4k2u - Revision history

OCA at 11:37, 30 November 2022

OCA — Wed, 30 Nov 2022 11:37:49 GMT

←Older revision		Revision as of 11:37, 30 November 2022
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	==Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment==		==Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment==
-	<StructureSection load='4k2u' size='340' side='right' caption='[[4k2u]], [[Resolution\|resolution]] 2.45Å' scene=''>	+	<StructureSection load='4k2u' size='340' side='right'caption='[[4k2u]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4k2u]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [~~http~~://en.wikipedia.org/wiki/~~Plaf7 Plaf7~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K2U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4K2U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4k2u]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [https://en.wikipedia.org/wiki/Plasmodium_falciparum_3D7 Plasmodium falciparum 3D7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K2U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K2U FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k4m\|4k4m]]</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=4k2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k2u OCA], [https://pdbe.org/4k2u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k2u RCSB], [https://www.ebi.ac.uk/pdbsum/4k2u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k2u ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">eba-175, MAL7P1.176 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36329 PLAF7])~~</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=4k2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k2u OCA], [~~http~~://pdbe.org/4k2u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4k2u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4k2u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4k2u ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8IBE8_PLAF7 Q8IBE8_PLAF7]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
-	*[[3D structures of antibody\|3D structures of antibody]]	+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Erythrocyte binding antigen\|Erythrocyte binding antigen]]
		+	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: ~~Plaf7~~]]	+	[[Category: Plasmodium falciparum 3D7]]
-	[[Category: Tolia~~, N H]]~~	+	[[Category: Tolia NH]]
-	~~[[Category: Antibody fragment]]~~	+
-	~~[[Category: Cell attachment]]~~	+
-	~~[[Category: Dbl domain]]~~	+
-	~~[[Category: Extracellular]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Immunity]]~~	+
-	~~[[Category: Immunoglobulin domain]]~~	+
-	~~[[Category: Ligand]]~~	+
-	~~[[Category: Receptor~~]]	+

OCA at 09:17, 15 November 2017

OCA — Wed, 15 Nov 2017 09:17:56 GMT

←Older revision		Revision as of 09:17, 15 November 2017
Line 20:		Line 20:

	==See Also==		==See Also==
-	*[[Erythrocyte binding antigen\|Erythrocyte binding antigen]]
	*[[3D structures of antibody\|3D structures of antibody]]		*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==

OCA at 20:28, 4 August 2016

OCA — Thu, 04 Aug 2016 20:28:50 GMT

←Older revision		Revision as of 20:28, 4 August 2016
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		+
	==Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment==		==Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment==
	<StructureSection load='4k2u' size='340' side='right' caption='[[4k2u]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='4k2u' size='340' side='right' caption='[[4k2u]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4k2u]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/~~Plasmodium_falciparum_3d7 Plasmodium falciparum 3d7~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K2U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K2U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4k2u]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/Plaf7 Plaf7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K2U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K2U FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k4m\|4k4m]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k4m\|4k4m]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">eba-175, MAL7P1.176 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36329 ~~Plasmodium falciparum 3D7~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">eba-175, MAL7P1.176 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36329 PLAF7])</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=4k2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k2u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4k2u RCSB], [http://www.ebi.ac.uk/pdbsum/4k2u 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=4k2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k2u OCA], [http://pdbe.org/4k2u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k2u RCSB], [http://www.ebi.ac.uk/pdbsum/4k2u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k2u 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 4k2u" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[Antibody\|Antibody]]
	*[[Erythrocyte binding antigen\|Erythrocyte binding antigen]]		*[[Erythrocyte binding antigen\|Erythrocyte binding antigen]]
		+	*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: ~~Plasmodium falciparum 3d7~~]]	+	[[Category: Plaf7]]
	[[Category: Tolia, N H]]		[[Category: Tolia, N H]]
	[[Category: Antibody fragment]]		[[Category: Antibody fragment]]

