2ktr - Revision history

OCA at 19:13, 29 May 2024

OCA — Wed, 29 May 2024 19:13:13 GMT

←Older revision		Revision as of 19:13, 29 May 2024
Line 1:		Line 1:

	==NMR structure of p62 PB1 dimer determined based on PCS==		==NMR structure of p62 PB1 dimer determined based on PCS==
-	<StructureSection load='2ktr' size='340' side='right'caption='[[2ktr~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='2ktr' size='340' side='right'caption='[[2ktr]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KTR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KTR FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2kkc\|2kkc]], [[2rpv\|2rpv]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [https://pdbe.org/2ktr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [https://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr 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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [https://pdbe.org/2ktr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [https://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SQSTM_RAT SQSTM_RAT]] Required both for the formation and autophagic degradation of polyubiquitin-containing bodies, called ALIS (aggresome-like induced structures). Links ALIS to the autophagic machinery via direct interaction with MAP1 LC3 family members (By similarity). May regulate the activation of NFKB1 by TNF-alpha, nerve growth factor (NGF) and interleukin-1. Adapter that mediates the interaction between TRAF6 and CYLD (By similarity). May play a role in titin/TTN downstream signaling in muscle cells. May regulate signaling cascades through ubiquitination. May be involved in cell differentiation, apoptosis, immune response and regulation of K(+) channels. Isoform 1 is more potent than isoform 2 to stimulate PRKCZ-dependent phosphorylation of KCNAB2.<ref>PMID:10477520</ref> <ref>PMID:11244088</ref> <ref>PMID:11500922</ref>	+	[https://www.uniprot.org/uniprot/SQSTM_RAT SQSTM_RAT] Required both for the formation and autophagic degradation of polyubiquitin-containing bodies, called ALIS (aggresome-like induced structures). Links ALIS to the autophagic machinery via direct interaction with MAP1 LC3 family members (By similarity). May regulate the activation of NFKB1 by TNF-alpha, nerve growth factor (NGF) and interleukin-1. Adapter that mediates the interaction between TRAF6 and CYLD (By similarity). May play a role in titin/TTN downstream signaling in muscle cells. May regulate signaling cascades through ubiquitination. May be involved in cell differentiation, apoptosis, immune response and regulation of K(+) channels. Isoform 1 is more potent than isoform 2 to stimulate PRKCZ-dependent phosphorylation of KCNAB2.<ref>PMID:10477520</ref> <ref>PMID:11244088</ref> <ref>PMID:11500922</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Inagaki, F]]	+	[[Category: Rattus norvegicus]]
-	[[Category: Kumeta, H]]	+	[[Category: Inagaki F]]
-	[[Category: Saio, T]]	+	[[Category: Kumeta H]]
-	[[Category: Yokochi, M]]	+	[[Category: Saio T]]
-	~~[[Category: Autophagy]]~~	+	[[Category: Yokochi M]]
-	~~[[Category: Homo-oligomer]]~~	+
-	~~[[Category: Nf-kb signaling]]~~	+
-	~~[[Category: Pb1 dimer]]~~	+
-	~~[[Category: Signaling protein]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 07:04, 10 November 2021

OCA — Wed, 10 Nov 2021 07:04:03 GMT

←Older revision		Revision as of 07:04, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='2ktr' size='340' side='right'caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ktr' size='340' side='right'caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2KTR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KTR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2kkc\|2kkc]], [[2rpv\|2rpv]]</div></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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [~~http~~://pdbe.org/2ktr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr 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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [https://pdbe.org/2ktr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [https://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SQSTM_RAT SQSTM_RAT]] Required both for the formation and autophagic degradation of polyubiquitin-containing bodies, called ALIS (aggresome-like induced structures). Links ALIS to the autophagic machinery via direct interaction with MAP1 LC3 family members (By similarity). May regulate the activation of NFKB1 by TNF-alpha, nerve growth factor (NGF) and interleukin-1. Adapter that mediates the interaction between TRAF6 and CYLD (By similarity). May play a role in titin/TTN downstream signaling in muscle cells. May regulate signaling cascades through ubiquitination. May be involved in cell differentiation, apoptosis, immune response and regulation of K(+) channels. Isoform 1 is more potent than isoform 2 to stimulate PRKCZ-dependent phosphorylation of KCNAB2.<ref>PMID:10477520</ref> <ref>PMID:11244088</ref> <ref>PMID:11500922</ref>	+	[[https://www.uniprot.org/uniprot/SQSTM_RAT SQSTM_RAT]] Required both for the formation and autophagic degradation of polyubiquitin-containing bodies, called ALIS (aggresome-like induced structures). Links ALIS to the autophagic machinery via direct interaction with MAP1 LC3 family members (By similarity). May regulate the activation of NFKB1 by TNF-alpha, nerve growth factor (NGF) and interleukin-1. Adapter that mediates the interaction between TRAF6 and CYLD (By similarity). May play a role in titin/TTN downstream signaling in muscle cells. May regulate signaling cascades through ubiquitination. May be involved in cell differentiation, apoptosis, immune response and regulation of K(+) channels. Isoform 1 is more potent than isoform 2 to stimulate PRKCZ-dependent phosphorylation of KCNAB2.<ref>PMID:10477520</ref> <ref>PMID:11244088</ref> <ref>PMID:11500922</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:35, 29 April 2020

