6mxs - Revision history

OCA at 06:41, 11 October 2023

OCA — Wed, 11 Oct 2023 06:41:13 GMT

←Older revision		Revision as of 06:41, 11 October 2023
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	<StructureSection load='6mxs' size='340' side='right'caption='[[6mxs]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='6mxs' size='340' side='right'caption='[[6mxs]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mxs]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MXS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MXS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mxs]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MXS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MXS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.95Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6mxr\|6mxr]], [[6my4\|6my4]], [[6my5\|6my5]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=6mxs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mxs OCA], [~~http~~://pdbe.org/6mxs PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mxs RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mxs PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6mxs 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=6mxs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mxs OCA], [https://pdbe.org/6mxs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mxs RCSB], [https://www.ebi.ac.uk/pdbsum/6mxs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mxs ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q7Z3Y4_HUMAN Q7Z3Y4_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Manenda~~, M S~~]]	+	[[Category: Manenda MS]]
-	[[Category: Picard, M E]]	+	[[Category: Picard M-E]]
-	[[Category: Shi, R]]	+	[[Category: Shi R]]
-	~~[[Category: Aggregation]]~~	+
-	~~[[Category: Antibody assembly]]~~	+
-	~~[[Category: Fab fragment]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 06:21, 31 July 2019

OCA — Wed, 31 Jul 2019 06:21:44 GMT

←Older revision		Revision as of 06:21, 31 July 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6mxs is ~~ON HOLD until Oct 31 2020~~	+	==Crystal structure of the dimeric bH1-Fab variant [HC-Y33W,HC-D98F,HC-G99M]==
		+	<StructureSection load='6mxs' size='340' side='right'caption='[[6mxs]], [[Resolution\|resolution]] 1.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6mxs]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MXS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MXS FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6mxr\|6mxr]], [[6my4\|6my4]], [[6my5\|6my5]]</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=6mxs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mxs OCA], [http://pdbe.org/6mxs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mxs RCSB], [http://www.ebi.ac.uk/pdbsum/6mxs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mxs ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Solution stability is an important factor in the optimization of engineered biotherapeutic candidates such as monoclonal antibodies because of its possible effects on manufacturability, pharmacology, efficacy and safety. A detailed atomic understanding of the mechanisms governing self-association of natively folded protein monomers is required to devise predictive tools to guide screening and re-engineering along the drug development pipeline. We investigated pairs of affinity-matured full-size antibodies and observed drastically different propensities to aggregate from variants differing by a single amino-acid. Biophysical testing showed that antigen-binding fragments (Fabs) from the aggregating antibodies also reversibly associated with equilibrium dissociation constants in the low-micromolar range. Crystal structures (PDB accession codes 6MXR, 6MXS, 6MY4, 6MY5) and bottom-up hydrogen-exchange mass spectrometry revealed that Fab self-association occurs in a symmetric mode that involves the antigen complementarity-determining regions. Subtle local conformational changes incurred upon point mutation of monomeric variants foster formation of complementary polar interactions and hydrophobic contacts to generate a dimeric Fab interface. Testing of popular in silico tools generally indicated low reliabilities for predicting the aggregation propensities observed. A structure-aggregation data set is provided here in order to stimulate further improvements of in silico tools for prediction of native aggregation. Incorporation of intermolecular docking, conformational flexibility, and short-range packing interactions may all be necessary features of the ideal algorithm.

-	~~Authors~~:	+	Binding symmetry and surface flexibility mediate antibody self-association.,Schrag JD, Picard ME, Gaudreault F, Gagnon LP, Baardsnes J, Manenda MS, Sheff J, Deprez C, Baptista C, Hogues H, Kelly JF, Purisima EO, Shi R, Sulea T MAbs. 2019 Jul 18:1-19. doi: 10.1080/19420862.2019.1632114. PMID:31318308<ref>PMID:31318308</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6mxs" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Manenda, M S]]
		+	[[Category: Picard, M E]]
		+	[[Category: Shi, R]]
		+	[[Category: Aggregation]]
		+	[[Category: Antibody assembly]]
		+	[[Category: Fab fragment]]
		+	[[Category: Immune system]]

OCA at 19:03, 2 December 2018

OCA — Sun, 02 Dec 2018 19:03:44 GMT

←Older revision		Revision as of 19:03, 2 December 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6mxs is ON HOLD	+	The entry 6mxs is ON HOLD until Oct 31 2020

	Authors:		Authors:

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

OCA — Wed, 07 Nov 2018 10:57:05 GMT

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

←Older revision

Revision as of 10:57, 7 November 2018

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

OCA — Wed, 07 Nov 2018 10:57:03 GMT

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

New page

'''Unreleased structure'''

The entry 6mxs is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]