5b1w - Revision history

OCA at 15:55, 8 November 2023

2023-11-08T15:55:52Z

←Older revision		Revision as of 15:55, 8 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5b1w]] is a 4 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=5B1W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B1W FirstGlance]. <br>		<table><tr><td colspan='2'>[[5b1w]] is a 4 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=5B1W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B1W 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></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]] 3.05Å</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></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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [https://pdbe.org/5b1w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [https://www.ebi.ac.uk/pdbsum/5b1w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b1w 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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [https://pdbe.org/5b1w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [https://www.ebi.ac.uk/pdbsum/5b1w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b1w ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:36, 31 May 2023

2023-05-31T06:36:00Z

←Older revision		Revision as of 06:36, 31 May 2023
Line 3:		Line 3:
	<StructureSection load='5b1w' size='340' side='right'caption='[[5b1w]], [[Resolution\|resolution]] 3.05Å' scene=''>		<StructureSection load='5b1w' size='340' side='right'caption='[[5b1w]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5b1w]] is a 4 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=5B1W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5B1W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5b1w]] is a 4 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=5B1W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B1W 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>~~</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></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b1x\|5b1x]]</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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [https://pdbe.org/5b1w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [https://www.ebi.ac.uk/pdbsum/5b1w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b1w ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CLEC4A, CLECSF6, DCIR, LLIR, HDCGC13P ([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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [~~http~~://pdbe.org/5b1w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5b1w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5b1w ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CLC4A_HUMAN CLC4A_HUMAN]] May be involved in regulating immune reactivity. May play a role in modulating dendritic cells (DC) differentiation and/or maturation. May be involved via its ITIM motif (immunoreceptor tyrosine-based inhibitory motifs) in the inhibition of B-cell-receptor-mediated calcium mobilization and protein tyrosine phosphorylation.<ref>PMID:10438934</ref>	+	[https://www.uniprot.org/uniprot/CLC4A_HUMAN CLC4A_HUMAN] May be involved in regulating immune reactivity. May play a role in modulating dendritic cells (DC) differentiation and/or maturation. May be involved via its ITIM motif (immunoreceptor tyrosine-based inhibitory motifs) in the inhibition of B-cell-receptor-mediated calcium mobilization and protein tyrosine phosphorylation.<ref>PMID:10438934</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Nagae, M]]	+	[[Category: Nagae M]]
-	[[Category: Yamaguchi, Y]]	+	[[Category: Yamaguchi Y]]
-	~~[[Category: C-type lectin domain]]~~	+
-	~~[[Category: Carbohydrate binding protein]]~~	+
-	~~[[Category: Carbohydrate recognition]]~~	+
-	~~[[Category: Innate immunity~~]]	+

OCA at 10:00, 26 February 2020

2020-02-26T10:00:55Z

←Older revision		Revision as of 10:00, 26 February 2020
Line 1:		Line 1:

	==Crystal structure of human dendritic cell inhibitory receptor (DCIR) C-type lectin domain in ligand-free form==		==Crystal structure of human dendritic cell inhibitory receptor (DCIR) C-type lectin domain in ligand-free form==
-	<StructureSection load='5b1w' size='340' side='right' caption='[[5b1w]], [[Resolution\|resolution]] 3.05Å' scene=''>	+	<StructureSection load='5b1w' size='340' side='right'caption='[[5b1w]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5b1w]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B1W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B1W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5b1w]] is a 4 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=5B1W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B1W 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></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></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b1x\|5b1x]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b1x\|5b1x]]</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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [http://pdbe.org/5b1w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [http://www.ebi.ac.uk/pdbsum/5b1w PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CLEC4A, CLECSF6, DCIR, LLIR, HDCGC13P ([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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [http://pdbe.org/5b1w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [http://www.ebi.ac.uk/pdbsum/5b1w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b1w ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Nagae, M]]		[[Category: Nagae, M]]
	[[Category: Yamaguchi, Y]]		[[Category: Yamaguchi, Y]]

