5fb8 - Revision history

OCA at 06:44, 19 July 2023

OCA — Wed, 19 Jul 2023 06:44:57 GMT

←Older revision		Revision as of 06:44, 19 July 2023
Line 3:		Line 3:
	<StructureSection load='5fb8' size='340' side='right'caption='[[5fb8]], [[Resolution\|resolution]] 2.07Å' scene=''>		<StructureSection load='5fb8' size='340' side='right'caption='[[5fb8]], [[Resolution\|resolution]] 2.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fb8]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~] and [~~http~~://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FB8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5FB8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fb8]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FB8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FB8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 2.07Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i16\|1i16]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IL16 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [https://pdbe.org/5fb8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [https://www.ebi.ac.uk/pdbsum/5fb8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fb8 ProSAT]</span></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=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [~~http~~://pdbe.org/5fb8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5fb8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5fb8 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/IL16_HUMAN IL16_HUMAN]] Interleukin-16 stimulates a migratory response in CD4+ lymphocytes, monocytes, and eosinophils. Primes CD4+ T-cells for IL-2 and IL-15 responsiveness. Also induces T-lymphocyte expression of interleukin 2 receptor. Ligand for CD4.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref> Isoform 1 may act as a scaffolding protein that anchors ion channels in the membrane.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref> Isoform 3 is involved in cell cycle progression in T-cells. Appears to be involved in transcriptional regulation of SKP2 and is probably part of a transcriptional repression complex on the core promoter of the SKP2 gene. May act as a scaffold for GABPB1 (the DNA-binding subunit the GABP transcription factor complex) and HDAC3 thus maintaining transcriptional repression and blocking cell cycle progression in resting T-cells.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref>	+	[https://www.uniprot.org/uniprot/IL16_HUMAN IL16_HUMAN] Interleukin-16 stimulates a migratory response in CD4+ lymphocytes, monocytes, and eosinophils. Primes CD4+ T-cells for IL-2 and IL-15 responsiveness. Also induces T-lymphocyte expression of interleukin 2 receptor. Ligand for CD4.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref> Isoform 1 may act as a scaffolding protein that anchors ion channels in the membrane.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref> Isoform 3 is involved in cell cycle progression in T-cells. Appears to be involved in transcriptional regulation of SKP2 and is probably part of a transcriptional repression complex on the core promoter of the SKP2 gene. May act as a scaffold for GABPB1 (the DNA-binding subunit the GABP transcription factor complex) and HDAC3 thus maintaining transcriptional repression and blocking cell cycle progression in resting T-cells.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Bayliss, R]]	+	[[Category: Bayliss R]]
-	[[Category: Carr, M]]	+	[[Category: Carr M]]
-	[[Category: Cowan, R]]	+	[[Category: Cowan R]]
-	[[Category: Hall, G]]	+	[[Category: Hall G]]
-	~~[[Category: Antibody]]~~	+
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Cytokine]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Interleukin~~]]	+

OCA at 08:08, 29 April 2020

OCA — Wed, 29 Apr 2020 08:08:42 GMT

←Older revision		Revision as of 08:08, 29 April 2020
Line 1:		Line 1:

	==Structure of Interleukin-16 bound to the 14.1 antibody==		==Structure of Interleukin-16 bound to the 14.1 antibody==
-	<StructureSection load='5fb8' size='340' side='right' caption='[[5fb8]], [[Resolution\|resolution]] 2.07Å' scene=''>	+	<StructureSection load='5fb8' size='340' side='right'caption='[[5fb8]], [[Resolution\|resolution]] 2.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fb8]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FB8 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FB8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fb8]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human] and [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FB8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FB8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i16\|1i16]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i16\|1i16]]</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=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [http://pdbe.org/5fb8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [http://www.ebi.ac.uk/pdbsum/5fb8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fb8 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IL16 ([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://proteopedia.org/fgij/fg.htm?mol=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [http://pdbe.org/5fb8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [http://www.ebi.ac.uk/pdbsum/5fb8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fb8 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5fb8" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5fb8" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Bayliss, R]]		[[Category: Bayliss, R]]
	[[Category: Carr, M]]		[[Category: Carr, M]]

OCA at 05:08, 9 September 2016

OCA — Fri, 09 Sep 2016 05:08:18 GMT

←Older revision		Revision as of 05:08, 9 September 2016
Line 6:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i16\|1i16]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i16\|1i16]]</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=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [http://pdbe.org/5fb8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [http://www.ebi.ac.uk/pdbsum/5fb8 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=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [http://pdbe.org/5fb8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [http://www.ebi.ac.uk/pdbsum/5fb8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fb8 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 15:23, 20 June 2016

