2k8c - Revision history

OCA at 09:36, 22 May 2024

2024-05-22T09:36:18Z

←Older revision		Revision as of 09:36, 22 May 2024
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	==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==		==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==
-	<StructureSection load='2k8c' size='340' side='right'caption='[[2k8c~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='2k8c' size='340' side='right'caption='[[2k8c]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K8C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K8C 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;'>[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</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~~='gene'><td class~~="~~sblockLbl~~"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), PLAA, PLAP ([https://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'>[https://proteopedia.org/fgij/fg.htm?mol=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [https://pdbe.org/2k8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [https://www.ebi.ac.uk/pdbsum/2k8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k8c 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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [https://pdbe.org/2k8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [https://www.ebi.ac.uk/pdbsum/2k8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k8c ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~PLAP_HUMAN PLAP_HUMAN~~]~~] Involved in~~ the ~~maintenance~~ of ubiquitin ~~levels~~ (~~By similarity~~).	+	[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: Fu~~, Q S~~]]	+	[[Category: Fu QS]]
-	[[Category: Gao~~, H C~~]]	+	[[Category: Gao HC]]
-	[[Category: Hu~~, H Y~~]]	+	[[Category: Hu HY]]
-	[[Category: Lin~~, D H~~]]	+	[[Category: Lin DH]]
-	[[Category: Zhou~~, C J]]~~	+	[[Category: Zhou CJ]]
-	~~[[Category: Cytoplasm]]~~	+
-	~~[[Category: Nucleus]]~~	+
-	~~[[Category: Phosphoprotein]]~~	+
-	~~[[Category: Protein binding]]~~	+
-	~~[[Category: Ubiquitin in complex with pfuc trans isomer]]~~	+
-	~~[[Category: Ubl conjugation]]~~	+
-	~~[[Category: Wd repeat~~]]	+

OCA at 08:12, 7 April 2021

2021-04-07T08:12:33Z

←Older revision		Revision as of 08:12, 7 April 2021
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	==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==		==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==
-	<StructureSection load='2k8c' size='340' side='right' caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>	+	<StructureSection load='2k8c' size='340' side='right'caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2K8C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K8C FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</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;'>[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), PLAA, PLAP ([~~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">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), PLAA, PLAP ([https://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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [~~http~~://pdbe.org/2k8c PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2k8c PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2k8c 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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [https://pdbe.org/2k8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [https://www.ebi.ac.uk/pdbsum/2k8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k8c ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PLAP_HUMAN PLAP_HUMAN]] Involved in the maintenance of ubiquitin levels (By similarity).	+	[[https://www.uniprot.org/uniprot/PLAP_HUMAN PLAP_HUMAN]] Involved in the maintenance of ubiquitin levels (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[~~Ubiquitin~~\|~~Ubiquitin~~]]	+	*[[3D structures of ubiquitin\|3D structures of ubiquitin]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Fu, Q S]]		[[Category: Fu, Q S]]
	[[Category: Gao, H C]]		[[Category: Gao, H C]]

OCA at 10:41, 18 July 2018

2018-07-18T10:41:18Z

←Older revision		Revision as of 10:41, 18 July 2018
Line 1:		Line 1:
		+
	==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==		==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==
	<StructureSection load='2k8c' size='340' side='right' caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2k8c' size='340' side='right' caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), PLAA, PLAP ([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">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), PLAA, PLAP ([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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://pdbe.org/2k8c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c 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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://pdbe.org/2k8c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2k8c ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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/k8/2k8c_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k8/2k8c_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>
Line 41:		Line 42:
	[[Category: Lin, D H]]		[[Category: Lin, D H]]
	[[Category: Zhou, C J]]		[[Category: Zhou, C J]]
		+	[[Category: Cytoplasm]]
	[[Category: Nucleus]]		[[Category: Nucleus]]
	[[Category: Phosphoprotein]]		[[Category: Phosphoprotein]]
	[[Category: Protein binding]]		[[Category: Protein binding]]
	[[Category: Ubiquitin in complex with pfuc trans isomer]]		[[Category: Ubiquitin in complex with pfuc trans isomer]]
		+	[[Category: Ubl conjugation]]
	[[Category: Wd repeat]]		[[Category: Wd repeat]]

OCA at 15:03, 9 February 2016

2016-02-09T15:03:46Z

←Older revision		Revision as of 15:03, 9 February 2016
Line 17:		Line 17:
	<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=2k8c ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:24, 10 September 2015

2015-09-10T23:24:15Z

←Older revision		Revision as of 23:24, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2k8c' size='340' side='right' caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2k8c' size='340' side='right' caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K8C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K8C FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~]), PLAA, PLAP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), PLAA, PLAP ([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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c 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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://pdbe.org/2k8c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c 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 2k8c" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Fu, Q S]]		[[Category: Fu, Q S]]
	[[Category: Gao, H C]]		[[Category: Gao, H C]]

