2zl3 - Revision history

OCA at 13:41, 1 November 2023

OCA — Wed, 01 Nov 2023 13:41:35 GMT

←Older revision		Revision as of 13:41, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zl3' size='340' side='right'caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>		<StructureSection load='2zl3' size='340' side='right'caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43504 Atcc 43504~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZL3 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;'>[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</div></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]] 2.81Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">clpP ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=210 ATCC 43504])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [https://pdbe.org/2zl3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [https://www.ebi.ac.uk/pdbsum/2zl3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zl3 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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [https://pdbe.org/2zl3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [https://www.ebi.ac.uk/pdbsum/2zl3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zl3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CLPP_HELPY CLPP_HELPY]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).	+	[https://www.uniprot.org/uniprot/CLPP_HELPY CLPP_HELPY] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 43504]]~~	+	[[Category: Helicobacter pylori]]
-	~~[[Category: Endopeptidase Clp~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kim~~, D Y~~]]	+	[[Category: Kim DY]]
-	[[Category: Kim~~, K K]]~~	+	[[Category: Kim KK]]
-	~~[[Category: Cytoplasm]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Protease]]~~	+
-	~~[[Category: S99a]]~~	+
-	~~[[Category: Serine protease~~]]	+

OCA at 07:17, 10 November 2021

OCA — Wed, 10 Nov 2021 07:17:36 GMT

←Older revision		Revision as of 07:17, 10 November 2021
Line 1:		Line 1:

	==Crystal structure of H.pylori ClpP S99A==		==Crystal structure of H.pylori ClpP S99A==
-	<StructureSection load='2zl3' size='340' side='right' caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>	+	<StructureSection load='2zl3' size='340' side='right'caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</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;'>[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ATCC 43504])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ATCC 43504])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [~~http~~://pdbe.org/2zl3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zl3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zl3 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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [https://pdbe.org/2zl3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [https://www.ebi.ac.uk/pdbsum/2zl3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zl3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CLPP_HELPY CLPP_HELPY]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).	+	[[https://www.uniprot.org/uniprot/CLPP_HELPY CLPP_HELPY]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Clp ~~Protease~~\|Clp ~~Protease~~]]	+	*[[Clp protease 3D structures\|Clp protease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 39:
	[[Category: Atcc 43504]]		[[Category: Atcc 43504]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
		+	[[Category: Large Structures]]
	[[Category: Kim, D Y]]		[[Category: Kim, D Y]]
	[[Category: Kim, K K]]		[[Category: Kim, K K]]

OCA at 06:56, 18 October 2018

OCA — Thu, 18 Oct 2018 06:56:13 GMT

←Older revision		Revision as of 06:56, 18 October 2018
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zl/2zl3_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zl/2zl3_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 41:
	[[Category: Kim, D Y]]		[[Category: Kim, D Y]]
	[[Category: Kim, K K]]		[[Category: Kim, K K]]
		+	[[Category: Cytoplasm]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Protease]]		[[Category: Protease]]
	[[Category: S99a]]		[[Category: S99a]]
	[[Category: Serine protease]]		[[Category: Serine protease]]

OCA at 13:09, 5 August 2016

OCA — Fri, 05 Aug 2016 13:09:31 GMT

←Older revision		Revision as of 13:09, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of H.pylori ClpP S99A==		==Crystal structure of H.pylori ClpP S99A==
	<StructureSection load='2zl3' size='340' side='right' caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>		<StructureSection load='2zl3' size='340' side='right' caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Helicobacter_pylori Helicobacter pylori~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ~~Helicobacter pylori~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ATCC 43504])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [http://www.ebi.ac.uk/pdbsum/2zl3 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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [http://pdbe.org/2zl3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [http://www.ebi.ac.uk/pdbsum/2zl3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zl3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=2zl3 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 29:
	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 2zl3" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 43504]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
-	[[Category: Helicobacter pylori]]
	[[Category: Kim, D Y]]		[[Category: Kim, D Y]]
	[[Category: Kim, K K]]		[[Category: Kim, K K]]

OCA at 19:06, 25 December 2014

OCA — Thu, 25 Dec 2014 19:06:05 GMT

←Older revision		Revision as of 19:06, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [http://www.ebi.ac.uk/pdbsum/2zl3 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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [http://www.ebi.ac.uk/pdbsum/2zl3 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CLPP_HELPY CLPP_HELPY]] Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 26:		Line 28:
	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>
		+
		+	==See Also==
		+	*[[Clp Protease\|Clp Protease]]
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 37:
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: Kim, D Y.]]	+	[[Category: Kim, D Y]]
-	[[Category: Kim, K K.]]	+	[[Category: Kim, K K]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Protease]]		[[Category: Protease]]
	[[Category: S99a]]		[[Category: S99a]]
	[[Category: Serine protease]]		[[Category: Serine protease]]

OCA at 06:24, 29 September 2014

OCA — Mon, 29 Sep 2014 06:24:37 GMT

←Older revision		Revision as of 06:24, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2zl3.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of H.pylori ClpP S99A==
		+	<StructureSection load='2zl3' size='340' side='right' caption='[[2zl3]], [[Resolution\|resolution]] 2.81Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zl3]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZL3 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zl0\|2zl0]], [[2zl2\|2zl2]], [[2zl4\|2zl4]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_Clp Endopeptidase Clp], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.92 3.4.21.92] </span></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=2zl3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zl3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zl3 RCSB], [http://www.ebi.ac.uk/pdbsum/2zl3 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/zl/2zl3_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 ==
		+	ClpP and its ATPase compartment, ClpX or ClpA, remove misfolded proteins in cells and are of utmost importance in protein quality control. The ring hexamers of ClpA or ClpX recognize, unfold, and translocate target substrates into the degradation chamber of the double-ring tetradecamer of ClpP. The overall reaction scheme catalyzed by ClpXP or ClpAP has been proposed; however, the molecular mechanisms associated with substrate recognition and degradation have not yet been clarified in detail. To investigate these mechanisms, we determined the crystal structures of ClpP from Helicobacter pylori in complex with product peptides bound to the active site as well as in the apo state. In the complex structure, the peptides are zipped with two antiparallel strands of ClpP and point to the adjacent active site, thus providing structural explanations for the broad substrate specificity, the product inhibition and the processive degradation of substrates in the chamber. The structures also suggest that substrate binding causes local conformational changes around the active site that ultimately induce the active conformation of ClpP.

