6umx - Revision history

OCA at 07:54, 11 October 2023

OCA — Wed, 11 Oct 2023 07:54:38 GMT

←Older revision		Revision as of 07:54, 11 October 2023
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	<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>		<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6umx]] 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=6UMX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6UMX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6umx]] 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=6UMX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UMX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.79Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~MSTN, GDF8 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [~~http~~://pdbe.org/6umx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6umx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx 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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [https://pdbe.org/6umx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [https://www.ebi.ac.uk/pdbsum/6umx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN]] Myostatin-related muscle hypertrophy. The disease is caused by mutations affecting the gene represented in this entry.	+	[https://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN] Myostatin-related muscle hypertrophy. The disease is caused by mutations affecting the gene represented in this entry.
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN]] Acts specifically as a negative regulator of skeletal muscle growth.	+	[https://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN] Acts specifically as a negative regulator of skeletal muscle growth.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6umx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6umx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Growth differentiation factor 3D STRUCTURES\|Growth differentiation factor 3D STRUCTURES]]
		+	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bostion~~, C J~~]]	+	[[Category: Bostion CJ]]
-	[[Category: Capili~~, A D~~]]	+	[[Category: Capili AD]]
-	[[Category: Carven~~, G J~~]]	+	[[Category: Carven GJ]]
-	[[Category: Dagbay~~, K B~~]]	+	[[Category: Dagbay KB]]
-	[[Category: Faucette~~, R R~~]]	+	[[Category: Faucette RR]]
-	[[Category: Jackson~~, J W~~]]	+	[[Category: Jackson JW]]
-	[[Category: Lin~~, S C~~]]	+	[[Category: Lin SC]]
-	[[Category: Nicholls~~, S B~~]]	+	[[Category: Nicholls SB]]
-	[[Category: Nikiforov, A]]	+	[[Category: Nikiforov A]]
-	[[Category: Streich~~, F C~~]]	+	[[Category: Streich Jr FC]]
-	[[Category: Treece, E]]	+	[[Category: Treece E]]
-	~~[[Category: Antibody]]~~	+
-	~~[[Category: Fab]]~~	+
-	~~[[Category: Gdf8]]~~	+
-	~~[[Category: Muscle wasting disease]]~~	+
-	~~[[Category: Myostatin]]~~	+
-	~~[[Category: Signaling protein-immune system complex]]~~	+
-	~~[[Category: Transforming growth factor beta~~]]	+

OCA at 07:12, 29 April 2020

OCA — Wed, 29 Apr 2020 07:12:46 GMT

←Older revision		Revision as of 07:12, 29 April 2020
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	<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>		<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6umx]] 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=6UMX OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6UMX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6umx]] 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=6UMX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UMX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSTN, GDF8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSTN, GDF8 ([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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [http://pdbe.org/6umx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [http://www.ebi.ac.uk/pdbsum/6umx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx 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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [http://pdbe.org/6umx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [http://www.ebi.ac.uk/pdbsum/6umx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==

