2zwp - Revision history

OCA at 13:59, 1 November 2023

2023-11-01T13:59:29Z

←Older revision		Revision as of 13:59, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zwp' size='340' side='right'caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2zwp' size='340' side='right'caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"thermococcus_kodakaraensis"_atomi_et_al._2004 "thermococcus kodakaraensis" atomi et al. 2004~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~</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]] 2.4Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[2z2z\|2z2z]], [[2zwo\|2zwo]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62]~~ </~~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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [https://pdbe.org/2zwp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [https://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp 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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [https://pdbe.org/2zwp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [https://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TKSU_THEKO TKSU_THEKO]] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.	+	[https://www.uniprot.org/uniprot/TKSU_THEKO TKSU_THEKO] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Thermococcus kodakaraensis atomi et al. 2004]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Subtilisin~~]]	+	[[Category: Thermococcus kodakarensis]]
-	[[Category: Kanaya, S]]	+	[[Category: Kanaya S]]
-	[[Category: Koga, Y]]	+	[[Category: Koga Y]]
-	[[Category: Matsumura, H]]	+	[[Category: Matsumura H]]
-	[[Category: Takano, K]]	+	[[Category: Takano K]]
-	[[Category: Takeuchi, Y]]	+	[[Category: Takeuchi Y]]
-	[[Category: Tanaka, S]]	+	[[Category: Tanaka S]]
-	~~[[Category: Calcium]]~~	+
-	~~[[Category: Calcium ion]]~~	+
-	~~[[Category: Folding]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Protease]]~~	+
-	~~[[Category: Secreted]]~~	+
-	~~[[Category: Serine protease]]~~	+
-	~~[[Category: Thermococcus kodakaraensis]]~~	+
-	~~[[Category: Zymogen~~]]	+

OCA at 07:20, 10 November 2021

2021-11-10T07:20:49Z

←Older revision		Revision as of 07:20, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='2zwp' size='340' side='right'caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2zwp' size='340' side='right'caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"thermococcus_kodakaraensis"_atomi_et_al._2004 "thermococcus kodakaraensis" atomi et al. 2004]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"thermococcus_kodakaraensis"_atomi_et_al._2004 "thermococcus kodakaraensis" atomi et al. 2004]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2z2z\|2z2z]], [[2zwo\|2zwo]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [~~http~~://pdbe.org/2zwp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp 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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [https://pdbe.org/2zwp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [https://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TKSU_THEKO TKSU_THEKO]] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.	+	[[https://www.uniprot.org/uniprot/TKSU_THEKO TKSU_THEKO]] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 12:11, 29 July 2020

2020-07-29T12:11:10Z

←Older revision		Revision as of 12:11, 29 July 2020
Line 1:		Line 1:

	==Crystal structure of Ca3 site mutant of Pro-S324A==		==Crystal structure of Ca3 site mutant of Pro-S324A==
-	<StructureSection load='2zwp' size='340' side='right' caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='2zwp' size='340' side='right'caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"thermococcus_kodakaraensis"_atomi_et_al._2004 "thermococcus kodakaraensis" atomi et al. 2004]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"thermococcus_kodakaraensis"_atomi_et_al._2004 "thermococcus kodakaraensis" atomi et al. 2004]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://pdbe.org/2zwp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://pdbe.org/2zwp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Subtilisin\|Subtilisin]]	+	*[[Subtilisin 3D structures\|Subtilisin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Thermococcus kodakaraensis atomi et al. 2004]]		[[Category: Thermococcus kodakaraensis atomi et al. 2004]]
		+	[[Category: Large Structures]]
	[[Category: Subtilisin]]		[[Category: Subtilisin]]
	[[Category: Kanaya, S]]		[[Category: Kanaya, S]]

OCA at 06:51, 18 October 2018

2018-10-18T06:51:50Z

←Older revision		Revision as of 06:51, 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/zw/2zwp_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zw/2zwp_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 45:		Line 45:
	[[Category: Takeuchi, Y]]		[[Category: Takeuchi, Y]]
	[[Category: Tanaka, S]]		[[Category: Tanaka, S]]
		+	[[Category: Calcium]]
	[[Category: Calcium ion]]		[[Category: Calcium ion]]
	[[Category: Folding]]		[[Category: Folding]]

