7skd - Revision history

OCA at 09:36, 25 October 2023

OCA — Wed, 25 Oct 2023 09:36:59 GMT

←Older revision		Revision as of 09:36, 25 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7skd]] is a 1 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=7SKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SKD FirstGlance]. <br>		<table><tr><td colspan='2'>[[7skd]] is a 1 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=7SKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SKD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 1.712Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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'>[https://proteopedia.org/fgij/fg.htm?mol=7skd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7skd OCA], [https://pdbe.org/7skd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7skd RCSB], [https://www.ebi.ac.uk/pdbsum/7skd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7skd 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=7skd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7skd OCA], [https://pdbe.org/7skd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7skd RCSB], [https://www.ebi.ac.uk/pdbsum/7skd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7skd ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:32, 11 January 2023

OCA — Wed, 11 Jan 2023 07:32:23 GMT

←Older revision		Revision as of 07:32, 11 January 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 7skd is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Myocilin OLF mutant S331L==
		+	<StructureSection load='7skd' size='340' side='right'caption='[[7skd]], [[Resolution\|resolution]] 1.71Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7skd]] is a 1 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=7SKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SKD FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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'>[https://proteopedia.org/fgij/fg.htm?mol=7skd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7skd OCA], [https://pdbe.org/7skd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7skd RCSB], [https://www.ebi.ac.uk/pdbsum/7skd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7skd ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[https://www.uniprot.org/uniprot/MYOC_HUMAN MYOC_HUMAN] Congenital glaucoma;Juvenile glaucoma. The disease is caused by mutations affecting the gene represented in this entry. The disease is caused by mutations affecting distinct genetic loci, including the gene represented in this entry. MYOC mutations may contribute to GLC3A via digenic inheritance with CYP1B1 and/or another locus associated with the disease (PubMed:15733270).<ref>PMID:15733270</ref>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MYOC_HUMAN MYOC_HUMAN] Secreted glycoprotein regulating the activation of different signaling pathways in adjacent cells to control different processes including cell adhesion, cell-matrix adhesion, cytoskeleton organization and cell migration. Promotes substrate adhesion, spreading and formation of focal contacts. Negatively regulates cell-matrix adhesion and stress fiber assembly through Rho protein signal transduction. Modulates the organization of actin cytoskeleton by stimulating the formation of stress fibers through interactions with components of Wnt signaling pathways. Promotes cell migration through activation of PTK2 and the downstream phosphatidylinositol 3-kinase signaling. Plays a role in bone formation and promotes osteoblast differentiation in a dose-dependent manner through mitogen-activated protein kinase signaling. Mediates myelination in the peripheral nervous system through ERBB2/ERBB3 signaling. Plays a role as a regulator of muscle hypertrophy through the components of dystrophin-associated protein complex. Involved in positive regulation of mitochondrial depolarization. Plays a role in neurite outgrowth. May participate in the obstruction of fluid outflow in the trabecular meshwork.<ref>PMID:17516541</ref> <ref>PMID:17984096</ref> <ref>PMID:18855004</ref> <ref>PMID:19188438</ref> <ref>PMID:19959812</ref> <ref>PMID:21656515</ref> <ref>PMID:23629661</ref> <ref>PMID:23897819</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Accurate predictions of pathogenicity for mutations associated with genetic disease are key to the success of precision medicine. Inherited, missense coding mutations in the myocilin gene (MYOC), within its olfactomedin (OLF) domain, comprise the strongest genetic link to primary open angle glaucoma via a toxic gain of function, and MYOC is an attractive precision medicine target. However, not all mutations in MYOC cause glaucoma, and common variants are expected to be neutral polymorphisms. The gnomAD database lists approximately 100 missense variants documented within OLF, all of which are relatively rare (allele frequency <0.001%) and nearly all are of unknown pathogenicity. To disambiguate disease from benign OLF variants, we first characterized the most prevalent population-based variants using a suite of cellular and biophysical assays, and identify two variants with features of aggregation-prone familial disease variants. Next, we consider all available biochemical and clinical data to demonstrate that pathogenic and benign variants can be differentiated statistically based on a single metric, thermal stability of OLF. Our results motivate genotyping MYOC in patients for clinical monitoring of this widespread, painless, and irreversible age-onset disease.

-	~~Authors~~:	+	Disambiguation of benign and misfolded glaucoma-causing myocilin variants on the basis of protein thermal stability.,Scelsi HF, Hill KR, Barlow BM, Martin MD, Lieberman RL Dis Model Mech. 2022 Dec 29:dmm.049816. doi: 10.1242/dmm.049816. PMID:36579626<ref>PMID:36579626</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 7skd" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Barlow BM]]
		+	[[Category: Lieberman RL]]
		+	[[Category: Scelsi HS]]

OCA at 12:51, 3 November 2021

OCA — Wed, 03 Nov 2021 12:51:15 GMT

←Older revision		Revision as of 12:51, 3 November 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 27 Oct 2021 12:47:14 GMT

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

←Older revision

Revision as of 12:47, 27 October 2021

OCA: New page: '''Unreleased structure''' The entry 7skd is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Oct 2021 12:47:13 GMT

New page: '''Unreleased structure''' The entry 7skd is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7skd is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]