6oai - Revision history

OCA at 07:06, 11 October 2023

OCA — Wed, 11 Oct 2023 07:06:54 GMT

←Older revision		Revision as of 07:06, 11 October 2023
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	<StructureSection load='6oai' size='340' side='right'caption='[[6oai]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6oai' size='340' side='right'caption='[[6oai]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oai]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human_group_a_rotavirus~~ Human ~~group a~~ rotavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OAI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6OAI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oai]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_rotavirus_A Human rotavirus A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OAI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OAI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=~~M2J~~:6-~~deoxy~~-~~alpha~~-L-~~galactopyranosyl-(1- 2)-beta~~-D-~~galactopyranosyl~~-~~(1- 3)-2-(acetylamino)-2-deoxy-beta~~-D-~~glucopyranosyl-(1- 3)-beta-D-galactopyranosyl-(1- 4)-beta-D-glucopyranose~~'>~~M2J~~</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]] 1.9Å</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=6oai FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oai OCA], [~~http~~://pdbe.org/6oai PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6oai RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6oai PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6oai ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=6oai FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oai OCA], [https://pdbe.org/6oai PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6oai RCSB], [https://www.ebi.ac.uk/pdbsum/6oai PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6oai ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/D2DXN5_9VIRU D2DXN5_9VIRU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human ~~group a~~ rotavirus]]	+	[[Category: Human rotavirus A]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jiang, X]]	+	[[Category: Jiang X]]
-	[[Category: Kennedy~~, M A~~]]	+	[[Category: Kennedy MA]]
-	[[Category: Liu, Y]]	+	[[Category: Liu Y]]
-	[[Category: Xu, S]]	+	[[Category: Xu S]]
-	~~[[Category: Host receptor interaction]]~~	+
-	~~[[Category: Rotavirus]]~~	+
-	~~[[Category: Virus~~]]	+

OCA at 07:19, 8 April 2020

OCA — Wed, 08 Apr 2020 07:19:26 GMT

←Older revision		Revision as of 07:19, 8 April 2020
Line 3:		Line 3:
	<StructureSection load='6oai' size='340' side='right'caption='[[6oai]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6oai' size='340' side='right'caption='[[6oai]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oai]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OAI OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6OAI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oai]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_group_a_rotavirus Human group a rotavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OAI OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OAI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=M2J:6-deoxy-alpha-L-galactopyranosyl-(1- 2)-beta-D-galactopyranosyl-(1- 3)-2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl-(1- 3)-beta-D-galactopyranosyl-(1- 4)-beta-D-glucopyranose'>M2J</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=M2J:6-deoxy-alpha-L-galactopyranosyl-(1- 2)-beta-D-galactopyranosyl-(1- 3)-2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl-(1- 3)-beta-D-galactopyranosyl-(1- 4)-beta-D-glucopyranose'>M2J</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=6oai FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oai OCA], [http://pdbe.org/6oai PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oai RCSB], [http://www.ebi.ac.uk/pdbsum/6oai PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oai 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=6oai FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oai OCA], [http://pdbe.org/6oai PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oai RCSB], [http://www.ebi.ac.uk/pdbsum/6oai PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oai ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Initial cell attachment of rotavirus (RV) to specific cell surface glycan receptors, which is the essential first step in RV infection, is mediated by the VP8* domain of the spike protein VP4. Recently, human histo-blood group antigens (HBGAs) have been identified as receptors or attachment factors for human RV strains. RV strains in the P[4] and P[8] genotypes of the P[II] genogroup share common recognition of the Lewis b (Leb) and H type 1 antigens, however, the molecular basis of receptor recognition by the major human P[8] RVs remains unknown due to lack of experimental structural information. Here, we used nuclear magnetic resonance (NMR) spectroscopy-based titration experiments and NMR-derived high ambiguity driven docking (HADDOCK) methods to elucidate the molecular basis for P[8] VP8* recognition of the Leb (LNDFH I) and type 1 HBGAs. We also used X-ray crystallography to determine the molecular details underlying P[6] recognition of H type 1 HBGAs. Unlike P[6]/P[19] VP8s that recognize H type 1 HBGAs in a binding surface composed of an alpha-helix and a beta-sheet, referred as the "betaalpha binding site", the P[8] and P[4] VP8s bind Leb HBGAs in a previously undescribed pocket formed by the edges of two beta-sheets, referred to as the "betabeta binding site". Importantly, the P[8] and P[4] VP8s retain binding capability to non-Leb type 1 HBGAs using the betaalpha binding site. The presence of two distinct binding sites for Leb and non-Leb HBGA glycans in the P[8] and P[4] VP8 domains suggests host-pathogen co-evolution under structural and functional adaptation of RV pathogens to host glycan polymorphisms. Assessment and understanding of the precise impact of this co-evolutionary process in determining RV host ranges and cross-species RV transmission should facilitate improved RV vaccine development and prediction of future RV strain emergence and epidemics.
		+
		+	Molecular basis of P[II] major human rotavirus VP8* domain recognition of histo-blood group antigens.,Xu S, Ahmed LU, Stuckert MR, McGinnis KR, Liu Y, Tan M, Huang P, Zhong W, Zhao D, Jiang X, Kennedy MA PLoS Pathog. 2020 Mar 24;16(3):e1008386. doi: 10.1371/journal.ppat.1008386., eCollection 2020 Mar. PMID:32208455<ref>PMID:32208455</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6oai" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human group a rotavirus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Jiang, X]]		[[Category: Jiang, X]]