OCA at 15:45, 5 August 2016

2016-08-05T15:45:15Z

←Older revision		Revision as of 15:45, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Ca3 site mutant of Pro-S324A==		==Crystal structure of Ca3 site mutant of Pro-S324A==
	<StructureSection load='2zwp' size='340' side='right' caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2zwp' size='340' side='right' caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermococcus_kodakarensis Thermococcus kodakarensis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"thermococcus_kodakaraensis"_atomi_et_al._2004 "thermococcus kodakaraensis" atomi et al. 2004]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp 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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://pdbe.org/2zwp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zwp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~TKSU_PYRKO TKSU_PYRKO~~]] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.	+	[[http://www.uniprot.org/uniprot/TKSU_THEKO TKSU_THEKO]] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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=2zwp 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 2zwp" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Thermococcus kodakaraensis atomi et al. 2004]]
	[[Category: Subtilisin]]		[[Category: Subtilisin]]
-	[[Category: Thermococcus kodakarensis]]
	[[Category: Kanaya, S]]		[[Category: Kanaya, S]]
	[[Category: Koga, Y]]		[[Category: Koga, Y]]

OCA at 20:01, 25 December 2014

2014-12-25T20:01:00Z

←Older revision		Revision as of 20:01, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp 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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TKSU_PYRKO TKSU_PYRKO]] Has a broad substrate specificity with a slight preference to large hydrophobic amino acid residues at the P1 position.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	[[Category: Subtilisin]]		[[Category: Subtilisin]]
	[[Category: Thermococcus kodakarensis]]		[[Category: Thermococcus kodakarensis]]
-	[[Category: Kanaya, S.]]	+	[[Category: Kanaya, S]]
-	[[Category: Koga, Y.]]	+	[[Category: Koga, Y]]
-	[[Category: Matsumura, H.]]	+	[[Category: Matsumura, H]]
-	[[Category: Takano, K.]]	+	[[Category: Takano, K]]
-	[[Category: Takeuchi, Y.]]	+	[[Category: Takeuchi, Y]]
-	[[Category: Tanaka, S.]]	+	[[Category: Tanaka, S]]
	[[Category: Calcium ion]]		[[Category: Calcium ion]]
	[[Category: Folding]]		[[Category: Folding]]
Line 47:		Line 49:
	[[Category: Secreted]]		[[Category: Secreted]]
	[[Category: Serine protease]]		[[Category: Serine protease]]
-	[[Category: Subtilisin]]
	[[Category: Thermococcus kodakaraensis]]		[[Category: Thermococcus kodakaraensis]]
	[[Category: Zymogen]]		[[Category: Zymogen]]

