7bub - Revision history

OCA at 10:54, 23 October 2024

2024-10-23T10:54:01Z

← Older revision		Revision as of 10:54, 23 October 2024
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	==Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5==		==Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5==
	<~~StructureSection~~ load='7bub' size='340' side='right'caption='[[7bub]]' scene=''>		<SX load='7bub' size='340' side='right' viewer='molstar' caption='[[7bub]], [[Resolution\|resolution]] 4.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BUB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=7BUB FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BUB FirstGlance]. <br>
	</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=7bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bub OCA], [~~http~~://pdbe.org/7bub PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7bub RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7bub PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7bub ProSAT]</span></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 4.2Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=7bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bub OCA], [https://pdbe.org/7bub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bub RCSB], [https://www.ebi.ac.uk/pdbsum/7bub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bub ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Human antibody SIgN-3C neutralizes dengue virus (DENV) and Zika virus (ZIKV) differently. DENV:SIgN-3C Fab and ZIKV:SIgN-3C Fab cryoelectron microscopy (cryo-EM) complex structures show Fabs crosslink E protein dimers at extracellular pH 8.0 condition and also when further incubated at acidic endosomal conditions (pH 8.0-6.5). We observe Fab binding to DENV (pH 8.0-5.0) prevents virus fusion, and the number of bound Fabs increase (from 120 to 180). For ZIKV, although there are already 180 copies of Fab at pH 8.0, virus structural changes at pH 5.0 are not inhibited. The immunoglobulin G (IgG):DENV structure at pH 8.0 shows both Fab arms bind to epitopes around the 2-fold vertex. On ZIKV, an additional Fab around the 5-fold vertex at pH 8.0 suggests one IgG arm would engage with an epitope, although the other may bind to other viruses, causing aggregation. For DENV2 at pH 5.0, a similar scenario would occur, suggesting DENV2:IgG complex would aggregate in the endosome. Hence, a single antibody employs different neutralization mechanisms against different flaviviruses.

			A Human Antibody Neutralizes Different Flaviviruses by Using Different Mechanisms.,Zhang S, Loy T, Ng TS, Lim XN, Chew SV, Tan TY, Xu M, Kostyuchenko VA, Tukijan F, Shi J, Fink K, Lok SM Cell Rep. 2020 Apr 28;31(4):107584. doi: 10.1016/j.celrep.2020.107584. PMID:32348755<ref>PMID:32348755</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7bub" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Antibody 3D structures\|Antibody 3D structures]]
			== References ==
			<references/>
	__TOC__		__TOC__
	</~~StructureSection~~>		</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Chew SV]]		[[Category: Chew SV]]

OCA at 05:39, 13 May 2020

2020-05-13T05:39:14Z

← Older revision		Revision as of 05:39, 13 May 2020
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7bub ~~is ON HOLD until Paper Publication~~		==Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5==
			<StructureSection load='7bub' size='340' side='right'caption='[[7bub]]' scene=''>
	~~Authors~~: ~~Zhang, S~~.~~, Chew, S~~.V., ~~Lim, X~~.N., Ng, T.S., ~~Kostyuchenko, V~~.A., ~~Lok, S~~.M.		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BUB OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7BUB FirstGlance]. <br>
	~~Description: Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5~~		</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=7bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bub OCA], [http://pdbe.org/7bub PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7bub RCSB], [http://www.ebi.ac.uk/pdbsum/7bub PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7bub ProSAT]</span></td></tr>
	[[Category: ~~Unreleased~~ Structures]]		</table>
	[[Category: ~~Zhang, S~~]]		__TOC__
	[[Category: ~~Lok, S.M~~]]		</StructureSection>
	[[Category: ~~Ng, T.S~~]]		[[Category: Large Structures]]
	[[Category: ~~Chew, S.V~~]]		[[Category: Chew SV]]
	[[Category: ~~Lim, X.N~~]]		[[Category: Kostyuchenko VA]]
	[[Category: ~~Kostyuchenko, V.A~~]]		[[Category: Lim XN]]
			[[Category: Lok SM]]
			[[Category: Ng TS]]
			[[Category: Zhang S]]

OCA at 05:34, 29 April 2020

2020-04-29T05:34:04Z

← Older revision		Revision as of 05:34, 29 April 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7bub is ON HOLD		The entry 7bub is ON HOLD until Paper Publication

	Authors: Zhang, S., Chew, S.V., Lim, X.N., Ng, T.S., Kostyuchenko, V.A., Lok, S.M.		Authors: Zhang, S., Chew, S.V., Lim, X.N., Ng, T.S., Kostyuchenko, V.A., Lok, S.M.
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	Description: Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5		Description: Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
			[[Category: Zhang, S]]
	[[Category: Lok, S.M]]		[[Category: Lok, S.M]]
	~~[[Category: Kostyuchenko, V.A]]~~
	~~[[Category: Zhang, S]]~~
	[[Category: Ng, T.S]]		[[Category: Ng, T.S]]
	[[Category: Chew, S.V]]		[[Category: Chew, S.V]]
	[[Category: Lim, X.N]]		[[Category: Lim, X.N]]
			[[Category: Kostyuchenko, V.A]]

OCA: Protected "7bub" [edit=sysop:move=sysop]

2020-04-15T05:42:00Z

Protected "7bub" [edit=sysop:move=sysop]

← Older revision	Revision as of 05:42, 15 April 2020
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7bub is ON HOLD Authors: Zhang, S., Chew, S.V., Lim, X.N., Ng, T.S., Kostyuchenko, V.A., Lok, S.M. Description: Cryo-EM structure of Dengue virus s...

2020-04-15T05:41:59Z

New page: '''Unreleased structure''' The entry 7bub is ON HOLD Authors: Zhang, S., Chew, S.V., Lim, X.N., Ng, T.S., Kostyuchenko, V.A., Lok, S.M. Description: Cryo-EM structure of Dengue virus s...

New page

'''Unreleased structure'''

The entry 7bub is ON HOLD

Authors: Zhang, S., Chew, S.V., Lim, X.N., Ng, T.S., Kostyuchenko, V.A., Lok, S.M.

Description: Cryo-EM structure of Dengue virus serotype 2 complexed with Fab SIgN-3C at pH 6.5
[[Category: Unreleased Structures]]
[[Category: Lok, S.M]]
[[Category: Kostyuchenko, V.A]]
[[Category: Zhang, S]]
[[Category: Ng, T.S]]
[[Category: Chew, S.V]]
[[Category: Lim, X.N]]