4u62 - Revision history

OCA at 12:27, 20 December 2023

2023-12-20T12:27:08Z

←Older revision		Revision as of 12:27, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichodysplasia_spinulosa-associated_polyomavirus Trichodysplasia spinulosa-associated polyomavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U62 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichodysplasia_spinulosa-associated_polyomavirus Trichodysplasia spinulosa-associated polyomavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U62 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</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]] 1.55Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [https://pdbe.org/4u62 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [https://www.ebi.ac.uk/pdbsum/4u62 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u62 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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [https://pdbe.org/4u62 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [https://www.ebi.ac.uk/pdbsum/4u62 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u62 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:04, 22 March 2023

2023-03-22T08:04:40Z

←Older revision		Revision as of 08:04, 22 March 2023
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	<StructureSection load='4u62' size='340' side='right'caption='[[4u62]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='4u62' size='340' side='right'caption='[[4u62]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Tspyv Tspyv~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4U62 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichodysplasia_spinulosa-associated_polyomavirus Trichodysplasia spinulosa-associated polyomavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U62 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=862909 TSPyV])~~</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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [https://pdbe.org/4u62 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [https://www.ebi.ac.uk/pdbsum/4u62 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u62 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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [~~http~~://pdbe.org/4u62 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4u62 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4u62 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/E2ESL7_9POLY E2ESL7_9POLY]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 17:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4u62" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4u62" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Virus coat proteins 3D structures\|Virus coat proteins 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Tspyv~~]]	+	[[Category: Trichodysplasia spinulosa-associated polyomavirus]]
-	[[Category: Stehle, T]]	+	[[Category: Stehle T]]
-	[[Category: Stroh~~, L J]]~~	+	[[Category: Stroh LJ]]
-	~~[[Category: Glycan binding]]~~	+
-	~~[[Category: Jelly-roll fold]]~~	+
-	~~[[Category: Viral coat protein]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 14:23, 10 May 2019

2019-05-10T14:23:27Z

←Older revision		Revision as of 14:23, 10 May 2019
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		+
	==Trichodysplasia spinulosa-associated polyomavirus (TSPyV) VP1 in complex with 3'-sialyllactose==		==Trichodysplasia spinulosa-associated polyomavirus (TSPyV) VP1 in complex with 3'-sialyllactose==
-	<StructureSection load='4u62' size='340' side='right' caption='[[4u62]], [[Resolution\|resolution]] 1.55Å' scene=''>	+	<StructureSection load='4u62' size='340' side='right'caption='[[4u62]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U62 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Tspyv Tspyv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U62 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene></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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [http://www.ebi.ac.uk/pdbsum/4u62 PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=862909 TSPyV])</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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [http://pdbe.org/4u62 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [http://www.ebi.ac.uk/pdbsum/4u62 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u62 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4u62" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Tspyv]]
	[[Category: Stehle, T]]		[[Category: Stehle, T]]
	[[Category: Stroh, L J]]		[[Category: Stroh, L J]]

OCA at 06:33, 2 September 2015

2015-09-02T06:33:53Z

←Older revision		Revision as of 06:33, 2 September 2015
Line 6:		Line 6:
	<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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [http://www.ebi.ac.uk/pdbsum/4u62 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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [http://www.ebi.ac.uk/pdbsum/4u62 PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Trichodysplasia spinulosa-associated Polyomavirus (TSPyV) was isolated from a patient suffering from trichodysplasia spinulosa, a skin disease that can appear in severely immunocompromised patients. While TSPyV is one of the five members of the polyomavirus family that are directly linked to a human disease, details about molecular recognition events, the viral entry pathway, and intracellular trafficking events during TSPyV infection remain unknown. Here we have used a structure-function approach to shed light on the first steps of TSPyV infection. We established by cell binding and pseudovirus infection studies that TSPyV interacts with sialic acids during attachment and/or entry. Subsequently, we solved high-resolution X-ray structures of the major capsid protein VP1 of TSPyV in complex with three different glycans, the branched GM1 glycan, and the linear trisaccharides alpha2,3- and alpha2,6-sialyllactose. The terminal sialic acid of all three glycans is engaged in a unique binding site on TSPyV VP1, which is positioned about 18 A from established sialic acid binding sites of other polyomaviruses. Structure-based mutagenesis of sialic acid-binding residues leads to reduction in cell attachment and pseudovirus infection, demonstrating the physiological relevance of the TSPyV VP1-glycan interaction. Furthermore, treatments of cells with inhibitors of N-, O-linked glycosylation, and glycosphingolipid synthesis suggest that glycolipids play an important role during TSPyV infection. Our findings elucidate the first molecular recognition events of cellular infection with TSPyV and demonstrate that receptor recognition by polyomaviruses is highly variable not only in interactions with sialic acid itself, but also in the location of the binding site.
		+
		+	Trichodysplasia spinulosa-Associated Polyomavirus Uses a Displaced Binding Site on VP1 to Engage Sialylated Glycolipids.,Stroh LJ, Gee GV, Blaum BS, Dugan AS, Feltkamp MC, Atwood WJ, Stehle T PLoS Pathog. 2015 Aug 24;11(8):e1005112. doi: 10.1371/journal.ppat.1005112., eCollection 2015 Aug. PMID:26302170<ref>PMID:26302170</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 20:10, 5 August 2015

2015-08-05T20:10:47Z

←Older revision		Revision as of 20:10, 5 August 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Trichodysplasia spinulosa-associated polyomavirus (TSPyV) VP1 in complex with 3'-sialyllactose==
-		+	<StructureSection load='4u62' size='340' side='right' caption='[[4u62]], [[Resolution\|resolution]] 1.55Å' scene=''>
-	~~The entry~~ 4u62 is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4u62]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U62 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U62 FirstGlance]. <br>
-	~~Authors~~: ~~Stroh, L~~.J.~~, Stehle, T~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene></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=4u62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u62 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u62 RCSB], [http://www.ebi.ac.uk/pdbsum/4u62 PDBsum]</span></td></tr>
-	~~Description~~:	+	</table>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	__TOC__
-	[[~~Category~~: ~~Stroh~~, L.J]]	+	</StructureSection>
	[[Category: Stehle, T]]		[[Category: Stehle, T]]
		+	[[Category: Stroh, L J]]
		+	[[Category: Glycan binding]]
		+	[[Category: Jelly-roll fold]]
		+	[[Category: Viral coat protein]]
		+	[[Category: Viral protein]]

OCA at 18:10, 24 December 2014

2014-12-24T18:10:23Z

←Older revision		Revision as of 18:10, 24 December 2014
Line 5:		Line 5:
	Authors: Stroh, L.J., Stehle, T.		Authors: Stroh, L.J., Stehle, T.

-	Description:	+	Description:
		+	[[Category: Unreleased Structures]]
		+	[[Category: Stroh, L.J]]
		+	[[Category: Stehle, T]]

OCA: Protected "4u62" [edit=sysop:move=sysop]

2014-08-07T01:31:32Z

Protected "4u62" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:31, 7 August 2014

OCA: New page: '''Unreleased structure''' The entry 4u62 is ON HOLD Authors: Stroh, L.J., Stehle, T. Description:

2014-08-07T01:31:31Z

New page: '''Unreleased structure''' The entry 4u62 is ON HOLD Authors: Stroh, L.J., Stehle, T. Description:

New page

'''Unreleased structure'''

The entry 4u62 is ON HOLD

Authors: Stroh, L.J., Stehle, T.

Description: