3kth - Revision history

OCA at 19:21, 29 May 2024

2024-05-29T19:21:25Z

←Older revision		Revision as of 19:21, 29 May 2024
Line 3:		Line 3:
	<StructureSection load='3kth' size='340' side='right'caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3kth' size='340' side='right'caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"vibrio_subtilis"_ehrenberg_1835 "vibrio~~ subtilis~~" ehrenberg 1835~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KTH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KTH 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;'>[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</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]] 3Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [https://pdbe.org/3kth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [https://www.ebi.ac.uk/pdbsum/3kth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth 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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [https://pdbe.org/3kth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [https://www.ebi.ac.uk/pdbsum/3kth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CLPP_BACSU CLPP_BACSU]] 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). ClpXP is involved in the complete degradation of the Site-2 clipped anti-sigma-W factor RsiW. This results in the release of SigW and the transcription activation of the genes under the control of the sigma-W factor.<ref>PMID:16899079</ref>	+	[https://www.uniprot.org/uniprot/CLPP_BACSU CLPP_BACSU] 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). ClpXP is involved in the complete degradation of the Site-2 clipped anti-sigma-W factor RsiW. This results in the release of SigW and the transcription activation of the genes under the control of the sigma-W factor.<ref>PMID:16899079</ref>
	== 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: ~~Vibrio~~ subtilis ~~ehrenberg 1835]]~~	+	[[Category: Bacillus subtilis]]
-	~~[[Category: Endopeptidase Clp~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Brotz-Oesterhelt, H]]	+	[[Category: Brotz-Oesterhelt H]]
-	[[Category: Lee, B G]]	+	[[Category: Lee B-G]]
-	[[Category: Song~~, H K]]~~	+	[[Category: Song HK]]
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Protease]]~~	+
-	~~[[Category: Serine protease]]~~	+
-	~~[[Category: Stress response~~]]	+

OCA at 07:51, 10 November 2021

2021-11-10T07:51:38Z

←Older revision		Revision as of 07:51, 10 November 2021
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	==Structure of ClpP from Bacillus subtilis in orthorombic crystal form==		==Structure of ClpP from Bacillus subtilis in orthorombic crystal form==
-	<StructureSection load='3kth' size='340' side='right' caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='3kth' size='340' side='right'caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3KTH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KTH FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</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;'>[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [~~http~~://pdbe.org/3kth PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3kth PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth 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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [https://pdbe.org/3kth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [https://www.ebi.ac.uk/pdbsum/3kth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CLPP_BACSU CLPP_BACSU]] 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). ClpXP is involved in the complete degradation of the Site-2 clipped anti-sigma-W factor RsiW. This results in the release of SigW and the transcription activation of the genes under the control of the sigma-W factor.<ref>PMID:16899079</ref>	+	[[https://www.uniprot.org/uniprot/CLPP_BACSU CLPP_BACSU]] 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). ClpXP is involved in the complete degradation of the Site-2 clipped anti-sigma-W factor RsiW. This results in the release of SigW and the transcription activation of the genes under the control of the sigma-W factor.<ref>PMID:16899079</ref>
	== 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: Vibrio subtilis ehrenberg 1835]]		[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
		+	[[Category: Large Structures]]
	[[Category: Brotz-Oesterhelt, H]]		[[Category: Brotz-Oesterhelt, H]]
	[[Category: Lee, B G]]		[[Category: Lee, B G]]

OCA at 06:39, 2 January 2019

2019-01-02T06:39:21Z

←Older revision		Revision as of 06:39, 2 January 2019
Line 3:		Line 3:
	<StructureSection load='3kth' size='340' side='right' caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3kth' size='340' side='right' caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"~~bacillus_globigii~~"~~_migula_1900~~ "~~bacillus globigii~~" ~~migula 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KTH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KTH FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "~~Bacillus globigii~~" ~~Migula 1900~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://pdbe.org/3kth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://pdbe.org/3kth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth ProSAT]</span></td></tr>
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/kt/3kth_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kt/3kth_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 37:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus globigii migula 1900~~]]	+	[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Brotz-Oesterhelt, H]]		[[Category: Brotz-Oesterhelt, H]]

OCA at 18:24, 5 August 2016

2016-08-05T18:24:48Z

←Older revision		Revision as of 18:24, 5 August 2016
Line 1:		Line 1:
		+
	==Structure of ClpP from Bacillus subtilis in orthorombic crystal form==		==Structure of ClpP from Bacillus subtilis in orthorombic crystal form==
	<StructureSection load='3kth' size='340' side='right' caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3kth' size='340' side='right' caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis Bacillus subtilis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KTH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KTH FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus ~~subtilis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth 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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://pdbe.org/3kth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kth 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=3kth 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 3kth" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~subtilis~~]]	+	[[Category: Bacillus globigii migula 1900]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
	[[Category: Brotz-Oesterhelt, H]]		[[Category: Brotz-Oesterhelt, H]]

OCA at 20:57, 25 December 2014

2014-12-25T20:57:00Z

←Older revision		Revision as of 20:57, 25 December 2014
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	<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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth 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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CLPP_BACSU CLPP_BACSU]] 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). ClpXP is involved in the complete degradation of the Site-2 clipped anti-sigma-W factor RsiW. This results in the release of SigW and the transcription activation of the genes under the control of the sigma-W factor.<ref>PMID:16899079</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:46, 9 December 2014