OCA at 08:23, 29 September 2014

2014-09-29T08:23:11Z

←Older revision		Revision as of 08:23, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2zwp.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of Ca3 site mutant of Pro-S324A==
		+	<StructureSection load='2zwp' size='340' side='right' caption='[[2zwp]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZWP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2z2z\|2z2z]], [[2zwo\|2zwo]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] </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=2zwp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zwp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zwp RCSB], [http://www.ebi.ac.uk/pdbsum/2zwp 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/zw/2zwp_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 ==
		+	Tk-subtilisin from the hyperthermophiolic archaeon Thermococcus kodakaraensis matures from Pro-Tk-subtilisin upon autoprocessing and degradation of Tk-propeptide [Tanaka, S., Saito, K., Chon, H., Matsumura, H., Koga, Y., Takano, K., and Kanaya, S. (2007) J. Biol. Chem. 282, 8246-8255]. It requires Ca(2+) for folding and assumes a molten globule-like structure in the absence of Ca(2+) even in the presence of Tk-propeptide. Tk-subtilisin contains seven Ca(2+)-binding sites. Four of them (Ca2-Ca5) are located within a long loop, which mostly consists of a unique insertion sequence of this protein. To analyze the role of this Ca(2+)-binding loop, three mutant proteins, Deltaloop-Tk-subtilisin, DeltaCa2-Pro-S324A, and DeltaCa3-Pro-S324A, were constructed. These proteins were designed to remove the Ca(2+)-binding loop, Ca2 site, or Ca3 site of Pro-Tk-subtilisin or its active site mutant Pro-S324A. Far-UV CD spectra of these proteins refolded in the absence and presence of Ca(2+) indicated that Deltaloop-Tk-subtilisin completely lost the ability to fold into a native structure. In contrast, two other proteins retained this ability, although their refolding rates were greatly decreased compared to that of Pro-S324A. Determination of the crystal structures of these proteins purified in a Ca(2+)-bound form indicates that the structures of DeltaCa2-Pro-S324A and DeltaCa3-Pro-S324A are virtually identical to that of Pro-S324A, except that they lack the Ca2 and Ca3 sites, respectively, and the structure of the Ca(2+)-binding loop is destabilized. Nevertheless, these proteins were slightly more stable than Pro-S324A. These results suggest that the Ca(2+)-binding loop is required for folding of Tk-subtilisin but does not seriously contribute to the stabilization of Tk-subtilisin in a native structure.

-	~~{{STRUCTURE_2zwp\| PDB=2zwp \| SCENE= }}~~	+	Requirement of a unique Ca(2+)-binding loop for folding of Tk-subtilisin from a hyperthermophilic archaeon.,Takeuchi Y, Tanaka S, Matsumura H, Koga Y, Takano K, Kanaya S Biochemistry. 2009 Nov 10;48(44):10637-43. PMID:19813760<ref>PMID:19813760</ref>

-	~~===Crystal structure~~ of ~~Ca3 site mutant of Pro-S324A===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19813760}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2zwp]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA].~~	+

	==See Also==		==See Also==
	*[[Subtilisin\|Subtilisin]]		*[[Subtilisin\|Subtilisin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019813760<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Subtilisin]]		[[Category: Subtilisin]]
	[[Category: Thermococcus kodakarensis]]		[[Category: Thermococcus kodakarensis]]

OCA at 20:52, 20 October 2012

2012-10-20T20:52:17Z

←Older revision		Revision as of 20:52, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2zwp]] is a 2 chain structure ~~of [[Subtilisin]]~~ with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA].	+	[[2zwp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZWP OCA].

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

OCA at 11:53, 27 July 2012

2012-07-27T11:53:12Z

←Older revision		Revision as of 11:53, 27 July 2012
Line 1:		Line 1:
	[[Image:2zwp.png\|left\|200px]]		[[Image:2zwp.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zwp", 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_2zwp\| PDB=2zwp \| SCENE= }}		{{STRUCTURE_2zwp\| PDB=2zwp \| SCENE= }}

	===Crystal structure of Ca3 site mutant of Pro-S324A===		===Crystal structure of Ca3 site mutant of Pro-S324A===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19813760}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19813760 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19813760}}		{{ABSTRACT_PUBMED_19813760}}

Line 22:		Line 11:

	==See Also==		==See Also==
-	*[[Subtilisin]]	+	*[[Subtilisin\|Subtilisin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19813760~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019813760</ref><references group="xtra"/>
	[[Category: Subtilisin]]		[[Category: Subtilisin]]
	[[Category: Thermococcus kodakarensis]]		[[Category: Thermococcus kodakarensis]]
Line 34:		Line 23:
	[[Category: Takeuchi, Y.]]		[[Category: Takeuchi, Y.]]
	[[Category: Tanaka, S.]]		[[Category: Tanaka, S.]]
-	[[Category: Calcium]]
	[[Category: Calcium ion]]		[[Category: Calcium ion]]
	[[Category: Folding]]		[[Category: Folding]]

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

2010-12-26T20:58:29Z

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

←Older revision

Revision as of 20:58, 26 December 2010