1o2m - Revision history

OCA at 23:44, 27 December 2023

OCA — Wed, 27 Dec 2023 23:44:42 GMT

←Older revision		Revision as of 23:44, 27 December 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O2M FirstGlance]. <br>		<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O2M FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 1.69Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1c5r\|1c5r]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [https://pdbe.org/1o2m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [https://www.ebi.ac.uk/pdbsum/1o2m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o2m 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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [https://pdbe.org/1o2m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [https://www.ebi.ac.uk/pdbsum/1o2m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o2m ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TRY1_BOVIN TRY1_BOVIN]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Trypsin]]~~	+	[[Category: Allen D]]
-	[[Category: Allen, D]]	+	[[Category: Breitenbucher G]]
-	[[Category: Breitenbucher, G]]	+	[[Category: Elrod K]]
-	[[Category: Elrod, K]]	+	[[Category: Hui H]]
-	[[Category: Hui, H]]	+	[[Category: Janc J]]
-	[[Category: Janc, J]]	+	[[Category: Katz BA]]
-	[[Category: Katz~~, B A~~]]	+	[[Category: Kolesnikov A]]
-	[[Category: Kolesnikov, A]]	+	[[Category: Luong C]]
-	[[Category: Luong, C]]	+	[[Category: Mackman RL]]
-	[[Category: Mackman~~, R L~~]]	+	[[Category: Sendzik M]]
-	[[Category: Sendzik, M]]	+	[[Category: Shrader W]]
-	[[Category: Shrader, W]]	+	[[Category: Spencer JR]]
-	[[Category: Spencer~~, J R~~]]	+	[[Category: Sprengeler PA]]
-	[[Category: Sprengeler~~, P A~~]]	+	[[Category: Tai WF]]
-	[[Category: Tai~~, W F~~]]	+	[[Category: Verner E]]
-	[[Category: Verner, E]]	+
-	~~[[Category: Factor xa]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Inhibition mechanism]]~~	+
-	~~[[Category: Serine protease]]~~	+
-	~~[[Category: Shift of pka]]~~	+
-	~~[[Category: Short hydrogen bond]]~~	+
-	~~[[Category: Thrombin]]~~	+
-	~~[[Category: Urokinase~~]]	+

OCA at 07:08, 25 August 2021

OCA — Wed, 25 Aug 2021 07:08:04 GMT

←Older revision		Revision as of 07:08, 25 August 2021
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	<StructureSection load='1o2m' size='340' side='right'caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>		<StructureSection load='1o2m' size='340' side='right'caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1O2M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O2M FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1c5r\|1c5r]]</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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [~~http~~://pdbe.org/1o2m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1o2m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1o2m 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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [https://pdbe.org/1o2m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [https://www.ebi.ac.uk/pdbsum/1o2m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o2m 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 18:36, 20 November 2019

OCA — Wed, 20 Nov 2019 18:36:33 GMT

←Older revision		Revision as of 18:36, 20 November 2019
Line 1:		Line 1:

	==Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors==		==Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors==
-	<StructureSection load='1o2m' size='340' side='right' caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>	+	<StructureSection load='1o2m' size='340' side='right'caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O2M FirstGlance]. <br>		<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O2M FirstGlance]. <br>
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1o2m" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1o2m" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Trypsin\|Trypsin]]
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
		+	[[Category: Large Structures]]
	[[Category: Trypsin]]		[[Category: Trypsin]]
	[[Category: Allen, D]]		[[Category: Allen, D]]

OCA at 07:23, 7 February 2018

OCA — Wed, 07 Feb 2018 07:23:17 GMT

←Older revision		Revision as of 07:23, 7 February 2018
Line 1:		Line 1:
		+
	==Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors==		==Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors==
	<StructureSection load='1o2m' size='340' side='right' caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>		<StructureSection load='1o2m' size='340' side='right' caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://pdbe.org/1o2m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m 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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://pdbe.org/1o2m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1o2m ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o2/1o2m_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o2/1o2m_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 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1o2m" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1o2m" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Trypsin\|Trypsin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:10, 7 February 2016

OCA — Sun, 07 Feb 2016 05:10:02 GMT

←Older revision		Revision as of 05:10, 7 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=1o2m ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:10, 9 September 2015

OCA — Wed, 09 Sep 2015 22:10:01 GMT

←Older revision		Revision as of 22:10, 9 September 2015
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m 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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://pdbe.org/1o2m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m 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 1o2m" style="background-color:#fffaf0;"></div>

