1xar - Revision history

OCA at 14:04, 9 May 2024

OCA — Thu, 09 May 2024 14:04:08 GMT

←Older revision		Revision as of 14:04, 9 May 2024
Line 3:		Line 3:
	<StructureSection load='1xar' size='340' side='right'caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='1xar' size='340' side='right'caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1XAR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XAR FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [~~http~~://pdbe.org/1xar PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xar PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xar 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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [https://pdbe.org/1xar PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [https://www.ebi.ac.uk/pdbsum/1xar PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xar ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CLC4M_HUMAN CLC4M_HUMAN]] Probable pathogen-recognition receptor involved in peripheral immune surveillance in liver. May mediate the endocytosis of pathogens which are subsequently degraded in lysosomal compartments. Probably recognizes in a calcium-dependent manner high mannose N-linked oligosaccharides in a variety of pathogen antigens, including HIV-1 gp120, HIV-2 gp120, SIV gp120, ebolavirus glycoproteins, HCV E2, and human SARS coronavirus protein S. Is a receptor for ICAM3, probably by binding to mannose-like carbohydrates. Is presumably a coreceptor for the SARS coronavirus.<ref>PMID:11257134</ref> <ref>PMID:11226297</ref>	+	[https://www.uniprot.org/uniprot/CLC4M_HUMAN CLC4M_HUMAN] Probable pathogen-recognition receptor involved in peripheral immune surveillance in liver. May mediate the endocytosis of pathogens which are subsequently degraded in lysosomal compartments. Probably recognizes in a calcium-dependent manner high mannose N-linked oligosaccharides in a variety of pathogen antigens, including HIV-1 gp120, HIV-2 gp120, SIV gp120, ebolavirus glycoproteins, HCV E2, and human SARS coronavirus protein S. Is a receptor for ICAM3, probably by binding to mannose-like carbohydrates. Is presumably a coreceptor for the SARS coronavirus.<ref>PMID:11257134</ref> <ref>PMID:11226297</ref>
	== 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: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Drickamer, K]]	+	[[Category: Drickamer K]]
-	[[Category: Feinberg, H]]	+	[[Category: Feinberg H]]
-	[[Category: Guo, Y]]	+	[[Category: Guo Y]]
-	[[Category: Mitchell~~, D A~~]]	+	[[Category: Mitchell DA]]
-	[[Category: Weis~~, W I]]~~	+	[[Category: Weis WI]]
-	~~[[Category: C-type lectin]]~~	+
-	~~[[Category: Dc-signr]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 09:50, 6 January 2021

OCA — Wed, 06 Jan 2021 09:50:57 GMT

←Older revision		Revision as of 09:50, 6 January 2021
Line 1:		Line 1:

	==Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).==		==Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).==
-	<StructureSection load='1xar' size='340' side='right' caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='1xar' size='340' side='right'caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XAR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XAR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://pdbe.org/1xar PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xar 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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://pdbe.org/1xar PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xar ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Drickamer, K]]		[[Category: Drickamer, K]]
	[[Category: Feinberg, H]]		[[Category: Feinberg, H]]

OCA at 07:05, 18 April 2018

OCA — Wed, 18 Apr 2018 07:05:56 GMT

←Older revision		Revision as of 07:05, 18 April 2018
Line 1:		Line 1:
		+
	==Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).==		==Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).==
	<StructureSection load='1xar' size='340' side='right' caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='1xar' size='340' side='right' caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://pdbe.org/1xar PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar 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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://pdbe.org/1xar PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xar 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/xa/1xar_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xa/1xar_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=1xar ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 16:39, 11 September 2015

OCA — Fri, 11 Sep 2015 16:39:27 GMT

←Older revision		Revision as of 16:39, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1xar' size='340' side='right' caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='1xar' size='340' side='right' caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XAR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XAR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar 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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://pdbe.org/1xar PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CLC4M_HUMAN CLC4M_HUMAN]] Probable pathogen-recognition receptor involved in peripheral immune surveillance in liver. May mediate the endocytosis of pathogens which are subsequently degraded in lysosomal compartments. Probably recognizes in a calcium-dependent manner high mannose N-linked oligosaccharides in a variety of pathogen antigens, including HIV-1 gp120, HIV-2 gp120, SIV gp120, ebolavirus glycoproteins, HCV E2, and human SARS coronavirus protein S. Is a receptor for ICAM3, probably by binding to mannose-like carbohydrates. Is presumably a coreceptor for the SARS coronavirus.<ref>PMID:11257134</ref> <ref>PMID:11226297</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		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 1xar" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Drickamer, K]]		[[Category: Drickamer, K]]
	[[Category: Feinberg, H]]		[[Category: Feinberg, H]]

