7rdm - Revision history

OCA at 16:29, 18 October 2023

OCA — Wed, 18 Oct 2023 16:29:14 GMT

←Older revision		Revision as of 16:29, 18 October 2023
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-	====	+	==Crystal structure of PCDN-38B, a broadly neutralizing anti-HIV antibody==
-	<StructureSection load='7rdm' size='340' side='right'caption='[[7rdm]]' scene=''>	+	<StructureSection load='7rdm' size='340' side='right'caption='[[7rdm]], [[Resolution\|resolution]] 2.08Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7rdm]] is a 2 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=7RDM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RDM 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=7rdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rdm OCA], [https://pdbe.org/7rdm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rdm RCSB], [https://www.ebi.ac.uk/pdbsum/7rdm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rdm ProSAT]</span></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]] 2.08Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CYS:CYSTEINE'>CYS</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=7rdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rdm OCA], [https://pdbe.org/7rdm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rdm RCSB], [https://www.ebi.ac.uk/pdbsum/7rdm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rdm ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Antibodies with exceptional breadth and potency have been elicited in some individuals during natural HIV-1 infection. Elicitation and affinity maturation of broadly neutralizing antibodies (bnAbs) is therefore the central goal of HIV-1 vaccine development. The functional properties of bnAbs also make them attractive as immunotherapeutic agents, which has led to their production and optimization for passive immunotherapy. This process requires in vitro manufacturing and monitoring of any heterogeneous expression, especially when subpopulations of antibodies are produced with varying levels of biological activity. Post-translational modification (PTM) of antibodies can contribute to heterogeneity and is the focus of this study. Specifically, we have investigated cysteinylation in a bnAb lineage (PCDN family) targeting the N332-glycan supersite on the surface envelope glycoprotein (Env) of HIV-1. This PTM is defined by capping of unpaired cysteine residues with molecular cysteine. Through chromatography and mass spectrometry, we were able to characterize subpopulations of cysteinylated and non-cysteinylated antibodies when expressed in mammalian cells. The crystal structures of two PCDN antibodies represent the first structures of a cysteinylated antibody and reveal that the cysteinylation in this case is located in CDRH3. Biophysical studies indicate that cysteinylation of these HIV-1 antibodies does not interfere with antigen binding, which has been reported to occur in other cysteinylated antibodies. As such, these studies highlight the need for further investigation of cysteinylation in anti-HIV and other bnAbs.
		+
		+	Structural and Biochemical Characterization of Cysteinylation in Broadly Neutralizing Antibodies to HIV-1.,Omorodion O, Wilson IA J Mol Biol. 2021 Dec 3;433(24):167303. doi: 10.1016/j.jmb.2021.167303. Epub 2021 , Oct 16. PMID:34666044<ref>PMID:34666044</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7rdm" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Omorodion O]]
		+	[[Category: Wilson IA]]

OCA at 06:16, 10 November 2021

OCA — Wed, 10 Nov 2021 06:16:38 GMT

←Older revision		Revision as of 06:16, 10 November 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7rdm ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7rdm' size='340' side='right'caption='[[7rdm]]' scene=''>
-	~~Authors~~: ~~Omorodion, O~~.~~, Wilson, I~~.A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of PCDN-38B~~, ~~a broadly neutralizing anti~~-~~HIV antibody~~	+	</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=7rdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rdm OCA], [https://pdbe.org/7rdm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rdm RCSB], [https://www.ebi.ac.uk/pdbsum/7rdm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rdm ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: ~~Omorodion, O~~]]	+	__TOC__
-	[[Category: ~~Wilson, I.A~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 09:34, 28 July 2021

OCA — Wed, 28 Jul 2021 09:34:25 GMT

←Older revision		Revision as of 09:34, 28 July 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7rdm is ON HOLD	+	The entry 7rdm is ON HOLD until Paper Publication

	Authors: Omorodion, O., Wilson, I.A.		Authors: Omorodion, O., Wilson, I.A.
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	Description: Crystal structure of PCDN-38B, a broadly neutralizing anti-HIV antibody		Description: Crystal structure of PCDN-38B, a broadly neutralizing anti-HIV antibody
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Wilson, I.A]]
	[[Category: Omorodion, O]]		[[Category: Omorodion, O]]
		+	[[Category: Wilson, I.A]]

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

OCA — Wed, 21 Jul 2021 08:00:38 GMT

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

←Older revision

Revision as of 08:00, 21 July 2021

OCA: New page: '''Unreleased structure''' The entry 7rdm is ON HOLD Authors: Omorodion, O., Wilson, I.A. Description: Crystal structure of PCDN-38B, a broadly neutralizing anti-HIV antibody [[Categor...

OCA — Wed, 21 Jul 2021 08:00:37 GMT

New page: '''Unreleased structure''' The entry 7rdm is ON HOLD Authors: Omorodion, O., Wilson, I.A. Description: Crystal structure of PCDN-38B, a broadly neutralizing anti-HIV antibody [[Categor...

New page

'''Unreleased structure'''

The entry 7rdm is ON HOLD

Authors: Omorodion, O., Wilson, I.A.

Description: Crystal structure of PCDN-38B, a broadly neutralizing anti-HIV antibody
[[Category: Unreleased Structures]]
[[Category: Wilson, I.A]]
[[Category: Omorodion, O]]