5yip - Revision history

OCA at 08:31, 22 November 2023

OCA — Wed, 22 Nov 2023 08:31:03 GMT

←Older revision		Revision as of 08:31, 22 November 2023
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	==Crystal Structure of AnkG LIR/GABARAPL1 complex==		==Crystal Structure of AnkG LIR/GABARAPL1 complex==
-	<StructureSection load='5yip' size='340' side='right' caption='[[5yip]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='5yip' size='340' side='right'caption='[[5yip]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yip]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~] 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=5YIP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YIP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yip]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YIP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YIP 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='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.85Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Gabarapl1, Apg8l, Atg8l, Gec1, MNCb-0091 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=10090 LK3 transgenic mice]), Ank3 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</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~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5yip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yip OCA], [~~http~~://pdbe.org/5yip PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yip RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yip PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yip 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=5yip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yip OCA], [https://pdbe.org/5yip PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yip RCSB], [https://www.ebi.ac.uk/pdbsum/5yip PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yip ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/GBRL1_MOUSE GBRL1_MOUSE]] Ubiquitin-like modifier that increases cell-surface expression of kappa-type opioid receptor through facilitating anterograde intracellular trafficking of the receptor. Involved in formation of autophagosomal vacuoles. Whereas LC3s are involved in elongation of the phagophore membrane, the GABARAP/GATE-16 subfamily is essential for a later stage in autophagosome maturation (By similarity). [[http://www.uniprot.org/uniprot/ANK3_RAT ANK3_RAT]] Membrane-cytoskeleton linker. May participate in the maintenance/targeting of ion channels and cell adhesion molecules at the nodes of Ranvier and axonal initial segments. In skeletal muscle, required for costamere localization of DMD and betaDAG1 (By similarity). Regulates KCNA1 channel activity in function of dietary Mg(2+) levels, and thereby contributes to the regulation of renal Mg(2+) reabsorption (By similarity).[UniProtKB:G5E8K5]	+	[https://www.uniprot.org/uniprot/GBRL1_MOUSE GBRL1_MOUSE] Ubiquitin-like modifier that increases cell-surface expression of kappa-type opioid receptor through facilitating anterograde intracellular trafficking of the receptor. Involved in formation of autophagosomal vacuoles. Whereas LC3s are involved in elongation of the phagophore membrane, the GABARAP/GATE-16 subfamily is essential for a later stage in autophagosome maturation (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5yip" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5yip" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ankyrin 3D structures\|Ankyrin 3D structures]]
		+	*[[GABA receptor-associated protein 3D structures\|GABA receptor-associated protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Buffalo rat~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Chen, K]]	+	[[Category: Rattus norvegicus]]
-	[[Category: Li, J]]	+	[[Category: Chen K]]
-	[[Category: Wang, C]]	+	[[Category: Li J]]
-	[[Category: Yuan, C]]	+	[[Category: Wang C]]
-	[[Category: Zhang, H]]	+	[[Category: Yuan C]]
-	[[Category: Zhang, M]]	+	[[Category: Zhang H]]
-	[[Category: Zheng, H]]	+	[[Category: Zhang M]]
-	[[Category: Zhu, R]]	+	[[Category: Zheng H]]
-	~~[[Category: Autophagy]]~~	+	[[Category: Zhu R]]
-	~~[[Category: Signaling protein~~]]	+

