2pe9 - Revision history

OCA at 09:43, 22 May 2024

OCA — Wed, 22 May 2024 09:43:28 GMT

←Older revision		Revision as of 09:43, 22 May 2024
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	==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==		==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==
-	<StructureSection load='2pe9' size='340' side='right'caption='[[2pe9~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='2pe9' size='340' side='right'caption='[[2pe9]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'>[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</div~~></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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [https://pdbe.org/2pe9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [https://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [https://pdbe.org/2pe9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [https://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/UBC_HUMAN UBC_HUMAN] Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.<ref>PMID:16543144</ref> <ref>PMID:19754430</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fushman, D]]	+	[[Category: Fushman D]]
-	[[Category: Ryabov, Y]]	+	[[Category: Ryabov Y]]
-	~~[[Category: Lys48-linked polyubiquitin]]~~	+
-	~~[[Category: Polyubiquitin]]~~	+
-	~~[[Category: Signaling protein]]~~	+
-	~~[[Category: Ubiquitin~~]]	+

OCA at 07:45, 9 March 2022

OCA — Wed, 09 Mar 2022 07:45:07 GMT

←Older revision		Revision as of 07:45, 9 March 2022
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	<StructureSection load='2pe9' size='340' side='right'caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='2pe9' size='340' side='right'caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [~~http~~://pdbe.org/2pe9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [https://pdbe.org/2pe9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [https://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	==See Also==		==See Also==
-	*[[~~Ubiquitin~~\|~~Ubiquitin~~]]	+	*[[3D structures of ubiquitin\|3D structures of ubiquitin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:54, 3 June 2020

OCA — Wed, 03 Jun 2020 06:54:34 GMT

←Older revision		Revision as of 06:54, 3 June 2020
Line 1:		Line 1:

	==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==		==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==
-	<StructureSection load='2pe9' size='340' side='right' caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='2pe9' size='340' side='right'caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://pdbe.org/2pe9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://pdbe.org/2pe9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Fushman, D]]		[[Category: Fushman, D]]
	[[Category: Ryabov, Y]]		[[Category: Ryabov, Y]]

OCA at 08:59, 29 August 2018

OCA — Wed, 29 Aug 2018 08:59:27 GMT

←Older revision		Revision as of 08:59, 29 August 2018
Line 1:		Line 1:
		+
	==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==		==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==
	<StructureSection load='2pe9' size='340' side='right' caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='2pe9' size='340' side='right' caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://pdbe.org/2pe9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://pdbe.org/2pe9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2pe9 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pe/2pe9_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pe/2pe9_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=2pe9 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:16, 12 September 2015

OCA — Sat, 12 Sep 2015 00:16:52 GMT

←Older revision		Revision as of 00:16, 12 September 2015
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	<StructureSection load='2pe9' size='340' side='right' caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='2pe9' size='340' side='right' caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://pdbe.org/2pe9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	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 2pe9" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 31:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Fushman, D]]		[[Category: Fushman, D]]
	[[Category: Ryabov, Y]]		[[Category: Ryabov, Y]]

OCA at 21:17, 25 December 2014

OCA — Thu, 25 Dec 2014 21:17:28 GMT

←Older revision		Revision as of 21:17, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 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=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Fushman, D.]]	+	[[Category: Fushman, D]]
-	[[Category: Ryabov, Y.]]	+	[[Category: Ryabov, Y]]
	[[Category: Lys48-linked polyubiquitin]]		[[Category: Lys48-linked polyubiquitin]]
	[[Category: Polyubiquitin]]		[[Category: Polyubiquitin]]
	[[Category: Signaling protein]]		[[Category: Signaling protein]]
	[[Category: Ubiquitin]]		[[Category: Ubiquitin]]