OCA at 12:29, 6 January 2015

OCA — Tue, 06 Jan 2015 12:29:10 GMT

←Older revision		Revision as of 12:29, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XAR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XAR FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar 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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar 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 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Drickamer, K.]]	+	[[Category: Drickamer, K]]
-	[[Category: Feinberg, H.]]	+	[[Category: Feinberg, H]]
-	[[Category: Guo, Y.]]	+	[[Category: Guo, Y]]
-	[[Category: Mitchell, D A.]]	+	[[Category: Mitchell, D A]]
-	[[Category: Weis, W I.]]	+	[[Category: Weis, W I]]
	[[Category: C-type lectin]]		[[Category: C-type lectin]]
	[[Category: Dc-signr]]		[[Category: Dc-signr]]
	[[Category: Sugar binding protein]]		[[Category: Sugar binding protein]]

OCA at 18:26, 29 September 2014

OCA — Mon, 29 Sep 2014 18:26:06 GMT

←Older revision		Revision as of 18:26, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1xar.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).==
		+	<StructureSection load='1xar' size='340' side='right' caption='[[1xar]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XAR FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CD209L, CD209L1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1xar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xar OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xar RCSB], [http://www.ebi.ac.uk/pdbsum/1xar 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/xa/1xar_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 human cell surface receptors DC-SIGN (dendritic cell-specific intercellular adhesion molecule-grabbing nonintegrin) and DC-SIGNR (DC-SIGN-related) bind to oligosaccharide ligands found on human tissues as well as on pathogens including viruses, bacteria, and parasites. The extracellular portion of each receptor contains a membrane-distal carbohydrate-recognition domain (CRD) and forms tetramers stabilized by an extended neck region consisting of 23 amino acid repeats. Cross-linking analysis of full-length receptors expressed in fibroblasts confirms the tetrameric state of the intact receptors. Hydrodynamic studies on truncated receptors demonstrate that the portion of the neck of each protein adjacent to the CRD is sufficient to mediate the formation of dimers, whereas regions near the N terminus are needed to stabilize the tetramers. Some of the intervening repeats are missing from polymorphic forms of DC-SIGNR. Two different crystal forms of truncated DC-SIGNR comprising two neck repeats and the CRD reveal that the CRDs are flexibly linked to the neck, which contains alpha-helical segments interspersed with non-helical regions. Differential scanning calorimetry measurements indicate that the neck and CRDs are independently folded domains. Based on the crystal structures and hydrodynamic data, models for the full extracellular domains of the receptors have been generated. The observed flexibility of the CRDs in the tetramer, combined with previous data on the specificity of these receptors, suggests an important role for oligomerization in the recognition of endogenous glycans, in particular those present on the surfaces of enveloped viruses recognized by these proteins.

-	~~{{STRUCTURE_1xar\| PDB=1xar \| SCENE= }}~~	+	Extended neck regions stabilize tetramers of the receptors DC-SIGN and DC-SIGNR.,Feinberg H, Guo Y, Mitchell DA, Drickamer K, Weis WI J Biol Chem. 2005 Jan 14;280(2):1327-35. Epub 2004 Oct 26. PMID:15509576<ref>PMID:15509576</ref>

-	~~===Crystal Structure of~~ a ~~fragment~~ of ~~DC-SIGNR (containing~~ the ~~carbohydrate recognition domain and two repeats~~ of ~~the neck)~~.~~===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15509576}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1xar]] is a 2 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015509576<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Drickamer, K.]]		[[Category: Drickamer, K.]]