OCA — Wed, 29 Apr 2020 07:35:50 GMT

←Older revision		Revision as of 07:35, 29 April 2020
Line 1:		Line 1:

	==NMR structure of p62 PB1 dimer determined based on PCS==		==NMR structure of p62 PB1 dimer determined based on PCS==
-	<StructureSection load='2ktr' size='340' side='right' caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>	+	<StructureSection load='2ktr' size='340' side='right'caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2KTR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2KTR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://pdbe.org/2ktr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr 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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://pdbe.org/2ktr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Inagaki, F]]		[[Category: Inagaki, F]]
	[[Category: Kumeta, H]]		[[Category: Kumeta, H]]

OCA at 08:06, 25 July 2018

OCA — Wed, 25 Jul 2018 08:06:28 GMT

←Older revision		Revision as of 08:06, 25 July 2018
Line 1:		Line 1:
		+
	==NMR structure of p62 PB1 dimer determined based on PCS==		==NMR structure of p62 PB1 dimer determined based on PCS==
	<StructureSection load='2ktr' size='340' side='right' caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ktr' size='340' side='right' caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://pdbe.org/2ktr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr 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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://pdbe.org/2ktr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ktr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kt/2ktr_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kt/2ktr_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2ktr ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 16:22, 10 September 2015

OCA — Thu, 10 Sep 2015 16:22:01 GMT

←Older revision		Revision as of 16:22, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2ktr' size='340' side='right' caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ktr' size='340' side='right' caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KTR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KTR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr 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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://pdbe.org/2ktr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2ktr" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Inagaki, F]]		[[Category: Inagaki, F]]
	[[Category: Kumeta, H]]		[[Category: Kumeta, H]]

OCA at 02:51, 25 December 2014

OCA — Thu, 25 Dec 2014 02:51:36 GMT

←Older revision		Revision as of 02:51, 25 December 2014
Line 7:		Line 7:
	<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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr 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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SQSTM_RAT SQSTM_RAT]] Required both for the formation and autophagic degradation of polyubiquitin-containing bodies, called ALIS (aggresome-like induced structures). Links ALIS to the autophagic machinery via direct interaction with MAP1 LC3 family members (By similarity). May regulate the activation of NFKB1 by TNF-alpha, nerve growth factor (NGF) and interleukin-1. Adapter that mediates the interaction between TRAF6 and CYLD (By similarity). May play a role in titin/TTN downstream signaling in muscle cells. May regulate signaling cascades through ubiquitination. May be involved in cell differentiation, apoptosis, immune response and regulation of K(+) channels. Isoform 1 is more potent than isoform 2 to stimulate PRKCZ-dependent phosphorylation of KCNAB2.<ref>PMID:10477520</ref> <ref>PMID:11244088</ref> <ref>PMID:11500922</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Inagaki, F.]]	+	[[Category: Inagaki, F]]
-	[[Category: Kumeta, H.]]	+	[[Category: Kumeta, H]]
-	[[Category: Saio, T.]]	+	[[Category: Saio, T]]
-	[[Category: Yokochi, M.]]	+	[[Category: Yokochi, M]]
	[[Category: Autophagy]]		[[Category: Autophagy]]
	[[Category: Homo-oligomer]]		[[Category: Homo-oligomer]]

