6ryn - Revision history

OCA at 12:31, 24 January 2024

OCA — Wed, 24 Jan 2024 12:31:15 GMT

←Older revision		Revision as of 12:31, 24 January 2024
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	<StructureSection load='6ryn' size='340' side='right'caption='[[6ryn]], [[Resolution\|resolution]] 1.00Å' scene=''>		<StructureSection load='6ryn' size='340' side='right'caption='[[6ryn]], [[Resolution\|resolution]] 1.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ryn]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bovin Bovin~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RYN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6RYN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ryn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RYN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6RYN 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=GN1:2-(ACETYLAMINO)-2-DEOXY-~~1~~-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE'>GN1</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]] 1Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[6ryg\|6ryg]], [[6ryj\|6ryj]], [[6rym\|6rym]]~~<~~/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=GN1:2-(ACETYLAMINO)-2-DEOXY-1-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE'>GN1</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">CGN1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9913 BOVIN])~~</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=6ryn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ryn OCA], [https://pdbe.org/6ryn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ryn RCSB], [https://www.ebi.ac.uk/pdbsum/6ryn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ryn ProSAT]</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=6ryn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ryn OCA], [~~http~~://pdbe.org/6ryn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ryn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ryn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ryn ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CONG_BOVIN CONG_BOVIN]] Calcium-dependent lectin-like protein which binds to a yeast cell wall extract and immune complexes through the complement component (C3bi). It is capable of binding non-reducing terminal N-acetylglucosamine, mannose, and fucose residues.	+	[https://www.uniprot.org/uniprot/CONG_BOVIN CONG_BOVIN] Calcium-dependent lectin-like protein which binds to a yeast cell wall extract and immune complexes through the complement component (C3bi). It is capable of binding non-reducing terminal N-acetylglucosamine, mannose, and fucose residues.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bovin~~]]	+	[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Greenhough~~, T J~~]]	+	[[Category: Greenhough TJ]]
-	[[Category: Shrive~~, A K]]~~	+	[[Category: Shrive AK]]
-	~~[[Category: Carbohydrate recognition domain]]~~	+
-	~~[[Category: Collectin]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 17:57, 20 November 2019

OCA — Wed, 20 Nov 2019 17:57:58 GMT

←Older revision		Revision as of 17:57, 20 November 2019
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	<StructureSection load='6ryn' size='340' side='right'caption='[[6ryn]], [[Resolution\|resolution]] 1.00Å' scene=''>		<StructureSection load='6ryn' size='340' side='right'caption='[[6ryn]], [[Resolution\|resolution]] 1.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ryn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RYN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6RYN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ryn]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RYN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6RYN 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=GN1:2-(ACETYLAMINO)-2-DEOXY-1-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE'>GN1</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=GN1:2-(ACETYLAMINO)-2-DEOXY-1-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE'>GN1</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ryg\|6ryg]], [[6ryj\|6ryj]], [[6rym\|6rym]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ryg\|6ryg]], [[6ryj\|6ryj]], [[6rym\|6rym]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CGN1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9913 BOVIN])</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=6ryn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ryn OCA], [http://pdbe.org/6ryn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ryn RCSB], [http://www.ebi.ac.uk/pdbsum/6ryn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ryn ProSAT]</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=6ryn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ryn OCA], [http://pdbe.org/6ryn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ryn RCSB], [http://www.ebi.ac.uk/pdbsum/6ryn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ryn ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bovin]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Greenhough, T J]]		[[Category: Greenhough, T J]]