OCA at 07:09, 29 September 2014

OCA — Mon, 29 Sep 2014 07:09:46 GMT

←Older revision		Revision as of 07:09, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2pe9.~~png~~\|~~left~~\|200px]]	+	==NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements==
		+	<StructureSection load='2pe9' size='340' side='right' caption='[[2pe9]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PE9 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3z\|1d3z]], [[1aar\|1aar]], [[2bgf\|2bgf]], [[2pea\|2pea]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pe9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pe9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pe9 RCSB], [http://www.ebi.ac.uk/pdbsum/2pe9 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/pe/2pe9_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 ==
		+	We present a simple and robust approach that uses the overall rotational diffusion tensor as a structural constraint for domain positioning in multidomain proteins and protein-protein complexes. This method offers the possibility to use NMR relaxation data for detailed structure characterization of such systems provided the structures of individual domains are available. The proposed approach extends the concept of using long-range information contained in the overall rotational diffusion tensor. In contrast to the existing approaches, we use both the principal axes and principal values of protein's rotational diffusion tensor to determine not only the orientation but also the relative positioning of the individual domains in a protein. This is achieved by finding the domain arrangement in a molecule that provides the best possible agreement with all components of the overall rotational diffusion tensor derived from experimental data. The accuracy of the proposed approach is demonstrated for two protein systems with known domain arrangement and parameters of the overall tumbling: the HIV-1 protease homodimer and Maltose Binding Protein. The accuracy of the method and its sensitivity to domain positioning are also tested using computer-generated data for three protein complexes, for which the experimental diffusion tensors are not available. In addition, the proposed method is applied here to determine, for the first time, the structure of both open and closed conformations of a Lys48-linked diubiquitin chain, where domain motions render impossible accurate structure determination by other methods. The proposed method opens new avenues for improving structure characterization of proteins in solution.

-	~~{{STRUCTURE_2pe9\| PDB=2pe9 \| SCENE= }}~~	+	Structural assembly of multidomain proteins and protein complexes guided by the overall rotational diffusion tensor.,Ryabov Y, Fushman D J Am Chem Soc. 2007 Jun 27;129(25):7894-902. Epub 2007 Jun 6. PMID:17550252<ref>PMID:17550252</ref>

-	~~===NMR Based Structure~~ of the ~~Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17550252}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2pe9]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA].~~	+

	==See Also==		==See Also==
	*[[Ubiquitin\|Ubiquitin]]		*[[Ubiquitin\|Ubiquitin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017550252<~~/~~ref~~><~~ref group="xtra">PMID:017132010</ref><ref group="xtra">PMID:017319663</ref><ref group="xtra">PMID:012460567</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Fushman, D.]]		[[Category: Fushman, D.]]

OCA at 21:46, 20 October 2012

OCA — Sat, 20 Oct 2012 21:46:25 GMT

←Older revision		Revision as of 21:46, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[2pe9]] is a 2 chain structure ~~of [[Ubiquitin]]~~ with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA].	+	[[2pe9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PE9 OCA].

	==See Also==		==See Also==

OCA at 14:14, 27 July 2012

OCA — Fri, 27 Jul 2012 14:14:07 GMT

←Older revision		Revision as of 14:14, 27 July 2012
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	[[Image:2pe9.png\|left\|200px]]		[[Image:2pe9.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_2pe9\| PDB=2pe9 \| SCENE= }}		{{STRUCTURE_2pe9\| PDB=2pe9 \| SCENE= }}

	===NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements===		===NMR Based Structure of the Open Conformation of LYS48-Linked Di-UBiquitin Using Experimental Global Rotational Diffusion Tensor from NMR Relaxation Measurements===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17550252}}, adds the Publication Abstract to the page
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	==See Also==		==See Also==
-	*[[Ubiquitin]]	+	*[[Ubiquitin\|Ubiquitin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17550252~~</ref><ref group="xtra">PMID:~~17132010~~</ref><ref group="xtra">PMID:~~17319663~~</ref><ref group="xtra">PMID:~~12460567~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017550252</ref><ref group="xtra">PMID:017132010</ref><ref group="xtra">PMID:017319663</ref><ref group="xtra">PMID:012460567</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Fushman, D.]]		[[Category: Fushman, D.]]

OCA: Protected "2pe9" [edit=sysop:move=sysop]

OCA — Mon, 27 Dec 2010 00:42:51 GMT

Protected "2pe9" [edit=sysop:move=sysop]

←Older revision

Revision as of 00:42, 27 December 2010