OCA at 15:19, 21 December 2014

OCA — Sun, 21 Dec 2014 15:19:46 GMT

←Older revision		Revision as of 15:19, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4k2u\| PDB=4k2u \| SCENE= }}~~	+	==Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment==
-	===Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment===	+	<StructureSection load='4k2u' size='340' side='right' caption='[[4k2u]], [[Resolution\|resolution]] 2.45Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23717209}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4k2u]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/Plasmodium_falciparum_3d7 Plasmodium falciparum 3d7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K2U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K2U FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k4m\|4k4m]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">eba-175, MAL7P1.176 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36329 Plasmodium falciparum 3D7])</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=4k2u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k2u OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4k2u RCSB], [http://www.ebi.ac.uk/pdbsum/4k2u PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Disrupting erythrocyte invasion by Plasmodium falciparum is an attractive approach to combat malaria. P. falciparum EBA-175 (PfEBA-175) engages the host receptor Glycophorin A (GpA) during invasion and is a leading vaccine candidate. Antibodies that recognize PfEBA-175 can prevent parasite growth, although not all antibodies are inhibitory. Here, using x-ray crystallography, small-angle x-ray scattering and functional studies, we report the structural basis and mechanism for inhibition by two PfEBA-175 antibodies. Structures of each antibody in complex with the PfEBA-175 receptor binding domain reveal that the most potent inhibitory antibody, R217, engages critical GpA binding residues and the proposed dimer interface of PfEBA-175. A second weakly inhibitory antibody, R218, binds to an asparagine-rich surface loop. We show that the epitopes identified by structural studies are critical for antibody binding. Together, the structural and mapping studies reveal distinct mechanisms of action, with R217 directly preventing receptor binding while R218 allows for receptor binding. Using a direct receptor binding assay we show R217 directly blocks GpA engagement while R218 does not. Our studies elaborate on the complex interaction between PfEBA-175 and GpA and highlight new approaches to targeting the molecular mechanism of P. falciparum invasion of erythrocytes. The results suggest studies aiming to improve the efficacy of blood-stage vaccines, either by selecting single or combining multiple parasite antigens, should assess the antibody response to defined inhibitory epitopes as well as the response to the whole protein antigen. Finally, this work demonstrates the importance of identifying inhibitory-epitopes and avoiding decoy-epitopes in antibody-based therapies, vaccines and diagnostics.

-	~~==About this Structure==~~	+	Structural and Functional Basis for Inhibition of Erythrocyte Invasion by Antibodies that Target Plasmodium falciparum EBA-175.,Chen E, Paing MM, Salinas N, Sim BK, Tolia NH PLoS Pathog. 2013 May;9(5):e1003390. doi: 10.1371/journal.ppat.1003390. Epub 2013, May 23. PMID:23717209<ref>PMID:23717209</ref>
-	~~[[4k2u]] is a 6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mus_musculus Mus musculus] and [http~~:~~//en~~.~~wikipedia~~.~~org~~/~~wiki/Plasmodium_falciparum_3d7 Plasmodium falciparum 3d7]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4K2U OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:023717209</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+
		+	==See Also==
		+	*[[Antibody\|Antibody]]
		+	*[[Erythrocyte binding antigen\|Erythrocyte binding antigen]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Plasmodium falciparum 3d7]]		[[Category: Plasmodium falciparum 3d7]]
-	[[Category: Tolia, N H.]]	+	[[Category: Tolia, N H]]
	[[Category: Antibody fragment]]		[[Category: Antibody fragment]]
	[[Category: Cell attachment]]		[[Category: Cell attachment]]

OCA at 15:44, 19 June 2013

OCA — Wed, 19 Jun 2013 15:44:53 GMT

←Older revision		Revision as of 15:44, 19 June 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4k2u\| PDB=4k2u \| SCENE= }}
		+	===Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment===
		+	{{ABSTRACT_PUBMED_23717209}}

-	~~The entry~~ 4k2u is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4k2u]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/Plasmodium_falciparum_3d7 Plasmodium falciparum 3d7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K2U OCA].

-	~~Authors~~: Tolia, N.H.	+	==Reference==
-		+	<ref group="xtra">PMID:023717209</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab~~ fragment	+	[[Category: Mus musculus]]
		+	[[Category: Plasmodium falciparum 3d7]]
		+	[[Category: Tolia, N H.]]
		+	[[Category: Antibody fragment]]
		+	[[Category: Cell attachment]]
		+	[[Category: Dbl domain]]
		+	[[Category: Extracellular]]
		+	[[Category: Immune system]]
		+	[[Category: Immunity]]
		+	[[Category: Immunoglobulin domain]]
		+	[[Category: Ligand]]
		+	[[Category: Receptor]]

OCA at 07:10, 2 May 2013

OCA — Thu, 02 May 2013 07:10:57 GMT

←Older revision		Revision as of 07:10, 2 May 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4k2u is ON HOLD	+	The entry 4k2u is ON HOLD until Paper Publication

	Authors: Tolia, N.H.		Authors: Tolia, N.H.

	Description: Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment		Description: Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment

OCA: Protected "4k2u" [edit=sysop:move=sysop]

OCA — Wed, 17 Apr 2013 20:07:09 GMT

Protected "4k2u" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:07, 17 April 2013

OCA: New page: '''Unreleased structure''' The entry 4k2u is ON HOLD Authors: Tolia, N.H. Description: Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment

OCA — Wed, 17 Apr 2013 20:07:08 GMT

New page: '''Unreleased structure''' The entry 4k2u is ON HOLD Authors: Tolia, N.H. Description: Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment

New page

'''Unreleased structure'''

The entry 4k2u is ON HOLD

Authors: Tolia, N.H.

Description: Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment