6idi - Revision history

OCA at 10:32, 27 March 2024

2024-03-27T10:32:42Z

←Older revision		Revision as of 10:32, 27 March 2024
Line 3:		Line 3:
	<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>		<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IDI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IDI FirstGlance]. <br>
-	</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [https://pdbe.org/6idi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [https://www.ebi.ac.uk/pdbsum/6idi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi 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]] 12Å</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [https://pdbe.org/6idi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [https://www.ebi.ac.uk/pdbsum/6idi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/A9LID6_9FLAV A9LID6_9FLAV]
-	Dengue virus (DENV) particles are released from cells in different maturation states. Fully immature DENV (immDENV) is generally non-infectious, but can become infectious when complexed with anti-precursor membrane (prM) protein antibodies. It is unknown how anti-prM antibody-coated particles can undergo membrane fusion since the prM caps the envelope (E) protein fusion loop. Here, we determined cryoelectron microscopy (cryo-EM) maps of the immDENV:anti-prM complex at different pH values, mimicking the extracellular (pH 8.0) or endosomal (pH 5.0) environments. At pH 5.0, there are two structural classes with fewer antibodies bound than at pH 8.0. These classes may represent different maturation states. Molecular simulations, together with the measured high-affinity pr:antibody interaction (versus the weak pr:E interaction) and also the low pH cryo-EM structures, suggest how antibody:pr complex can dislodge from the E protein at low pH. This exposes the E protein fusion loop enhancing virus interaction with endosomes.	+
-		+
-	Mechanism of Enhanced Immature Dengue Virus Attachment to Endosomal Membrane Induced by prM Antibody.,Wirawan M, Fibriansah G, Marzinek JK, Lim XX, Ng TS, Sim AYL, Zhang Q, Kostyuchenko VA, Shi J, Smith SA, Verma CS, Anand G, Crowe JE Jr, Bond PJ, Lok SM Structure. 2018 Oct 30. pii: S0969-2126(18)30370-8. doi:, 10.1016/~~j.str.2018.10.009. PMID:30471923<ref>PMID:30471923<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6idi" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</SX>		</SX>
	[[Category: Dengue virus 3]]		[[Category: Dengue virus 3]]
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fibriansah, G]]	+	[[Category: Fibriansah G]]
-	[[Category: Kostyuchenko~~, V A~~]]	+	[[Category: Kostyuchenko VA]]
-	[[Category: Lok~~, S M~~]]	+	[[Category: Lok SM]]
-	[[Category: Ng~~, T S~~]]	+	[[Category: Ng TS]]
-	[[Category: Shi, J]]	+	[[Category: Shi J]]
-	[[Category: Wirawan, M]]	+	[[Category: Wirawan M]]
-	[[Category: Zhang, Q]]	+	[[Category: Zhang Q]]
-	~~[[Category: Human antibody]]~~	+
-	~~[[Category: Immature dengue virus]]~~	+
-	~~[[Category: Virus~~]]	+

OCA at 15:24, 8 June 2021

2021-06-08T15:24:13Z

←Older revision		Revision as of 15:24, 8 June 2021
Line 3:		Line 3:
	<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>		<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6IDI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IDI 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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [~~http~~://pdbe.org/6idi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6idi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>	+	</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [https://pdbe.org/6idi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [https://www.ebi.ac.uk/pdbsum/6idi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:43, 11 April 2020

2020-04-11T01:43:33Z

←Older revision		Revision as of 01:43, 11 April 2020
Line 3:		Line 3:
	<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>		<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6IDI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6IDI FirstGlance]. <br>
-	</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [http://pdbe.org/6idi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [http://www.ebi.ac.uk/pdbsum/6idi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>	+	</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [http://pdbe.org/6idi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [http://www.ebi.ac.uk/pdbsum/6idi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:36, 5 March 2020

2020-03-05T04:36:56Z

←Older revision		Revision as of 04:36, 5 March 2020
Line 1:		Line 1:

	==Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 8.0.==		==Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 8.0.==
-	<~~StructureSection~~ load='6idi' size='340' side='right'caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>	+	<SX load='6idi' size='340' side='right' viewer='molstar' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>		<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>
Line 18:		Line 18:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Dengue virus 3]]		[[Category: Dengue virus 3]]
	[[Category: Human]]		[[Category: Human]]

OCA at 12:43, 13 March 2019

2019-03-13T12:43:43Z

←Older revision		Revision as of 12:43, 13 March 2019
Line 1:		Line 1:

	==Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 8.0.==		==Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 8.0.==
-	<StructureSection load='6idi' size='340' side='right' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>	+	<StructureSection load='6idi' size='340' side='right'caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>		<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>
Line 21:		Line 21:
	[[Category: Dengue virus 3]]		[[Category: Dengue virus 3]]
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Fibriansah, G]]		[[Category: Fibriansah, G]]
	[[Category: Kostyuchenko, V A]]		[[Category: Kostyuchenko, V A]]

OCA at 08:46, 21 February 2019

2019-02-21T08:46:54Z

←Older revision		Revision as of 08:46, 21 February 2019
Line 3:		Line 3:
	<StructureSection load='6idi' size='340' side='right' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>		<StructureSection load='6idi' size='340' side='right' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_3 Dengue virus 3] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>
	</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [http://pdbe.org/6idi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [http://www.ebi.ac.uk/pdbsum/6idi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>		</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [http://pdbe.org/6idi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [http://www.ebi.ac.uk/pdbsum/6idi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>
	</table>		</table>
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Dengue virus 3]]
		+	[[Category: Human]]
	[[Category: Fibriansah, G]]		[[Category: Fibriansah, G]]
	[[Category: Kostyuchenko, V A]]		[[Category: Kostyuchenko, V A]]

OCA at 06:53, 12 December 2018

2018-12-12T06:53:14Z

←Older revision		Revision as of 06:53, 12 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6idi is ~~ON HOLD~~	+	==Cryo-EM structure of Immature Dengue virus serotype 3 in complex with human antibody 1H10 Fab at pH 8.0.==
		+	<StructureSection load='6idi' size='340' side='right' caption='[[6idi]], [[Resolution\|resolution]] 12.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6idi]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IDI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IDI FirstGlance]. <br>
		+	</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=6idi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6idi OCA], [http://pdbe.org/6idi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6idi RCSB], [http://www.ebi.ac.uk/pdbsum/6idi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6idi ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Dengue virus (DENV) particles are released from cells in different maturation states. Fully immature DENV (immDENV) is generally non-infectious, but can become infectious when complexed with anti-precursor membrane (prM) protein antibodies. It is unknown how anti-prM antibody-coated particles can undergo membrane fusion since the prM caps the envelope (E) protein fusion loop. Here, we determined cryoelectron microscopy (cryo-EM) maps of the immDENV:anti-prM complex at different pH values, mimicking the extracellular (pH 8.0) or endosomal (pH 5.0) environments. At pH 5.0, there are two structural classes with fewer antibodies bound than at pH 8.0. These classes may represent different maturation states. Molecular simulations, together with the measured high-affinity pr:antibody interaction (versus the weak pr:E interaction) and also the low pH cryo-EM structures, suggest how antibody:pr complex can dislodge from the E protein at low pH. This exposes the E protein fusion loop enhancing virus interaction with endosomes.

-	~~Authors~~:	+	Mechanism of Enhanced Immature Dengue Virus Attachment to Endosomal Membrane Induced by prM Antibody.,Wirawan M, Fibriansah G, Marzinek JK, Lim XX, Ng TS, Sim AYL, Zhang Q, Kostyuchenko VA, Shi J, Smith SA, Verma CS, Anand G, Crowe JE Jr, Bond PJ, Lok SM Structure. 2018 Oct 30. pii: S0969-2126(18)30370-8. doi:, 10.1016/j.str.2018.10.009. PMID:30471923<ref>PMID:30471923</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6idi" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Fibriansah, G]]
		+	[[Category: Kostyuchenko, V A]]
		+	[[Category: Lok, S M]]
		+	[[Category: Ng, T S]]
		+	[[Category: Shi, J]]
		+	[[Category: Wirawan, M]]
		+	[[Category: Zhang, Q]]
		+	[[Category: Human antibody]]
		+	[[Category: Immature dengue virus]]
		+	[[Category: Virus]]

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

2018-09-19T18:18:06Z

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

←Older revision

Revision as of 18:18, 19 September 2018

OCA: New page: '''Unreleased structure''' The entry 6idi is ON HOLD Authors: Description: Category: Unreleased Structures

2018-09-19T18:18:04Z

New page: '''Unreleased structure''' The entry 6idi is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6idi is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]