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

OCA at 16:50, 5 January 2015

OCA — Mon, 05 Jan 2015 16:50:36 GMT

←Older revision		Revision as of 16:50, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O2M FirstGlance]. <br>		<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O2M FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m 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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m 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: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Trypsin]]		[[Category: Trypsin]]
-	[[Category: Allen, D.]]	+	[[Category: Allen, D]]
-	[[Category: Breitenbucher, G.]]	+	[[Category: Breitenbucher, G]]
-	[[Category: Elrod, K.]]	+	[[Category: Elrod, K]]
-	[[Category: Hui, H.]]	+	[[Category: Hui, H]]
-	[[Category: Janc, J.]]	+	[[Category: Janc, J]]
-	[[Category: Katz, B A.]]	+	[[Category: Katz, B A]]
-	[[Category: Kolesnikov, A.]]	+	[[Category: Kolesnikov, A]]
-	[[Category: Luong, C.]]	+	[[Category: Luong, C]]
-	[[Category: Mackman, R L.]]	+	[[Category: Mackman, R L]]
-	[[Category: Sendzik, M.]]	+	[[Category: Sendzik, M]]
-	[[Category: Shrader, W.]]	+	[[Category: Shrader, W]]
-	[[Category: Spencer, J R.]]	+	[[Category: Spencer, J R]]
-	[[Category: Sprengeler, P A.]]	+	[[Category: Sprengeler, P A]]
-	[[Category: Tai, W F.]]	+	[[Category: Tai, W F]]
-	[[Category: Verner, E.]]	+	[[Category: Verner, E]]
	[[Category: Factor xa]]		[[Category: Factor xa]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
Line 57:		Line 57:
	[[Category: Short hydrogen bond]]		[[Category: Short hydrogen bond]]
	[[Category: Thrombin]]		[[Category: Thrombin]]
-	[[Category: Trypsin]]
	[[Category: Urokinase]]		[[Category: Urokinase]]

OCA at 13:57, 28 September 2014

OCA — Sun, 28 Sep 2014 13:57:13 GMT

←Older revision		Revision as of 13:57, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1o2m.~~png~~\|~~left~~\|200px]]	+	==Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors==
		+	<StructureSection load='1o2m' size='340' side='right' caption='[[1o2m]], [[Resolution\|resolution]] 1.69Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1o2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O2M FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=762:3-{5-[AMINO(IMINIO)METHYL]-6-CHLORO-1H-BENZIMIDAZOL-2-YL}-1,1-BIPHENYL-2-OLATE'>762</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1c5r\|1c5r]]</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=1o2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o2m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o2m RCSB], [http://www.ebi.ac.uk/pdbsum/1o2m 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/o2/1o2m_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 ==
		+	An extensive structural manifold of short hydrogen bond-mediated, active site-directed, serine protease inhibition motifs is revealed in a set of over 300 crystal structures involving a large suite of small molecule inhibitors (2-(2-phenol)-indoles and 2-(2-phenol)-benzimidazoles) determined over a wide range of pH (3.5-11.4). The active site hydrogen-bonding mode was found to vary markedly with pH, with the steric and electronic properties of the inhibitor, and with the type of protease (trypsin, thrombin or urokinase type plasminogen activator (uPA)). The pH dependence of the active site hydrogen-bonding motif is often intricate, constituting a distinct fingerprint of each complex. Isosteric replacements or minor substitutions within the inhibitor that modulate the pK(a) of the phenol hydroxyl involved in short hydrogen bonding, or that affect steric interactions distal to the active site, can significantly shift the pH-dependent structural profile characteristic of the parent scaffold, or produce active site-binding motifs unique to the bound analog.Ionization equilibria at the active site associated with inhibitor binding are probed in a series of the protease-inhibitor complexes through analysis of the pH dependence of the structure and environment of the active site-binding groups involved in short hydrogen bond arrays. Structures determined at high pH (>11), suggest that the pK(a) of His57 is dramatically elevated, to a value as high as approximately 11 in certain complexes. K(i) values involving uPA and trypsin determined as a function of pH for a set of inhibitors show pronounced parabolic pH dependence, the pH for optimal inhibition governed by the pK(a) of the inhibitor phenol involved in short hydrogen bonds. Comparison of structures of trypsin, thrombin and uPA, each bound by the same inhibitor, highlights important structural variations in the S1 and active sites accessible for engineering notable selectivity into remarkably small molecules with low nanomolar K(i) values.

-	~~{{STRUCTURE_1o2m\| PDB=1o2m \| SCENE= }}~~	+	Elaborate manifold of short hydrogen bond arrays mediating binding of active site-directed serine protease inhibitors.,Katz BA, Elrod K, Verner E, Mackman RL, Luong C, Shrader WD, Sendzik M, Spencer JR, Sprengeler PA, Kolesnikov A, Tai VW, Hui HC, Breitenbucher JG, Allen D, Janc JW J Mol Biol. 2003 May 23;329(1):93-120. PMID:12742021<ref>PMID:12742021</ref>

-	~~===Elaborate Manifold~~ of ~~Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12742021}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1o2m]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bos_taurus Bos taurus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA].~~	+

	==See Also==		==See Also==
	*[[Trypsin\|Trypsin]]		*[[Trypsin\|Trypsin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:012742021<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Trypsin]]		[[Category: Trypsin]]

OCA at 05:40, 20 October 2012

OCA — Sat, 20 Oct 2012 05:40:04 GMT

←Older revision		Revision as of 05:40, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1o2m]] is a 1 chain structure ~~of [[Trypsin]]~~ with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA].	+	[[1o2m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O2M OCA].

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

OCA: Protected "1o2m" [edit=sysop:move=sysop]

OCA — Wed, 25 Jul 2012 10:46:44 GMT

Protected "1o2m" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:46, 25 July 2012