OCA at 09:43, 18 March 2020

OCA — Wed, 18 Mar 2020 09:43:04 GMT

←Older revision		Revision as of 09:43, 18 March 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6oai is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of P[6] rotavirus vp8* complexed with LNFPI==
-		+	<StructureSection load='6oai' size='340' side='right'caption='[[6oai]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors~~: Xu, S., ~~Liu~~, Y., ~~Jiang, X~~., ~~Kennedy, M~~.A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6oai]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OAI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OAI FirstGlance]. <br>
-	~~Description: Crystal structure of P~~[6] ~~rotavirus vp8* complexed with LNFPI~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=M2J:6-deoxy-alpha-L-galactopyranosyl-(1- 2)-beta-D-galactopyranosyl-(1- 3)-2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl-(1- 3)-beta-D-galactopyranosyl-(1- 4)-beta-D-glucopyranose'>M2J</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=6oai FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oai OCA], [http://pdbe.org/6oai PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oai RCSB], [http://www.ebi.ac.uk/pdbsum/6oai PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oai ProSAT]</span></td></tr>
-	[[Category: Kennedy, M.A]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Jiang, X]]
		+	[[Category: Kennedy, M A]]
	[[Category: Liu, Y]]		[[Category: Liu, Y]]
	[[Category: Xu, S]]		[[Category: Xu, S]]
-	[[Category: ~~Jiang, X~~]]	+	[[Category: Host receptor interaction]]
		+	[[Category: Rotavirus]]
		+	[[Category: Virus]]

OCA at 04:37, 3 April 2019

OCA — Wed, 03 Apr 2019 04:37:24 GMT

←Older revision		Revision as of 04:37, 3 April 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6oai is ON HOLD	+	The entry 6oai is ON HOLD until Paper Publication

	Authors: Xu, S., Liu, Y., Jiang, X., Kennedy, M.A.		Authors: Xu, S., Liu, Y., Jiang, X., Kennedy, M.A.
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	Description: Crystal structure of P[6] rotavirus vp8* complexed with LNFPI		Description: Crystal structure of P[6] rotavirus vp8* complexed with LNFPI
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Xu, S]]
	[[Category: Kennedy, M.A]]		[[Category: Kennedy, M.A]]
	[[Category: Liu, Y]]		[[Category: Liu, Y]]
		+	[[Category: Xu, S]]
	[[Category: Jiang, X]]		[[Category: Jiang, X]]

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

OCA — Wed, 27 Mar 2019 05:02:47 GMT

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

←Older revision

Revision as of 05:02, 27 March 2019

OCA: New page: '''Unreleased structure''' The entry 6oai is ON HOLD Authors: Xu, S., Liu, Y., Jiang, X., Kennedy, M.A. Description: Crystal structure of P[6] rotavirus vp8* complexed with LNFPI [[Cat...

OCA — Wed, 27 Mar 2019 05:02:46 GMT

New page: '''Unreleased structure''' The entry 6oai is ON HOLD Authors: Xu, S., Liu, Y., Jiang, X., Kennedy, M.A. Description: Crystal structure of P[6] rotavirus vp8* complexed with LNFPI [[Cat...

New page

'''Unreleased structure'''

The entry 6oai is ON HOLD

Authors: Xu, S., Liu, Y., Jiang, X., Kennedy, M.A.

Description: Crystal structure of P[6] rotavirus vp8* complexed with LNFPI
[[Category: Unreleased Structures]]
[[Category: Xu, S]]
[[Category: Kennedy, M.A]]
[[Category: Liu, Y]]
[[Category: Jiang, X]]