OCA — Mon, 20 Jun 2016 15:23:01 GMT

←Older revision		Revision as of 15:23, 20 June 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5fb8 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Structure of Interleukin-16 bound to the 14.1 antibody==
		+	<StructureSection load='5fb8' size='340' side='right' caption='[[5fb8]], [[Resolution\|resolution]] 2.07Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5fb8]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FB8 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i16\|1i16]]</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=5fb8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fb8 OCA], [http://pdbe.org/5fb8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fb8 RCSB], [http://www.ebi.ac.uk/pdbsum/5fb8 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/IL16_HUMAN IL16_HUMAN]] Interleukin-16 stimulates a migratory response in CD4+ lymphocytes, monocytes, and eosinophils. Primes CD4+ T-cells for IL-2 and IL-15 responsiveness. Also induces T-lymphocyte expression of interleukin 2 receptor. Ligand for CD4.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref> Isoform 1 may act as a scaffolding protein that anchors ion channels in the membrane.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref> Isoform 3 is involved in cell cycle progression in T-cells. Appears to be involved in transcriptional regulation of SKP2 and is probably part of a transcriptional repression complex on the core promoter of the SKP2 gene. May act as a scaffold for GABPB1 (the DNA-binding subunit the GABP transcription factor complex) and HDAC3 thus maintaining transcriptional repression and blocking cell cycle progression in resting T-cells.<ref>PMID:14734747</ref> <ref>PMID:18097041</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Interleukin-16 (IL-16) is reported to be a chemoattractant cytokine and modulator of T-cell activation, and has been identified as a ligand for CD4. The secreted active form of IL-16 has been detected at sites of TH1-mediated inflammation, such as those seen in autoimmune diseases, ischemic reperfusion injury (IRI) and tissue transplant rejection. Neutralisation of IL-16 recruitment to CD4, using an anti-IL16 antibody, has been shown to significantly attenuate inflammation and disease pathology in IRI, as well as in some autoimmune diseases. The 14.1 antibody is a monoclonal anti-IL-16 antibody, which when incubated with CD4+ cells is reported to cause a reduction in the TH1-type inflammatory response. Secreted IL-16 contains a characteristic PDZ-domain. PDZ domains are typically characterised by a defined globular structure, along with a peptide-binding site located in a groove between the alphaB and betaB structural elements and a highly conserved carboxylate-binding loop. The structure of the 14.1Fab fragment in complex with IL-16 has been solved by X-ray crystallography, revealing that binding of the antibody requires a conformational change in the IL-16 PDZ-domain. Our study reveals an unexpected mechanism of action for the mAb and identifies new opportunities for the further development of IL-16 targeted therapeutic drugs, including small molecules that mimic the interaction of the antibody.

-	~~Authors~~: ~~Hall~~, G., ~~Cowan~~, R., ~~Bayliss~~, R., Carr~~, M~~.	+	Structure of a potential therapeutic antibody bound to IL-16: mechanistic insights and new therapeutic opportunities.,Hall G, Cullen E, Sawmynaden K, Arnold J, Fox S, Cowan R, Muskett FW, Matthews D, Merritt A, Kettleborough C, Cruikshank W, Taylor D, Bayliss R, Carr MD J Biol Chem. 2016 May 26. pii: jbc.M115.709303. PMID:27231345<ref>PMID:27231345</ref>

-	~~Description: Structure~~ of ~~Interleukin-16 bound to~~ the 14.~~1 antibody~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Cowan, R]]~~	+	<div class="pdbe-citations 5fb8" style="background-color:#fffaf0;"></div>
-	~~[[Category: Hall, G]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Bayliss, R]]		[[Category: Bayliss, R]]
	[[Category: Carr, M]]		[[Category: Carr, M]]
		+	[[Category: Cowan, R]]
		+	[[Category: Hall, G]]
		+	[[Category: Antibody]]
		+	[[Category: Complex]]
		+	[[Category: Cytokine]]
		+	[[Category: Immune system]]
		+	[[Category: Interleukin]]

OCA: Protected "5fb8" [edit=sysop:move=sysop]

OCA — Wed, 23 Dec 2015 11:23:56 GMT

Protected "5fb8" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:23, 23 December 2015

OCA: New page: '''Unreleased structure''' The entry 5fb8 is ON HOLD until Paper Publication Authors: Hall, G., Cowan, R., Bayliss, R., Carr, M. Description: Structure of Interleukin-16 bound to the 1...

OCA — Wed, 23 Dec 2015 11:23:54 GMT

New page: '''Unreleased structure''' The entry 5fb8 is ON HOLD until Paper Publication Authors: Hall, G., Cowan, R., Bayliss, R., Carr, M. Description: Structure of Interleukin-16 bound to the 1...

New page

'''Unreleased structure'''

The entry 5fb8 is ON HOLD until Paper Publication

Authors: Hall, G., Cowan, R., Bayliss, R., Carr, M.

Description: Structure of Interleukin-16 bound to the 14.1 antibody
[[Category: Unreleased Structures]]
[[Category: Cowan, R]]
[[Category: Hall, G]]
[[Category: Bayliss, R]]
[[Category: Carr, M]]