5n7w - Revision history

OCA at 12:32, 15 November 2023

OCA — Wed, 15 Nov 2023 12:32:48 GMT

←Older revision		Revision as of 12:32, 15 November 2023
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	==Computationally designed functional antibody==		==Computationally designed functional antibody==
-	<StructureSection load='5n7w' size='340' side='right' caption='[[5n7w]], [[Resolution\|resolution]] 1.96Å' scene=''>	+	<StructureSection load='5n7w' size='340' side='right'caption='[[5n7w]], [[Resolution\|resolution]] 1.96Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n7w]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N7W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5N7W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n7w]] is a 6 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=5N7W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5N7W FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~IL17A~~, ~~CTLA8, IL17 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=9606 HUMAN])~~</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]] 1.96Å</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=5n7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n7w OCA], [~~http~~://pdbe.org/5n7w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5n7w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5n7w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5n7w 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=5n7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n7w OCA], [https://pdbe.org/5n7w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5n7w RCSB], [https://www.ebi.ac.uk/pdbsum/5n7w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5n7w ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/IL17_HUMAN IL17_HUMAN]] Induces stromal cells to produce proinflammatory and hematopoietic cytokines. Enhances the surface expression of ICAM1/intracellular adhesion molecule 1 in fibroblasts.	+	[https://www.uniprot.org/uniprot/IL17_HUMAN IL17_HUMAN] Induces stromal cells to produce proinflammatory and hematopoietic cytokines. Enhances the surface expression of ICAM1/intracellular adhesion molecule 1 in fibroblasts.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Breed, J~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Hargreaves, D~~]]	+	[[Category: Breed J]]
-	[[Category: ~~Computationally designed antibody il17]]~~	+	[[Category: Hargreaves D]]
-	~~[[Category: Immune system~~]]	+

OCA at 06:58, 5 December 2018

OCA — Wed, 05 Dec 2018 06:58:05 GMT

←Older revision		Revision as of 06:58, 5 December 2018
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	<StructureSection load='5n7w' size='340' side='right' caption='[[5n7w]], [[Resolution\|resolution]] 1.96Å' scene=''>		<StructureSection load='5n7w' size='340' side='right' caption='[[5n7w]], [[Resolution\|resolution]] 1.96Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n7w]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N7W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N7W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n7w]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N7W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N7W 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=5n7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n7w OCA], [http://pdbe.org/5n7w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n7w RCSB], [http://www.ebi.ac.uk/pdbsum/5n7w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n7w ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IL17A, CTLA8, IL17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5n7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n7w OCA], [http://pdbe.org/5n7w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n7w RCSB], [http://www.ebi.ac.uk/pdbsum/5n7w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n7w ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/IL17_HUMAN IL17_HUMAN]] Induces stromal cells to produce proinflammatory and hematopoietic cytokines. Enhances the surface expression of ICAM1/intracellular adhesion molecule 1 in fibroblasts.		[[http://www.uniprot.org/uniprot/IL17_HUMAN IL17_HUMAN]] Induces stromal cells to produce proinflammatory and hematopoietic cytokines. Enhances the surface expression of ICAM1/intracellular adhesion molecule 1 in fibroblasts.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The ultimate goal of protein design is to introduce new biological activity. We propose a computational approach for designing functional antibodies by focusing on functional epitopes, integrating large-scale statistical analysis with multiple structural models. Machine learning is used to analyze these models and predict specific residue-residue contacts. We use this approach to design a functional antibody to counter the proinflammatory effect of the cytokine interleukin-17A (IL-17A). X-ray crystallography confirms that the designed antibody binds the targeted epitope and the interaction is mediated by the designed contacts. Cell-based assays confirm that the antibody is functional. Importantly, this approach does not rely on a high-quality 3D model of the designed complex or even a solved structure of the target. As demonstrated here, this approach can be used to design biologically active antibodies, removing some of the main hurdles in antibody design and in drug discovery.
		+
		+	Computational Design of Epitope-Specific Functional Antibodies.,Nimrod G, Fischman S, Austin M, Herman A, Keyes F, Leiderman O, Hargreaves D, Strajbl M, Breed J, Klompus S, Minton K, Spooner J, Buchanan A, Vaughan TJ, Ofran Y Cell Rep. 2018 Nov 20;25(8):2121-2131.e5. doi: 10.1016/j.celrep.2018.10.081. PMID:30463010<ref>PMID:30463010</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5n7w" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Breed, J]]		[[Category: Breed, J]]
	[[Category: Hargreaves, D]]		[[Category: Hargreaves, D]]
	[[Category: Computationally designed antibody il17]]		[[Category: Computationally designed antibody il17]]
	[[Category: Immune system]]		[[Category: Immune system]]

OCA at 08:02, 14 November 2018

OCA — Wed, 14 Nov 2018 08:02:54 GMT

←Older revision		Revision as of 08:02, 14 November 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 5n7w ~~is ON HOLD until Paper Publication~~	+	==Computationally designed functional antibody==
-		+	<StructureSection load='5n7w' size='340' side='right' caption='[[5n7w]], [[Resolution\|resolution]] 1.96Å' scene=''>
-	~~Authors~~: ~~Hargreaves~~, D., ~~Breed~~, J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5n7w]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N7W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N7W FirstGlance]. <br>
-	~~Description~~: ~~Computationally designed functional antibody~~	+	</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=5n7w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n7w OCA], [http://pdbe.org/5n7w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n7w RCSB], [http://www.ebi.ac.uk/pdbsum/5n7w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n7w ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/IL17_HUMAN IL17_HUMAN]] Induces stromal cells to produce proinflammatory and hematopoietic cytokines. Enhances the surface expression of ICAM1/intracellular adhesion molecule 1 in fibroblasts.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Breed, J]]
	[[Category: Hargreaves, D]]		[[Category: Hargreaves, D]]
-	[[Category: ~~Breed, J~~]]	+	[[Category: Computationally designed antibody il17]]
		+	[[Category: Immune system]]

OCA at 05:28, 17 January 2018

OCA — Wed, 17 Jan 2018 05:28:41 GMT

←Older revision		Revision as of 05:28, 17 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5n7w is ON HOLD	+	The entry 5n7w is ON HOLD until Paper Publication

	Authors: Hargreaves, D., Breed, J.		Authors: Hargreaves, D., Breed, J.

OCA: Protected "5n7w" [edit=sysop:move=sysop]

OCA — Thu, 09 Mar 2017 12:14:00 GMT

Protected "5n7w" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:14, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5n7w is ON HOLD Authors: Hargreaves, D., Breed, J. Description: Computationally designed functional antibody Category: Unreleased Structures [[...

OCA — Thu, 09 Mar 2017 12:13:58 GMT

New page: '''Unreleased structure''' The entry 5n7w is ON HOLD Authors: Hargreaves, D., Breed, J. Description: Computationally designed functional antibody Category: Unreleased Structures [[...

New page

'''Unreleased structure'''

The entry 5n7w is ON HOLD

Authors: Hargreaves, D., Breed, J.

Description: Computationally designed functional antibody
[[Category: Unreleased Structures]]
[[Category: Hargreaves, D]]
[[Category: Breed, J]]