OCA at 07:36, 4 July 2018

OCA — Wed, 04 Jul 2018 07:36:10 GMT

←Older revision		Revision as of 07:36, 4 July 2018
Line 3:		Line 3:
	<StructureSection load='5yip' size='340' side='right' caption='[[5yip]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='5yip' size='340' side='right' caption='[[5yip]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YIP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yip]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat] 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=5YIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YIP 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">Gabarapl1, Apg8l, Atg8l, Gec1, MNCb-0091 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Ank3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=5yip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yip OCA], [http://pdbe.org/5yip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yip RCSB], [http://www.ebi.ac.uk/pdbsum/5yip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yip 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=5yip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yip OCA], [http://pdbe.org/5yip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yip RCSB], [http://www.ebi.ac.uk/pdbsum/5yip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yip ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/GBRL1_MOUSE GBRL1_MOUSE]] Ubiquitin-like modifier that increases cell-surface expression of kappa-type opioid receptor through facilitating anterograde intracellular trafficking of the receptor. Involved in formation of autophagosomal vacuoles. Whereas LC3s are involved in elongation of the phagophore membrane, the GABARAP/GATE-16 subfamily is essential for a later stage in autophagosome maturation (By similarity). [[http://www.uniprot.org/uniprot/ANK3_RAT ANK3_RAT]] Membrane-cytoskeleton linker. May participate in the maintenance/targeting of ion channels and cell adhesion molecules at the nodes of Ranvier and axonal initial segments. In skeletal muscle, required for costamere localization of DMD and betaDAG1 (By similarity). Regulates KCNA1 channel activity in function of dietary Mg(2+) levels, and thereby contributes to the regulation of renal Mg(2+) reabsorption (By similarity).[UniProtKB:G5E8K5]		[[http://www.uniprot.org/uniprot/GBRL1_MOUSE GBRL1_MOUSE]] Ubiquitin-like modifier that increases cell-surface expression of kappa-type opioid receptor through facilitating anterograde intracellular trafficking of the receptor. Involved in formation of autophagosomal vacuoles. Whereas LC3s are involved in elongation of the phagophore membrane, the GABARAP/GATE-16 subfamily is essential for a later stage in autophagosome maturation (By similarity). [[http://www.uniprot.org/uniprot/ANK3_RAT ANK3_RAT]] Membrane-cytoskeleton linker. May participate in the maintenance/targeting of ion channels and cell adhesion molecules at the nodes of Ranvier and axonal initial segments. In skeletal muscle, required for costamere localization of DMD and betaDAG1 (By similarity). Regulates KCNA1 channel activity in function of dietary Mg(2+) levels, and thereby contributes to the regulation of renal Mg(2+) reabsorption (By similarity).[UniProtKB:G5E8K5]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The mammalian Atg8 family proteins are central drivers of autophagy and contain six members, classified into the LC3 and GABARAP subfamilies. Due to their high sequence similarity and consequent functional overlaps, it is difficult to delineate specific functions of Atg8 proteins in autophagy. Here we discover a super-strong GABARAP-selective inhibitory peptide harbored in 270/480 kDa ankyrin-G and a super-potent pan-Atg8 inhibitory peptide from 440 kDa ankyrin-B. Structural studies elucidate the mechanism governing the Atg8 binding potency and selectivity of the peptides, reveal a general Atg8-binding sequence motif, and allow development of a more GABARAP-selective inhibitory peptide. These peptides effectively blocked autophagy when expressed in cultured cells. Expression of these ankyrin-derived peptides in Caenorhabditis elegans also inhibited autophagy, causing accumulation of the p62 homolog SQST-1, delayed development and shortened life span. Thus, these genetically encodable autophagy inhibitory peptides can be used to occlude autophagy spatiotemporally in living animals.
		+
		+	Potent and specific Atg8-targeting autophagy inhibitory peptides from giant ankyrins.,Li J, Zhu R, Chen K, Zheng H, Zhao H, Yuan C, Zhang H, Wang C, Zhang M Nat Chem Biol. 2018 Jun 4. pii: 10.1038/s41589-018-0082-8. doi:, 10.1038/s41589-018-0082-8. PMID:29867141<ref>PMID:29867141</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5yip" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Buffalo rat]]
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Chen, K]]		[[Category: Chen, K]]
	[[Category: Li, J]]		[[Category: Li, J]]

OCA at 07:17, 23 May 2018

OCA — Wed, 23 May 2018 07:17:44 GMT

←Older revision		Revision as of 07:17, 23 May 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5yip is ~~ON HOLD until Paper Publication~~	+	==Crystal Structure of AnkG LIR/GABARAPL1 complex==
-		+	<StructureSection load='5yip' size='340' side='right' caption='[[5yip]], [[Resolution\|resolution]] 1.85Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5yip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YIP 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=5yip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yip OCA], [http://pdbe.org/5yip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yip RCSB], [http://www.ebi.ac.uk/pdbsum/5yip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yip ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GBRL1_MOUSE GBRL1_MOUSE]] Ubiquitin-like modifier that increases cell-surface expression of kappa-type opioid receptor through facilitating anterograde intracellular trafficking of the receptor. Involved in formation of autophagosomal vacuoles. Whereas LC3s are involved in elongation of the phagophore membrane, the GABARAP/GATE-16 subfamily is essential for a later stage in autophagosome maturation (By similarity). [[http://www.uniprot.org/uniprot/ANK3_RAT ANK3_RAT]] Membrane-cytoskeleton linker. May participate in the maintenance/targeting of ion channels and cell adhesion molecules at the nodes of Ranvier and axonal initial segments. In skeletal muscle, required for costamere localization of DMD and betaDAG1 (By similarity). Regulates KCNA1 channel activity in function of dietary Mg(2+) levels, and thereby contributes to the regulation of renal Mg(2+) reabsorption (By similarity).[UniProtKB:G5E8K5]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Chen, K]]
		+	[[Category: Li, J]]
		+	[[Category: Wang, C]]
		+	[[Category: Yuan, C]]
		+	[[Category: Zhang, H]]
		+	[[Category: Zhang, M]]
		+	[[Category: Zheng, H]]
		+	[[Category: Zhu, R]]
		+	[[Category: Autophagy]]
		+	[[Category: Signaling protein]]

OCA at 05:36, 25 October 2017

OCA — Wed, 25 Oct 2017 05:36:01 GMT

←Older revision		Revision as of 05:36, 25 October 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 11 Oct 2017 05:25:32 GMT

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

←Older revision

Revision as of 05:25, 11 October 2017

OCA: New page: '''Unreleased structure''' The entry 5yip is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 11 Oct 2017 05:25:31 GMT

New page: '''Unreleased structure''' The entry 5yip is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5yip is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]