OCA at 15:37, 12 October 2014

OCA — Sun, 12 Oct 2014 15:37:55 GMT

←Older revision		Revision as of 15:37, 12 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2ktr.~~png~~\|~~left~~\|200px]]	+	==NMR structure of p62 PB1 dimer determined based on PCS==
		+	<StructureSection load='2ktr' size='340' side='right' caption='[[2ktr]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ktr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KTR FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2kkc\|2kkc]], [[2rpv\|2rpv]]</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=2ktr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ktr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ktr RCSB], [http://www.ebi.ac.uk/pdbsum/2ktr PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kt/2ktr_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A simple and fast nuclear magnetic resonance method for docking proteins using pseudo-contact shift (PCS) and (1)H(N)/(15)N chemical shift perturbation is presented. PCS is induced by a paramagnetic lanthanide ion that is attached to a target protein using a lanthanide binding peptide tag anchored at two points. PCS provides long-range (approximately 40 A) distance and angular restraints between the lanthanide ion and the observed nuclei, while the (1)H(N)/(15)N chemical shift perturbation data provide loose contact-surface information. The usefulness of this method was demonstrated through the structure determination of the p62 PB1-PB1 complex, which forms a front-to-back 20 kDa homo-oligomer. As p62 PB1 does not intrinsically bind metal ions, the lanthanide binding peptide tag was attached to one subunit of the dimer at two anchoring points. Each monomer was treated as a rigid body and was docked based on the backbone PCS and backbone chemical shift perturbation data. Unlike NOE-based structural determination, this method only requires resonance assignments of the backbone (1)H(N)/(15)N signals and the PCS data obtained from several sets of two-dimensional (15)N-heteronuclear single quantum coherence spectra, thus facilitating rapid structure determination of the protein-protein complex.

-	~~{{STRUCTURE_2ktr\| PDB=2ktr \| SCENE= }}~~	+	PCS-based structure determination of protein-protein complexes.,Saio T, Yokochi M, Kumeta H, Inagaki F J Biomol NMR. 2010 Apr;46(4):271-80. Epub 2010 Mar 19. PMID:20300805<ref>PMID:20300805</ref>

-	~~===NMR structure~~ of ~~p62 PB1 dimer determined based on PCS===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_20300805}}~~	+	==See Also==
-		+	*[[Sequestosome\|Sequestosome]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2ktr~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:020300805<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Inagaki, F.]]		[[Category: Inagaki, F.]]

OCA: Protected "2ktr" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 10:28:51 GMT

Protected "2ktr" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:28, 7 January 2013

OCA at 10:28, 7 January 2013

OCA — Mon, 07 Jan 2013 10:28:47 GMT

←Older revision		Revision as of 10:28, 7 January 2013
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:2ktr.png\|left\|200px]]
-	[[Image:2ktr.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ktr", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2ktr\| PDB=2ktr \| SCENE= }}		{{STRUCTURE_2ktr\| PDB=2ktr \| SCENE= }}

	===NMR structure of p62 PB1 dimer determined based on PCS===		===NMR structure of p62 PB1 dimer determined based on PCS===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20300805}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20300805 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20300805}}		{{ABSTRACT_PUBMED_20300805}}

	==About this Structure==		==About this Structure==
-	~~2KTR~~ is a 2 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA].	+	[[2ktr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20300805~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020300805</ref><references group="xtra"/>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Inagaki, F.]]		[[Category: Inagaki, F.]]
Line 35:		Line 23:
	[[Category: Signaling protein]]		[[Category: Signaling protein]]
	[[Category: Transport protein]]		[[Category: Transport protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 7 10:38:25 2010''

OCA at 07:38, 7 April 2010

OCA — Wed, 07 Apr 2010 07:38:26 GMT

←Older revision		Revision as of 07:38, 7 April 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:2ktr.jpg\|left\|200px]]

-	The ~~entry 2ktr~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2ktr", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_2ktr\| PDB=2ktr \| SCENE= }}

-	~~Authors: Saio, T., Yokochi, M., Kumeta, H., Inagaki, F.~~	+	===NMR structure of p62 PB1 dimer determined based on PCS===

-	Description: NMR structure of p62 PB1 dimer determined based on PCS

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Feb 25 12~~:48:58 2010''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20300805}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20300805 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20300805}}
		+
		+	==About this Structure==
		+	2KTR is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KTR OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20300805</ref><references group="xtra"/>
		+	[[Category: Rattus norvegicus]]
		+	[[Category: Inagaki, F.]]
		+	[[Category: Kumeta, H.]]
		+	[[Category: Saio, T.]]
		+	[[Category: Yokochi, M.]]
		+	[[Category: Autophagy]]
		+	[[Category: Homo-oligomer]]
		+	[[Category: Nf-kb signaling]]
		+	[[Category: Pb1 dimer]]
		+	[[Category: Signaling protein]]
		+	[[Category: Transport protein]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 7 10:38:25 2010''