5usl - Revision history

OCA at 13:33, 4 October 2023

OCA — Wed, 04 Oct 2023 13:33:38 GMT

←Older revision		Revision as of 13:33, 4 October 2023
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	<StructureSection load='5usl' size='340' side='right'caption='[[5usl]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='5usl' size='340' side='right'caption='[[5usl]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5usl]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [~~http~~://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5USL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5USL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5usl]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5USL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5USL FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5usi\|5usi]], [[5ush\|5ush]]</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]] 2.9Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">VAC_DPP17_124, VACAC2_124, VACCL3_124 ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=10245 Vaccinia virus])~~</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=5usl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5usl OCA], [https://pdbe.org/5usl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5usl RCSB], [https://www.ebi.ac.uk/pdbsum/5usl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5usl 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=5usl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5usl OCA], [~~http~~://pdbe.org/5usl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5usl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5usl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5usl ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q1M1K6_9POXV Q1M1K6_9POXV]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Vaccinia virus]]		[[Category: Vaccinia virus]]
-	[[Category: Zajonc~~, D M]]~~	+	[[Category: Zajonc DM]]
-	~~[[Category: Antibody]]~~	+
-	~~[[Category: Fab]]~~	+
-	~~[[Category: Ig fold]]~~	+
-	~~[[Category: Immune response]]~~	+
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Viral protein-immune system complex~~]]	+

OCA at 09:31, 4 December 2019

OCA — Wed, 04 Dec 2019 09:31:47 GMT

←Older revision		Revision as of 09:31, 4 December 2019
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	==Structure of vaccinia virus D8 protein bound to human Fab vv304==		==Structure of vaccinia virus D8 protein bound to human Fab vv304==
-	<StructureSection load='5usl' size='340' side='right' caption='[[5usl]], [[Resolution\|resolution]] 2.90Å' scene=''>	+	<StructureSection load='5usl' size='340' side='right'caption='[[5usl]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5usl]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5USL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5USL FirstGlance]. <br>		<table><tr><td colspan='2'>[[5usl]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5USL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5USL FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
	[[Category: Vaccinia virus]]		[[Category: Vaccinia virus]]
	[[Category: Zajonc, D M]]		[[Category: Zajonc, D M]]

OCA at 10:27, 22 November 2017

OCA — Wed, 22 Nov 2017 10:27:12 GMT

←Older revision		Revision as of 10:27, 22 November 2017
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	<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=5usl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5usl OCA], [http://pdbe.org/5usl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5usl RCSB], [http://www.ebi.ac.uk/pdbsum/5usl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5usl 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=5usl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5usl OCA], [http://pdbe.org/5usl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5usl RCSB], [http://www.ebi.ac.uk/pdbsum/5usl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5usl ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Vaccinia virus (VACV) envelope protein D8 is one of three glycosaminoglycan adhesion molecules and binds to the linear polysaccharide chondroitin sulfate (CS). D8 is also a target for neutralizing antibody responses that are elicited by the smallpox vaccine, which has enabled the first eradication of a human viral pathogen and is a useful model for studying antibody responses. However, to date, VACV epitopes targeted by human antibodies have not been characterized at atomic resolution. Here, we characterized the binding properties of several human anti-D8 antibodies and determined the crystal structures of three VACV-MAb variants, VACV-66, VACV-138, and VACV-304, separately bound to D8. While all these antibodies bound D8 with high affinity and were moderately neutralizing in the presence of complement, VACV-138 and VACV-304 also fully blocked D8 binding to CS-A, the low affinity ligand for D8. VACV-138 also abrogated D8 binding to the high-affinity ligand CS-E, but we observed residual CS-E binding was observed in the presence of VACV-304. Analysis of the VACV-138 and VACV-304 binding sites along the CS binding crevice of D8, combined with different efficiencies of blocking D8 adhesion to CS-A and CS-E allowed us to propose that D8 has a high and low affinity CS binding region within its central crevice. The crevice is amenable to protein engineering to further enhance both specificity and affinity of binding to CS-E. Finally, a wild-type D8 tetramer specifically bound to structures within the developing glomeruli of the kidney, which express CS-E. We propose that through structure-based protein engineering, an improved D8 tetramer could be used as a potential diagnostic tool to detect expression of CS-E, which is a possible biomarker for ovarian cancer.
		+
		+	Structure-function characterization of three human antibodies targeting the vaccinia virus adhesion molecule D8.,Matho MH, Schlossman A, Gilchuk IM, Miller G, Mikulski Z, Hupfer M, Wang J, Bitra A, Meng X, Xiang Y, Kaever T, Doukov T, Ley K, Crotty S, Peters B, Hsieh-Wilson LC, Crowe JE Jr, Zajonc DM J Biol Chem. 2017 Nov 9. pii: jbc.M117.814541. doi: 10.1074/jbc.M117.814541. PMID:29123031<ref>PMID:29123031</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5usl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:30, 15 November 2017

OCA — Wed, 15 Nov 2017 14:30:14 GMT

←Older revision		Revision as of 14:30, 15 November 2017
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-	'''Unreleased structure'''

-	~~The entry 5usl is ON HOLD until Paper Publication~~	+	==Structure of vaccinia virus D8 protein bound to human Fab vv304==
-		+	<StructureSection load='5usl' size='340' side='right' caption='[[5usl]], [[Resolution\|resolution]] 2.90Å' scene=''>
-	~~Authors: Zajonc, D.M.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5usl]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5USL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5USL FirstGlance]. <br>
-	~~Description:~~ Structure of vaccinia virus D8 protein bound to human Fab vv304	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5usi\|5usi]], [[5ush\|5ush]]</td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VAC_DPP17_124, VACAC2_124, VACCL3_124 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10245 Vaccinia virus])</td></tr>
-	[[Category: Zajonc, D.M]]	+	<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=5usl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5usl OCA], [http://pdbe.org/5usl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5usl RCSB], [http://www.ebi.ac.uk/pdbsum/5usl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5usl ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Vaccinia virus]]
		+	[[Category: Zajonc, D M]]
		+	[[Category: Antibody]]
		+	[[Category: Fab]]
		+	[[Category: Ig fold]]
		+	[[Category: Immune response]]
		+	[[Category: Viral protein]]
		+	[[Category: Viral protein-immune system complex]]

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

OCA — Thu, 09 Mar 2017 14:52:32 GMT

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

←Older revision

Revision as of 14:52, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5usl is ON HOLD until Paper Publication Authors: Zajonc, D.M. Description: Structure of vaccinia virus D8 protein bound to human Fab vv304 [[Catego...

OCA — Thu, 09 Mar 2017 14:52:31 GMT

New page: '''Unreleased structure''' The entry 5usl is ON HOLD until Paper Publication Authors: Zajonc, D.M. Description: Structure of vaccinia virus D8 protein bound to human Fab vv304 [[Catego...

New page

'''Unreleased structure'''

The entry 5usl is ON HOLD until Paper Publication

Authors: Zajonc, D.M.

Description: Structure of vaccinia virus D8 protein bound to human Fab vv304
[[Category: Unreleased Structures]]
[[Category: Zajonc, D.M]]