN II FROM DICTYOSTELIUM DISCOIDEUM WITH N-ACETYL-GALACTOSAMINE===	+	<StructureSection load='2vmc' size='340' side='right' caption='[[2vmc]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	{~~{ABSTRACT_PUBMED_18384150}~~}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VMC FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</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">[[2vm9\|2vm9]], [[2vme\|2vme]], [[2vmd\|2vmd]]</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=2vmc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vmc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vmc RCSB], [http://www.ebi.ac.uk/pdbsum/2vmc 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/vm/2vmc_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 ==
		+	The social amoeba Dictyostelium discoideum adopts a cohesive stage upon starvation and then produces Discoidin I and II, two proteins able to bind galactose and N-acetyl-galactosamine. The N-terminal domain or discoidin domain (DS) is widely distributed in eukaryotes where it plays a role in extracellular matrix binding while the C-terminal domain displays sequence similarities to invertebrate lectins. We present the first X-ray structures of the wild-type and recombinant Discoidin II in unliganded state and in complex with monosaccharides. The protein forms a homotrimer which presents two binding surfaces situated on the opposite boundaries of the structure. The binding sites of the N-terminal domain contain PEG molecules that could mimics binding of natural ligand. The C-terminal lectin domain interactions with N-acetyl-D-galactosamine and methyl-beta-galactoside are described. The carbohydrate binding sites are located at the interface between monomers. Specificity for galacto configuration can be rationalized since the axial O4 hydroxyl group is involved in several hydrogen bonds with protein side chains. Titration microcalorimetry allowed characterization of affinity and demonstrated the enthalpy-driven character of the interaction. Those results highlight the structural differentiation of the DS domain involved in many cell-adhesion processes from the lectin activity of Dictyostelium discoidins.

-	~~==About this~~ Structure==	+	Structure determination of Discoidin II from Dictyostelium discoideum and carbohydrate binding properties of the lectin domain.,Aragao KS, Satre M, Imberty A, Varrot A Proteins. 2008 Oct;73(1):43-52. PMID:18384150<ref>PMID:18384150</ref>
-	~~[[2vmc]] is a 1 chain structure with sequence~~ from ~~[http://en.wikipedia.org/wiki/Dictyostelium_discoideum~~ Dictyostelium discoideum]. ~~Full crystallographic information is available from [http~~:~~//oca~~.~~weizmann.ac.il~~/~~oca-bin/ocashort?id=2VMC OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:018384150</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Dictyostelium discoideum]]		[[Category: Dictyostelium discoideum]]
	[[Category: Imberty, A.]]		[[Category: Imberty, A.]]

OCA at 23:09, 10 April 2013

OCA — Wed, 10 Apr 2013 23:09:10 GMT

←Older revision		Revision as of 23:09, 10 April 2013
Line 1:		Line 1:
-	[[Image:2vmc.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_2vmc", 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_2vmc\| PDB=2vmc \| SCENE= }}		{{STRUCTURE_2vmc\| PDB=2vmc \| SCENE= }}
-
	===STRUCTURE OF THE COMPLEX OF DISCOIDIN II FROM DICTYOSTELIUM DISCOIDEUM WITH N-ACETYL-GALACTOSAMINE===		===STRUCTURE OF THE COMPLEX OF DISCOIDIN II FROM DICTYOSTELIUM DISCOIDEUM WITH N-ACETYL-GALACTOSAMINE===
-
-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18384150}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18384150 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18384150}}		{{ABSTRACT_PUBMED_18384150}}

Line 22:		Line 7:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:018384150</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018384150</ref><references group="xtra"/><references/>
	[[Category: Dictyostelium discoideum]]		[[Category: Dictyostelium discoideum]]
	[[Category: Imberty, A.]]		[[Category: Imberty, A.]]
Line 28:		Line 13:
	[[Category: Satre, M.]]		[[Category: Satre, M.]]
	[[Category: Varrot, A.]]		[[Category: Varrot, A.]]
		+	[[Category: Aggregation]]
		+	[[Category: Cell adhesion]]
		+	[[Category: Ddr]]
		+	[[Category: Lectin]]

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

OCA — Wed, 08 Jun 2011 04:34:00 GMT

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

←Older revision

Revision as of 04:34, 8 June 2011

OCA at 04:33, 8 June 2011

OCA — Wed, 08 Jun 2011 04:33:58 GMT

←Older revision		Revision as of 04:33, 8 June 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2vmc.png\|left\|200px]]		[[Image:2vmc.png\|left\|200px]]

Line 12:		Line 11:
	===STRUCTURE OF THE COMPLEX OF DISCOIDIN II FROM DICTYOSTELIUM DISCOIDEUM WITH N-ACETYL-GALACTOSAMINE===		===STRUCTURE OF THE COMPLEX OF DISCOIDIN II FROM DICTYOSTELIUM DISCOIDEUM WITH N-ACETYL-GALACTOSAMINE===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18384150}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18384150 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18384150}}

	==About this Structure==		==About this Structure==
-	~~2VMC~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA].	+	[[2vmc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VMC OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:018384150</ref><references group="xtra"/>
	[[Category: Dictyostelium discoideum]]		[[Category: Dictyostelium discoideum]]
-	[[Category: Aragao, K S.]]
	[[Category: Imberty, A.]]		[[Category: Imberty, A.]]
		+	[[Category: Saboia, K.]]
	[[Category: Satre, M.]]		[[Category: Satre, M.]]
	[[Category: Varrot, A.]]		[[Category: Varrot, A.]]
-	[[Category: Aggregation]]
-	[[Category: Cell adhesion]]
-	[[Category: Ddr]]
-	[[Category: Lectin]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:11:35 2009''