OCA at 07:22, 4 March 2020

OCA — Wed, 04 Mar 2020 07:22:22 GMT

←Older revision		Revision as of 07:22, 4 March 2020
Line 3:		Line 3:
	<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>		<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6umx]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UMX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UMX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6umx]] 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=6UMX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UMX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSTN, GDF8 ([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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [http://pdbe.org/6umx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [http://www.ebi.ac.uk/pdbsum/6umx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx ProSAT]</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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [http://pdbe.org/6umx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [http://www.ebi.ac.uk/pdbsum/6umx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx ProSAT]</span></td></tr>
	</table>		</table>
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN]] Acts specifically as a negative regulator of skeletal muscle growth.		[[http://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN]] Acts specifically as a negative regulator of skeletal muscle growth.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Myostatin (or growth/differentiation factor 8 [GDF8]) is a member of the transforming growth factor beta (TGF-beta) superfamily of growth factors and negatively regulates skeletal muscle growth. Its dysregulation is implicated in muscle wasting diseases. SRK-015 is a clinical-stage monoclonal antibody that prevents extracellular proteolytic activation of pro- and latent myostatin. Here, we used integrated structural and biochemical approaches to elucidate the molecular mechanism of an antibody-mediated neutralization of pro-myostatin activation. The crystal structure of pro-myostatin in complex with 29H4-16 Fab, a high-affinity variant of SRK-015, at 2.79 A resolution revealed that the antibody binds to a conformational epitope in the arm region of the prodomain distant from the proteolytic cleavage sites. This epitope is highly sequence divergent, sharing only limited similarity to other closely related members of the TGF-beta superfamily. Hydrogen/deuterium exchange-MS experiments indicated that antibody binding induces conformational changes in pro- and latent myostatin that span the arm region, the loops contiguous to the protease cleavage sites, and the latency-associated structural elements. Moreover, negative-stain EM with full-length antibodies disclosed a stable, ring-like antigen-antibody structure in which the two Fab arms of a single antibody occupy the two arm regions of the prodomain in the pro- and latent myostatin homodimers, suggesting a 1:1 (antibody:myostatin homodimer) binding stoichiometry. These results suggest that SRK-015 binding stabilizes the latent conformation and limits the accessibility of protease cleavage sites within the prodomain. These findings shed light on approaches that specifically block the extracellular activation of growth factors by targeting their precursor forms.
		+
		+	Structural basis for specific inhibition of extracellular activation of pro- or latent myostatin by the monoclonal antibody SRK-015.,Dagbay KB, Treece E, Streich FC Jr, Jackson JW, Faucette RR, Nikiforov A, Lin SC, Boston CJ, Nicholls SB, Capili AD, Carven GJ J Biol Chem. 2020 Feb 19. pii: RA119.012293. doi: 10.1074/jbc.RA119.012293. PMID:32075906<ref>PMID:32075906</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6umx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Bostion, C J]]		[[Category: Bostion, C J]]

OCA at 09:26, 26 February 2020

OCA — Wed, 26 Feb 2020 09:26:58 GMT

←Older revision		Revision as of 09:26, 26 February 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6umx is ~~ON HOLD~~	+	==Structural basis for specific inhibition of extracellular activation of pro/latent myostatin by SRK-015==
-		+	<StructureSection load='6umx' size='340' side='right'caption='[[6umx]], [[Resolution\|resolution]] 2.79Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6umx]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UMX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UMX FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6umx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umx OCA], [http://pdbe.org/6umx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umx RCSB], [http://www.ebi.ac.uk/pdbsum/6umx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umx ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN]] Myostatin-related muscle hypertrophy. The disease is caused by mutations affecting the gene represented in this entry.
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GDF8_HUMAN GDF8_HUMAN]] Acts specifically as a negative regulator of skeletal muscle growth.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Bostion, C J]]
		+	[[Category: Capili, A D]]
		+	[[Category: Carven, G J]]
		+	[[Category: Dagbay, K B]]
		+	[[Category: Faucette, R R]]
		+	[[Category: Jackson, J W]]
		+	[[Category: Lin, S C]]
		+	[[Category: Nicholls, S B]]
		+	[[Category: Nikiforov, A]]
		+	[[Category: Streich, F C]]
		+	[[Category: Treece, E]]
		+	[[Category: Antibody]]
		+	[[Category: Fab]]
		+	[[Category: Gdf8]]
		+	[[Category: Muscle wasting disease]]
		+	[[Category: Myostatin]]
		+	[[Category: Signaling protein-immune system complex]]
		+	[[Category: Transforming growth factor beta]]

OCA at 02:38, 13 February 2020

OCA — Thu, 13 Feb 2020 02:38:51 GMT

←Older revision		Revision as of 02:38, 13 February 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6umx is ON HOLD ~~until Paper Publication~~	+	The entry 6umx is ON HOLD

	Authors:		Authors:

OCA at 05:17, 6 November 2019

OCA — Wed, 06 Nov 2019 05:17:21 GMT

←Older revision		Revision as of 05:17, 6 November 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6umx is ON HOLD	+	The entry 6umx is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 16 Oct 2019 04:42:51 GMT

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

←Older revision

Revision as of 04:42, 16 October 2019

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

OCA — Wed, 16 Oct 2019 04:42:50 GMT

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

New page

'''Unreleased structure'''

The entry 6umx is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]