1pq8 - Revision history

OCA at 05:58, 17 April 2024

OCA — Wed, 17 Apr 2024 05:58:06 GMT

←Older revision		Revision as of 05:58, 17 April 2024
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	<StructureSection load='1pq8' size='340' side='right'caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>		<StructureSection load='1pq8' size='340' side='right'caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Fusox Fusox~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>~~, ~~<scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4]~~ </~~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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [https://pdbe.org/1pq8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [https://www.ebi.ac.uk/pdbsum/1pq8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pq8 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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [https://pdbe.org/1pq8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [https://www.ebi.ac.uk/pdbsum/1pq8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pq8 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TRYP_FUSOX TRYP_FUSOX]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1pq8 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=1pq8 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	A series of crystal structures of trypsin, containing either an autoproteolytic cleaved peptide fragment or a covalently bound inhibitor, were determined at atomic and ultra-high resolution and subjected to ab initio quantum chemical calculations and multipole refinement. Quantum chemical calculations reproduced the observed active site crystal structure with severe deviations from standard stereochemistry and indicated the protonation state of the catalytic residues. Multipole refinement directly revealed the charge distribution in the active site and proved the validity of the ab initio calculations. The combined results confirmed the catalytic function of the active site residues and the two water molecules acting as the nucleophile and the proton donor. The crystal structures represent snapshots from the reaction pathway, close to a tetrahedral intermediate. The de-acylation of trypsin then occurs in true SN2 fashion.
-
-	Trypsin revisited: crystallography AT (SUB) atomic resolution and quantum chemistry revealing details of catalysis.,Schmidt A, Jelsch C, Ostergaard P, Rypniewski W, Lamzin VS J Biol Chem. 2003 Oct 31;278(44):43357-62. Epub 2003 Aug 22. PMID:12937176<ref>PMID:12937176</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1pq8" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Trypsin 3D structures\|Trypsin 3D structures]]		*[[Trypsin 3D structures\|Trypsin 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Fusox~~]]	+	[[Category: Fusarium oxysporum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Trypsin]]~~	+	[[Category: Jelsch C]]
-	[[Category: Jelsch, C]]	+	[[Category: Lamzin VS]]
-	[[Category: Lamzin~~, V S~~]]	+	[[Category: Rypniewski W]]
-	[[Category: Rypniewski, W]]	+	[[Category: Schmidt A]]
-	[[Category: Schmidt, A]]	+
-	~~[[Category: Atomic resolution]]~~	+
-	~~[[Category: Catalysis]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:59, 21 April 2021

OCA — Wed, 21 Apr 2021 08:59:19 GMT

←Older revision		Revision as of 08:59, 21 April 2021
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	<StructureSection load='1pq8' size='340' side='right'caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>		<StructureSection load='1pq8' size='340' side='right'caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Fusox Fusox]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusox Fusox]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [~~http~~://pdbe.org/1pq8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1pq8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1pq8 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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [https://pdbe.org/1pq8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [https://www.ebi.ac.uk/pdbsum/1pq8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pq8 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[Trypsin\|Trypsin]]	+	*[[Trypsin 3D structures\|Trypsin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:22, 17 July 2019

OCA — Wed, 17 Jul 2019 13:22:08 GMT

←Older revision		Revision as of 13:22, 17 July 2019
Line 1:		Line 1:

	==Trypsin at pH 4 at atomic resolution==		==Trypsin at pH 4 at atomic resolution==
-	<StructureSection load='1pq8' size='340' side='right' caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>	+	<StructureSection load='1pq8' size='340' side='right'caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusox Fusox]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusox Fusox]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pq/1pq8_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pq/1pq8_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 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1pq8" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1pq8" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Trypsin\|Trypsin]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Fusox]]		[[Category: Fusox]]
		+	[[Category: Large Structures]]
	[[Category: Trypsin]]		[[Category: Trypsin]]
	[[Category: Jelsch, C]]		[[Category: Jelsch, C]]

OCA at 15:49, 12 October 2017

OCA — Thu, 12 Oct 2017 15:49:53 GMT

←Older revision		Revision as of 15:49, 12 October 2017
Line 1:		Line 1:
		+
	==Trypsin at pH 4 at atomic resolution==		==Trypsin at pH 4 at atomic resolution==
	<StructureSection load='1pq8' size='340' side='right' caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>		<StructureSection load='1pq8' size='340' side='right' caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Fusarium_oxysporum Fusarium oxysporum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusox Fusox]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://pdbe.org/1pq8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://pdbe.org/1pq8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1pq8 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1pq8" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1pq8" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Trypsin\|Trypsin]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Fusarium oxysporum~~]]	+	[[Category: Fusox]]
	[[Category: Trypsin]]		[[Category: Trypsin]]
	[[Category: Jelsch, C]]		[[Category: Jelsch, C]]