OCA at 05:26, 10 October 2019

OCA — Thu, 10 Oct 2019 05:26:07 GMT

←Older revision		Revision as of 05:26, 10 October 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ryn is ~~ON HOLD until Paper~~ Publication	+	==Structure of conglutinin carbohydrate recognition domain with GlcNAc-alpha-1-phosphate bound==
		+	<StructureSection load='6ryn' size='340' side='right'caption='[[6ryn]], [[Resolution\|resolution]] 1.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ryn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RYN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6RYN 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=GN1:2-(ACETYLAMINO)-2-DEOXY-1-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE'>GN1</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ryg\|6ryg]], [[6ryj\|6ryj]], [[6rym\|6rym]]</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=6ryn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ryn OCA], [http://pdbe.org/6ryn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ryn RCSB], [http://www.ebi.ac.uk/pdbsum/6ryn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ryn ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CONG_BOVIN CONG_BOVIN]] Calcium-dependent lectin-like protein which binds to a yeast cell wall extract and immune complexes through the complement component (C3bi). It is capable of binding non-reducing terminal N-acetylglucosamine, mannose, and fucose residues.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bovine conglutinin is an immune protein that is involved in host resistance to microbes and parasites and interacts with complement component iC3b, agglutinates erythrocytes, and neutralizes influenza A virus. Here, we determined the high-resolution (0.97-1.46 A) crystal structures with and without bound ligand of a recombinant fragment of conglutinin's C-terminal carbohydrate-recognition domain (CRD). The structures disclosed that the high-affinity ligand N-acetyl-D-glucosamine (GlcNAc) binds in the collectin CRD calcium site by interacting with the O3' and O4' hydroxyls alongside additional specific interactions of the N-acetyl group oxygen and nitrogen with Lys343 and Asp320, respectively. These residues, unique to conglutinin and differing both in sequence and location from those in other collectins, result in specific, high-affinity binding for GlcNAc. The binding pocket flanking residue Val339, unlike the equivalent Arg343 in the homologous human surfactant protein D, is sufficiently small to allow conglutinin Lys343 access to the bound ligand, whereas Asp320 lies in an extended loop proximal to the ligand-binding site and bounded at both ends by conserved residues that coordinate to both calcium and ligand. This loop becomes ordered on ligand binding. The electron density revealed both alpha and beta anomers of GlcNAc, consistent with the added alpha/betaGlcNAc mixture. Crystals soaked with alpha1-2 mannobiose, a putative component of iC3b, reported to bind to conglutinin, failed to reveal bound ligand, suggesting a requirement for presentation of mannobiose as part of an extended physiological ligand. These results reveal a highly specific GlcNAc-binding pocket in conglutinin and a novel collectin mode of carbohydrate recognition.

-	~~Authors: Shrive~~, A~~.K.~~, Greenhough, T.J.	+	Atomic-resolution crystal structures of the immune protein conglutinin from cow reveal specific interactions of its binding site with N-acetylglucosamine.,Paterson JM, Shaw AJ, Burns I, Dodds AW, Prasad A, Reid KB, Greenhough TJ, Shrive AK J Biol Chem. 2019 Sep 27. pii: RA119.010271. doi: 10.1074/jbc.RA119.010271. PMID:31562242<ref>PMID:31562242</ref>

-	~~Description: Structure~~ of ~~conglutinin carbohydrate recognition domain with GlcNAc~~-~~alpha~~-~~1-phosphate bound~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: Shrive, A.K]]	+	<div class="pdbe-citations 6ryn" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Greenhough, T.J~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Greenhough, T J]]
		+	[[Category: Shrive, A K]]
		+	[[Category: Carbohydrate recognition domain]]
		+	[[Category: Collectin]]
		+	[[Category: Immune system]]
		+	[[Category: Lectin]]
		+	[[Category: Sugar binding protein]]

OCA: Protected "6ryn" [edit=sysop:move=sysop]

OCA — Wed, 19 Jun 2019 04:32:38 GMT

Protected "6ryn" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:32, 19 June 2019

OCA: New page: '''Unreleased structure''' The entry 6ryn is ON HOLD until Paper Publication Authors: Shrive, A.K., Greenhough, T.J. Description: Structure of conglutinin carbohydrate recognition doma...

OCA — Wed, 19 Jun 2019 04:32:36 GMT

New page: '''Unreleased structure''' The entry 6ryn is ON HOLD until Paper Publication Authors: Shrive, A.K., Greenhough, T.J. Description: Structure of conglutinin carbohydrate recognition doma...

New page

'''Unreleased structure'''

The entry 6ryn is ON HOLD until Paper Publication

Authors: Shrive, A.K., Greenhough, T.J.

Description: Structure of conglutinin carbohydrate recognition domain with GlcNAc-alpha-1-phosphate bound
[[Category: Unreleased Structures]]
[[Category: Shrive, A.K]]
[[Category: Greenhough, T.J]]