OCA: Protected "1xar" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 11:03:10 GMT

Protected "1xar" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:03, 5 January 2013

OCA at 11:03, 5 January 2013

OCA — Sat, 05 Jan 2013 11:03:06 GMT

←Older revision		Revision as of 11:03, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1xar.png\|left\|200px]]		[[Image:1xar.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1xar", 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_1xar\| PDB=1xar \| SCENE= }}		{{STRUCTURE_1xar\| PDB=1xar \| SCENE= }}

	===Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).===		===Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15509576}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15509576 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15509576}}		{{ABSTRACT_PUBMED_15509576}}

	==About this Structure==		==About this Structure==
-	~~1XAR~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA].	+	[[1xar]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XAR OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15509576~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015509576</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Drickamer, K.]]		[[Category: Drickamer, K.]]
Line 32:		Line 20:
	[[Category: C-type lectin]]		[[Category: C-type lectin]]
	[[Category: Dc-signr]]		[[Category: Dc-signr]]
-		+	[[Category: Sugar binding protein]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Wed Feb 18 03:59:15 2009''~~	+

OCA at 01:59, 18 February 2009

OCA — Wed, 18 Feb 2009 01:59:17 GMT

←Older revision		Revision as of 01:59, 18 February 2009
Line 20:		Line 20:

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

	==Reference==		==Reference==
-	~~Extended neck regions stabilize tetramers of the receptors DC-SIGN and DC-SIGNR., Feinberg H, Guo Y, Mitchell DA, Drickamer K, Weis WI, J Biol Chem. 2005 Jan 14;280(2):1327-35. Epub 2004 Oct 26.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/15509576 15509576]~~	+	<ref group="xtra">PMID:15509576</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Drickamer, K.]]		[[Category: Drickamer, K.]]
	[[Category: Feinberg, H.]]		[[Category: Feinberg, H.]]
Line 34:		Line 33:
	[[Category: Dc-signr]]		[[Category: Dc-signr]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 10~~:09:~~50 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 03:59:15 2009''

OCA at 07:09, 29 July 2008

OCA — Tue, 29 Jul 2008 07:09:55 GMT

←Older revision		Revision as of 07:09, 29 July 2008
Line 1:		Line 1:
-	[[Image:1xar.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1xar.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1xar\| PDB=1xar \| SCENE= }}		{{STRUCTURE_1xar\| PDB=1xar \| SCENE= }}

-	~~'''~~Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).~~'''~~	+	===Crystal Structure of a fragment of DC-SIGNR (containing the carbohydrate recognition domain and two repeats of the neck).===


-	~~==Overview==~~	+	<!--
-	The ~~human cell surface receptors DC-SIGN~~ (~~dendritic cell-specific intercellular adhesion molecule-grabbing nonintegrin) and DC-SIGNR (DC-SIGN-related) bind to oligosaccharide ligands found on human tissues as well~~ as on ~~pathogens including viruses, bacteria, and parasites~~. ~~The extracellular portion of each receptor contains a membrane-distal carbohydrate-recognition domain (CRD~~) and forms tetramers stabilized by an extended neck region consisting of 23 amino acid repeats. Cross-linking analysis of full-length receptors expressed in fibroblasts confirms the tetrameric state of the intact receptors. Hydrodynamic studies on truncated receptors demonstrate that the portion of the neck of each protein adjacent to the CRD is ~~sufficient to mediate~~ the ~~formation of dimers, whereas regions near the N terminus are needed to stabilize the tetramers~~. ~~Some of the intervening repeats are missing from polymorphic forms of DC~~-~~SIGNR. Two different crystal forms of truncated DC~~-SIGNR comprising two neck repeats and the CRD reveal that the CRDs are flexibly linked to the neck, which contains alpha-helical segments interspersed with non-helical regions. Differential scanning calorimetry measurements indicate that the neck and CRDs are independently folded domains. Based on the crystal structures and hydrodynamic data, models for the full extracellular domains of the receptors have been generated. The observed flexibility of the CRDs in the tetramer, combined with previous data on the specificity of these receptors, suggests an important role for oligomerization in the recognition of endogenous glycans, in particular those present on the surfaces of enveloped viruses recognized by these proteins.	+	The line below this paragraph, {{ABSTRACT_PUBMED_15509576}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 15509576 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_15509576}}

	==About this Structure==		==About this Structure==
Line 29:		Line 33:
	[[Category: C-type lectin]]		[[Category: C-type lectin]]
	[[Category: Dc-signr]]		[[Category: Dc-signr]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 14~~:47:40 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 10:09:50 2008''