OCA at 18:57, 9 February 2016

OCA — Tue, 09 Feb 2016 18:57:22 GMT

←Older revision		Revision as of 18:57, 9 February 2016
Line 16:		Line 16:
	<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=1pq8 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:07, 11 September 2015

OCA — Fri, 11 Sep 2015 01:07:54 GMT

←Older revision		Revision as of 01:07, 11 September 2015
Line 6:		Line 6:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://pdbe.org/1pq8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1pq8" style="background-color:#fffaf0;"></div>

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

OCA at 08:07, 6 January 2015

OCA — Tue, 06 Jan 2015 08:07:13 GMT

←Older revision		Revision as of 08:07, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Fusarium oxysporum]]		[[Category: Fusarium oxysporum]]
	[[Category: Trypsin]]		[[Category: Trypsin]]
-	[[Category: Jelsch, C.]]	+	[[Category: Jelsch, C]]
-	[[Category: Lamzin, V S.]]	+	[[Category: Lamzin, V S]]
-	[[Category: Rypniewski, W.]]	+	[[Category: Rypniewski, W]]
-	[[Category: Schmidt, A.]]	+	[[Category: Schmidt, A]]
	[[Category: Atomic resolution]]		[[Category: Atomic resolution]]
	[[Category: Catalysis]]		[[Category: Catalysis]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-	[[Category: Trypsin]]

OCA at 21:51, 28 September 2014

OCA — Sun, 28 Sep 2014 21:51:26 GMT

←Older revision		Revision as of 21:51, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1pq8.~~png~~\|~~left~~\|200px]]	+	==Trypsin at pH 4 at atomic resolution==
		+	<StructureSection load='1pq8' size='340' side='right' caption='[[1pq8]], [[Resolution\|resolution]] 1.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PQ8 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=LYS:LYSINE'>LYS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ppz\|1ppz]], [[1pq5\|1pq5]], [[1pq7\|1pq7]], [[1pqa\|1pqa]], [[1gdn\|1gdn]], [[1gdq\|1gdq]], [[1gdu\|1gdu]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </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=1pq8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pq8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pq8 RCSB], [http://www.ebi.ac.uk/pdbsum/1pq8 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/pq/1pq8_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 ==
		+	A series of crystal structures of trypsin, containing either an autoproteolytic cleaved peptide fragment or a covalently bound inhibitor, were determined at atomic and ultra-high resolution and subjected to ab initio quantum chemical calculations and multipole refinement. Quantum chemical calculations reproduced the observed active site crystal structure with severe deviations from standard stereochemistry and indicated the protonation state of the catalytic residues. Multipole refinement directly revealed the charge distribution in the active site and proved the validity of the ab initio calculations. The combined results confirmed the catalytic function of the active site residues and the two water molecules acting as the nucleophile and the proton donor. The crystal structures represent snapshots from the reaction pathway, close to a tetrahedral intermediate. The de-acylation of trypsin then occurs in true SN2 fashion.

-	~~{{STRUCTURE_1pq8\| PDB=1pq8 \| SCENE= }}~~	+	Trypsin revisited: crystallography AT (SUB) atomic resolution and quantum chemistry revealing details of catalysis.,Schmidt A, Jelsch C, Ostergaard P, Rypniewski W, Lamzin VS J Biol Chem. 2003 Oct 31;278(44):43357-62. Epub 2003 Aug 22. PMID:12937176<ref>PMID:12937176</ref>

-	~~===Trypsin at pH 4 at atomic resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12937176}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1pq8]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Fusarium_oxysporum Fusarium oxysporum]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA].~~	+

	==See Also==		==See Also==
	*[[Trypsin\|Trypsin]]		*[[Trypsin\|Trypsin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:012937176<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Fusarium oxysporum]]		[[Category: Fusarium oxysporum]]
	[[Category: Trypsin]]		[[Category: Trypsin]]

OCA at 14:49, 20 October 2012

OCA — Sat, 20 Oct 2012 14:49:10 GMT

←Older revision		Revision as of 14:49, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1pq8]] is a 2 chain structure ~~of [[Trypsin]]~~ with sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA].	+	[[1pq8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PQ8 OCA].

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

OCA: Protected "1pq8" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 16:23:09 GMT

Protected "1pq8" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:23, 26 July 2012