-	~~{{STRUCTURE_2zl3\| PDB=2zl3 \| SCENE= }}~~	+	The structural basis for the activation and peptide recognition of bacterial ClpP.,Kim DY, Kim KK J Mol Biol. 2008 Jun 13;379(4):760-71. Epub 2008 Apr 20. PMID:18468623<ref>PMID:18468623</ref>

-	~~===Crystal structure~~ of H.~~pylori ClpP S99A===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18468623}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2zl3]] is a 14 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA].~~	+	</StructureSection>
-		+
-	==~~See Also==~~	+
-	*[[Clp Protease\|Clp Protease]]	+
-		+
-	~~==Reference~~==	+
-	<~~ref group="xtra">PMID:018468623<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]

OCA: Protected "2zl3" [edit=sysop:move=sysop]

OCA — Sat, 20 Oct 2012 20:20:45 GMT

Protected "2zl3" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:20, 20 October 2012

OCA at 20:20, 20 October 2012

OCA — Sat, 20 Oct 2012 20:20:42 GMT

←Older revision		Revision as of 20:20, 20 October 2012
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-	{{Seed}}
	[[Image:2zl3.png\|left\|200px]]		[[Image:2zl3.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zl3", 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_2zl3\| PDB=2zl3 \| SCENE= }}		{{STRUCTURE_2zl3\| PDB=2zl3 \| SCENE= }}

	===Crystal structure of H.pylori ClpP S99A===		===Crystal structure of H.pylori ClpP S99A===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18468623}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18468623 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_18468623}}		{{ABSTRACT_PUBMED_18468623}}

	==About this Structure==		==About this Structure==
-	~~2ZL3~~ is a 14 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA].	+	[[2zl3]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA].
		+
		+	==See Also==
		+	*[[Clp Protease\|Clp Protease]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18468623~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018468623</ref><references group="xtra"/>
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Kim, D Y.]]		[[Category: Kim, D Y.]]
	[[Category: Kim, K K.]]		[[Category: Kim, K K.]]
-	[[Category: Cytoplasm]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Protease]]		[[Category: Protease]]
	[[Category: S99a]]		[[Category: S99a]]
	[[Category: Serine protease]]		[[Category: Serine protease]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 03:57:26 2009''

OCA at 01:57, 18 February 2009

OCA — Wed, 18 Feb 2009 01:57:27 GMT

←Older revision		Revision as of 01:57, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2ZL3 is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA].	+	2ZL3 is a 14 chains structure of sequences from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZL3 OCA].

	==Reference==		==Reference==
-	~~The structural basis for the activation and peptide recognition of bacterial ClpP., Kim DY, Kim KK, J Mol Biol. 2008 Jun 13;379(4):760-71. Epub 2008 Apr 20.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18468623 18468623]~~	+	<ref group="xtra">PMID:18468623</ref><references group="xtra"/>
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: Single protein]]
	[[Category: Kim, D Y.]]		[[Category: Kim, D Y.]]
	[[Category: Kim, K K.]]		[[Category: Kim, K K.]]
Line 35:		Line 34:
	[[Category: Serine protease]]		[[Category: Serine protease]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 10~~:07:~~32 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 03:57:26 2009''

OCA at 07:07, 29 July 2008

OCA — Tue, 29 Jul 2008 07:07:36 GMT

←Older revision		Revision as of 07:07, 29 July 2008
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-	[[Image:2zl3.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2zl3.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2zl3\| PDB=2zl3 \| SCENE= }}		{{STRUCTURE_2zl3\| PDB=2zl3 \| SCENE= }}

-	~~'''~~Crystal structure of H.pylori ClpP S99A~~'''~~	+	===Crystal structure of H.pylori ClpP S99A===


-	~~==Overview==~~	+	<!--
-	~~ClpP and its ATPase compartment, ClpX or ClpA, remove misfolded proteins in cells and are of utmost importance in protein quality control.~~ The ~~ring hexamers of ClpA or ClpX recognize~~, ~~unfold~~, ~~and translocate target substrates into~~ the degradation chamber of the double-ring tetradecamer of ClpP. The overall reaction scheme catalyzed by ClpXP or ClpAP has been proposed; however, the molecular mechanisms associated with substrate recognition and degradation have not yet been clarified in detail. To investigate these mechanisms, we determined the crystal structures of ClpP from Helicobacter pylori in complex with product peptides bound to the ~~active site~~ as ~~well as in the apo state~~. ~~In the complex structure~~, the peptides are zipped with two antiparallel strands of ClpP and point to the adjacent active site, thus providing structural explanations for the broad substrate specificity, the product inhibition and the processive degradation of substrates in the chamber. The structures also suggest that substrate binding causes local conformational changes around the active site that ultimately induce the active conformation of ClpP.	+	The line below this paragraph, {{ABSTRACT_PUBMED_18468623}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18468623 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18468623}}

	==About this Structure==		==About this Structure==
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	[[Category: S99a]]		[[Category: S99a]]
	[[Category: Serine protease]]		[[Category: Serine protease]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jun 18 12~~:19:46 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 10:07:32 2008''