2014-12-09T08:46:17Z

←Older revision		Revision as of 08:46, 9 December 2014
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-	[[~~Image:~~3kth.~~png~~\|~~left~~\|200px]]	+	==Structure of ClpP from Bacillus subtilis in orthorombic crystal form==
		+	<StructureSection load='3kth' size='340' side='right' caption='[[3kth]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3kth]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KTH FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ktg\|3ktg]], [[3kti\|3kti]], [[3ktj\|3ktj]], [[3ktk\|3ktk]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">clpP, yvdN, BSU34540 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</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=3kth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kth OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3kth RCSB], [http://www.ebi.ac.uk/pdbsum/3kth 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/3kth_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 ==
		+	Clp-family proteins are prototypes for studying the mechanism of ATP-dependent proteases because the proteolytic activity of the ClpP core is tightly regulated by activating Clp-ATPases. Nonetheless, the proteolytic activation mechanism has remained elusive because of the lack of a complex structure. Acyldepsipeptides (ADEPs), a recently discovered class of antibiotics, activate and disregulate ClpP. Here we have elucidated the structural changes underlying the ClpP activation process by ADEPs. We present the structures of Bacillus subtilis ClpP alone and in complex with ADEP1 and ADEP2. The structures show the closed-to-open-gate transition of the ClpP N-terminal segments upon activation as well as conformational changes restricted to the upper portion of ClpP. The direction of the conformational movement and the hydrophobic clustering that stabilizes the closed structure are markedly different from those of other ATP-dependent proteases, providing unprecedented insights into the activation of ClpP.

-	~~{{STRUCTURE_3kth\| PDB=3kth \| SCENE= }}~~	+	Structures of ClpP in complex with acyldepsipeptide antibiotics reveal its activation mechanism.,Lee BG, Park EY, Lee KE, Jeon H, Sung KH, Paulsen H, Rubsamen-Schaeff H, Brotz-Oesterhelt H, Song HK Nat Struct Mol Biol. 2010 Apr;17(4):471-8. Epub 2010 Mar 21. PMID:20305655<ref>PMID:20305655</ref>

-	~~===Structure~~ of ~~ClpP from Bacillus subtilis in orthorombic crystal form===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20305655}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3kth]] is a 7 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_subtilis Bacillus subtilis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA].~~	+

	==See Also==		==See Also==
	*[[Clp Protease\|Clp Protease]]		*[[Clp Protease\|Clp Protease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:020305655<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
-	[[Category: Brotz-Oesterhelt, H.]]	+	[[Category: Brotz-Oesterhelt, H]]
-	[[Category: Lee, B G.]]	+	[[Category: Lee, B G]]
-	[[Category: Song, H K.]]	+	[[Category: Song, H K]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA: Protected "3kth" [edit=sysop:move=sysop]

2012-10-20T21:33:02Z

Protected "3kth" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:33, 20 October 2012

OCA at 21:32, 20 October 2012

2012-10-20T21:32:58Z

←Older revision		Revision as of 21:32, 20 October 2012
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-	{{Seed}}
	[[Image:3kth.png\|left\|200px]]		[[Image:3kth.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3kth", 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_3kth\| PDB=3kth \| SCENE= }}		{{STRUCTURE_3kth\| PDB=3kth \| SCENE= }}

	===Structure of ClpP from Bacillus subtilis in orthorombic crystal form===		===Structure of ClpP from Bacillus subtilis in orthorombic crystal form===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20305655}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20305655 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20305655}}		{{ABSTRACT_PUBMED_20305655}}

	==About this Structure==		==About this Structure==
-	~~3KTH~~ is a 7 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA].	+	[[3kth]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA].
		+
		+	==See Also==
		+	*[[Clp Protease\|Clp Protease]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20305655~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020305655</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
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	[[Category: Serine protease]]		[[Category: Serine protease]]
	[[Category: Stress response]]		[[Category: Stress response]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 3 11:20:50 2010''

OCA at 08:10, 3 November 2010

2010-11-03T08:10:11Z

←Older revision		Revision as of 08:10, 3 November 2010
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	{{Seed}}		{{Seed}}
-	[[Image:3kth.~~jpg~~\|left\|200px]]	+	[[Image:3kth.png\|left\|200px]]

	<!--		<!--
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	===Structure of ClpP from Bacillus subtilis in orthorombic crystal form===		===Structure of ClpP from Bacillus subtilis in orthorombic crystal form===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20305655}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20305655 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20305655}}

	==About this Structure==		==About this Structure==
	3KTH is a 7 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA].		3KTH is a 7 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20305655</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Endopeptidase Clp]]		[[Category: Endopeptidase Clp]]
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	[[Category: Song, H K.]]		[[Category: Song, H K.]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
-	[[Category: Cytoplasm]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]
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	[[Category: Stress response]]		[[Category: Stress response]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 24 09~~:03:16 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 3 11:20:50 2010''

OCA at 07:03, 24 March 2010

2010-03-24T07:03:17Z

←Older revision		Revision as of 07:03, 24 March 2010
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3kth.jpg\|left\|200px]]

-	The ~~entry 3kth~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3kth", 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_3kth\| PDB=3kth \| SCENE= }}

-	~~Authors: Lee, B.-G., Brotz-Oesterhelt, H., Song, H.K.~~	+	===Structure of ClpP from Bacillus subtilis in orthorombic crystal form===

-	Description: Structure of ClpP from Bacillus subtilis in orthorombic crystal form

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jan 6~~ 09:13:06 2010''	+	==About this Structure==
		+	3KTH is a 7 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KTH OCA].
		+	[[Category: Bacillus subtilis]]
		+	[[Category: Endopeptidase Clp]]
		+	[[Category: Brotz-Oesterhelt, H.]]
		+	[[Category: Lee, B G.]]
		+	[[Category: Song, H K.]]
		+	[[Category: Atp-binding]]
		+	[[Category: Cytoplasm]]
		+	[[Category: Hydrolase]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Protease]]
		+	[[Category: Serine protease]]
		+	[[Category: Stress response]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 24 09:03:16 2010''