OCA at 17:00, 15 May 2016

2016-05-15T17:00:51Z

←Older revision		Revision as of 17:00, 15 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5b1w is ~~ON HOLD~~	+	==Crystal structure of human dendritic cell inhibitory receptor (DCIR) C-type lectin domain in ligand-free form==
		+	<StructureSection load='5b1w' size='340' side='right' caption='[[5b1w]], [[Resolution\|resolution]] 3.05Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5b1w]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B1W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B1W 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></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b1x\|5b1x]]</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=5b1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b1w OCA], [http://pdbe.org/5b1w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b1w RCSB], [http://www.ebi.ac.uk/pdbsum/5b1w PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CLC4A_HUMAN CLC4A_HUMAN]] May be involved in regulating immune reactivity. May play a role in modulating dendritic cells (DC) differentiation and/or maturation. May be involved via its ITIM motif (immunoreceptor tyrosine-based inhibitory motifs) in the inhibition of B-cell-receptor-mediated calcium mobilization and protein tyrosine phosphorylation.<ref>PMID:10438934</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Human dendritic cell inhibitory receptor (DCIR) is a C-type lectin receptor expressed in classical dendritic cells and accepts several oligosaccharide ligands including N-glycans. Here, we report the crystal structures of human DCIR C-type lectin domains in the absence and presence of a branched N-glycan unit. The domain has a typical C-type lectin fold and two bound calcium ions. In the ligand-bound form, the disaccharide unit (GlcNAcbeta1-2Man) acceptably fits the electron density map, indicating that it forms the main epitope. The recognition of the nonterminal N-glycan unit explains the relatively broad specificity of this lectin.

-	~~Authors: Nagae~~, M., ~~Yamaguchi~~, Y.	+	Crystal structure of human dendritic cell inhibitory receptor C-type lectin domain reveals the binding mode with N-glycan.,Nagae M, Ikeda A, Hanashima S, Kojima T, Matsumoto N, Yamamoto K, Yamaguchi Y FEBS Lett. 2016 Apr;590(8):1280-8. doi: 10.1002/1873-3468.12162. Epub 2016 Apr 6. PMID:27015765<ref>PMID:27015765</ref>

-	~~Description:~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5b1w" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Nagae, M]]		[[Category: Nagae, M]]
	[[Category: Yamaguchi, Y]]		[[Category: Yamaguchi, Y]]
		+	[[Category: C-type lectin domain]]
		+	[[Category: Carbohydrate binding protein]]
		+	[[Category: Carbohydrate recognition]]
		+	[[Category: Innate immunity]]

OCA at 20:53, 10 May 2016

2016-05-10T20:53:02Z

←Older revision		Revision as of 20:53, 10 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5b1w is ON HOLD ~~until Paper Publication~~	+	The entry 5b1w is ON HOLD

	Authors: Nagae, M., Yamaguchi, Y.		Authors: Nagae, M., Yamaguchi, Y.

OCA at 11:27, 20 January 2016

2016-01-20T11:27:50Z

←Older revision		Revision as of 11:27, 20 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5b1w is ON HOLD	+	The entry 5b1w is ON HOLD until Paper Publication

	Authors: Nagae, M., Yamaguchi, Y.		Authors: Nagae, M., Yamaguchi, Y.

OCA: Protected "5b1w" [edit=sysop:move=sysop]

2015-12-30T14:30:34Z

Protected "5b1w" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:30, 30 December 2015

OCA: New page: '''Unreleased structure''' The entry 5b1w is ON HOLD Authors: Nagae, M., Yamaguchi, Y. Description: Category: Unreleased Structures Category: Nagae, M [[Category: Yamaguchi, Y...

2015-12-30T14:30:32Z

New page: '''Unreleased structure''' The entry 5b1w is ON HOLD Authors: Nagae, M., Yamaguchi, Y. Description: Category: Unreleased Structures Category: Nagae, M [[Category: Yamaguchi, Y...

New page

'''Unreleased structure'''

The entry 5b1w is ON HOLD

Authors: Nagae, M., Yamaguchi, Y.

Description:
[[Category: Unreleased Structures]]
[[Category: Nagae, M]]
[[Category: Yamaguchi, Y]]