OCA at 07:34, 25 December 2014

2014-12-25T07:34:33Z

←Older revision		Revision as of 07:34, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K8C FirstGlance]. <br>		<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K8C FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), PLAA, PLAP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), PLAA, PLAP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c 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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PLAP_HUMAN PLAP_HUMAN]] Involved in the maintenance of ubiquitin levels (By similarity).
	== 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: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Fu, Q S.]]	+	[[Category: Fu, Q S]]
-	[[Category: Gao, H C.]]	+	[[Category: Gao, H C]]
-	[[Category: Hu, H Y.]]	+	[[Category: Hu, H Y]]
-	[[Category: Lin, D H.]]	+	[[Category: Lin, D H]]
-	[[Category: Zhou, C J.]]	+	[[Category: Zhou, C J]]
	[[Category: Nucleus]]		[[Category: Nucleus]]
	[[Category: Phosphoprotein]]		[[Category: Phosphoprotein]]

OCA at 02:58, 29 September 2014

2014-09-29T02:58:54Z

←Older revision		Revision as of 02:58, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2k8c.~~png~~\|~~left~~\|200px]]	+	==Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin==
		+	<StructureSection load='2k8c' size='340' side='right' caption='[[2k8c]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2k8c]] 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=2K8C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K8C FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2k89\|2k89]], [[2k8a\|2k8a]], [[2k8b\|2k8b]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), PLAA, PLAP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2k8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k8c OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k8c RCSB], [http://www.ebi.ac.uk/pdbsum/2k8c 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/k8/2k8c_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 ==
		+	Ubiquitin (Ub) is an essential modifier conserved in all eukaryotes from yeast to human. Phospholipase A(2)-activating protein (PLAA), a mammalian homolog of yeast DOA1/UFD3, has been proposed to be able to bind with Ub, which plays important roles in endoplasmic reticulum-associated degradation, vesicle formation, and DNA damage response. We have identified a core domain from the PLAA family ubiquitin-binding region of human PLAA (residues 386-465, namely PFUC) that can bind Ub and elucidated its solution structure and Ub-binding mode by NMR approaches. The PFUC domain possesses equal population of two conformers in solution by cis/trans-isomerization, whereas the two isomers exhibit almost equivalent Ub binding abilities. This domain structure takes a novel fold consisting of four beta-strands and two alpha-helices, and the Ub-binding site on PFUC locates in the surface of alpha2-helix, which is to some extent analogous to those of UBA, CUE, and UIM domains. This study provides structural basis and biochemical information for Ub recognition of the novel PFU domain from a PLAA family protein that may connect ubiquitination and degradation in endoplasmic reticulum-associated degradation.

-	~~{{STRUCTURE_2k8c\| PDB=2k8c \| SCENE= }}~~	+	Structural basis for ubiquitin recognition by a novel domain from human phospholipase A2-activating protein.,Fu QS, Zhou CJ, Gao HC, Jiang YJ, Zhou ZR, Hong J, Yao WM, Song AX, Lin DH, Hu HY J Biol Chem. 2009 Jul 10;284(28):19043-52. Epub 2009 May 7. PMID:19423704<ref>PMID:19423704</ref>

-	~~===Solution structure~~ of ~~PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19423704}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2k8c]] 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=2K8C OCA].~~	+

	==See Also==		==See Also==
	*[[Ubiquitin\|Ubiquitin]]		*[[Ubiquitin\|Ubiquitin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019423704<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Fu, Q S.]]		[[Category: Fu, Q S.]]

OCA at 14:14, 20 October 2012

2012-10-20T14:14:45Z

←Older revision		Revision as of 14:14, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2k8c]] 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=2K8C OCA].	+	[[2k8c]] 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=2K8C OCA].

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

OCA: Protected "2k8c" [edit=sysop:move=sysop]

2012-07-26T14:32:09Z

Protected "2k8c" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:32, 26 July 2012

OCA at 14:32, 26 July 2012

2012-07-26T14:32:07Z

←Older revision		Revision as of 14:32, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2k8c.png\|left\|200px]]		[[Image:2k8c.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2k8c", 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_2k8c\| PDB=2k8c \| SCENE= }}		{{STRUCTURE_2k8c\| PDB=2k8c \| SCENE= }}

	===Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin===		===Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19423704}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19423704 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19423704}}		{{ABSTRACT_PUBMED_19423704}}

	==About this Structure==		==About this Structure==
-	~~2K8C~~ is a 2 ~~chains~~ structure of ~~sequences~~ 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=2K8C OCA].	+	[[2k8c]] 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=2K8C OCA].
		+
		+	==See Also==
		+	*[[Ubiquitin\|Ubiquitin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19423704~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019423704</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Fu, Q S.]]		[[Category: Fu, Q S.]]
Line 30:		Line 21:
	[[Category: Lin, D H.]]		[[Category: Lin, D H.]]
	[[Category: Zhou, C J.]]		[[Category: Zhou, C J.]]
-	[[Category: Cytoplasm]]
	[[Category: Nucleus]]		[[Category: Nucleus]]
	[[Category: Phosphoprotein]]		[[Category: Phosphoprotein]]
	[[Category: Protein binding]]		[[Category: Protein binding]]
	[[Category: Ubiquitin in complex with pfuc trans isomer]]		[[Category: Ubiquitin in complex with pfuc trans isomer]]
-	[[Category: Ubl conjugation]]
	[[Category: Wd repeat]]		[[Category: Wd repeat]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 29 15:53:44 2009''