1uc5 - Revision history

OCA at 07:33, 25 October 2023

OCA — Wed, 25 Oct 2023 07:33:29 GMT

←Older revision		Revision as of 07:33, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='1uc5' size='340' side='right'caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1uc5' size='340' side='right'caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_oxytocus_perniciosus"_flugge_1886 "bacillus oxytocus perniciosus" flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</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]] 2.3Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [https://pdbe.org/1uc5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [https://www.ebi.ac.uk/pdbsum/1uc5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uc5 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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [https://pdbe.org/1uc5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [https://www.ebi.ac.uk/pdbsum/1uc5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uc5 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q59470_KLEOX Q59470_KLEOX]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus oxytocus perniciosus flugge 1886~~]]	+	[[Category: Klebsiella oxytoca]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Propanediol dehydratase]]~~	+	[[Category: Fukuoka M]]
-	[[Category: Fukuoka, M]]	+	[[Category: Nakanishi Y]]
-	[[Category: Nakanishi, Y]]	+	[[Category: Shibata N]]
-	[[Category: Shibata, N]]	+	[[Category: Toraya T]]
-	[[Category: Toraya, T]]	+	[[Category: Yamanishi M]]
-	[[Category: Yamanishi, M]]	+	[[Category: Yasuoka N]]
-	[[Category: Yasuoka, N]]	+
-	~~[[Category: Alpha/beta barrel]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 06:09, 18 August 2021

OCA — Wed, 18 Aug 2021 06:09:51 GMT

←Older revision		Revision as of 06:09, 18 August 2021
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	<StructureSection load='1uc5' size='340' side='right'caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1uc5' size='340' side='right'caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_oxytocus_perniciosus"_flugge_1886 "bacillus oxytocus perniciosus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_oxytocus_perniciosus"_flugge_1886 "bacillus oxytocus perniciosus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [~~http~~://pdbe.org/1uc5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1uc5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1uc5 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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [https://pdbe.org/1uc5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [https://www.ebi.ac.uk/pdbsum/1uc5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uc5 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 13:48, 25 December 2019

OCA — Wed, 25 Dec 2019 13:48:59 GMT

←Older revision		Revision as of 13:48, 25 December 2019
Line 1:		Line 1:

	==Structure of diol dehydratase complexed with (R)-1,2-propanediol==		==Structure of diol dehydratase complexed with (R)-1,2-propanediol==
-	<StructureSection load='1uc5' size='340' side='right' caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='1uc5' size='340' side='right'caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_oxytocus_perniciosus"_flugge_1886 "bacillus oxytocus perniciosus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_oxytocus_perniciosus"_flugge_1886 "bacillus oxytocus perniciosus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus oxytocus perniciosus flugge 1886]]		[[Category: Bacillus oxytocus perniciosus flugge 1886]]
		+	[[Category: Large Structures]]
	[[Category: Propanediol dehydratase]]		[[Category: Propanediol dehydratase]]
	[[Category: Fukuoka, M]]		[[Category: Fukuoka, M]]

OCA at 08:39, 21 March 2018

OCA — Wed, 21 Mar 2018 08:39:07 GMT

←Older revision		Revision as of 08:39, 21 March 2018
Line 1:		Line 1:
		+
	==Structure of diol dehydratase complexed with (R)-1,2-propanediol==		==Structure of diol dehydratase complexed with (R)-1,2-propanediol==
	<StructureSection load='1uc5' size='340' side='right' caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1uc5' size='340' side='right' caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://pdbe.org/1uc5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://pdbe.org/1uc5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1uc5 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/uc/1uc5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uc/1uc5_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>

OCA at 23:24, 8 February 2016

OCA — Mon, 08 Feb 2016 23:24:41 GMT

←Older revision		Revision as of 23:24, 8 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=1uc5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 16:22, 10 September 2015

OCA — Thu, 10 Sep 2015 16:22:10 GMT

←Older revision		Revision as of 16:22, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1uc5' size='340' side='right' caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1uc5' size='340' side='right' caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Klebsiella_oxytoca Klebsiella oxytoca~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_oxytocus_perniciosus"_flugge_1886 "bacillus oxytocus perniciosus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://pdbe.org/1uc5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 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 1uc5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Klebsiella oxytoca~~]]	+	[[Category: Bacillus oxytocus perniciosus flugge 1886]]
	[[Category: Propanediol dehydratase]]		[[Category: Propanediol dehydratase]]
	[[Category: Fukuoka, M]]		[[Category: Fukuoka, M]]

OCA at 12:38, 6 January 2015

OCA — Tue, 06 Jan 2015 12:38:33 GMT

←Older revision		Revision as of 12:38, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 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 32:		Line 32:
	[[Category: Klebsiella oxytoca]]		[[Category: Klebsiella oxytoca]]
	[[Category: Propanediol dehydratase]]		[[Category: Propanediol dehydratase]]
-	[[Category: Fukuoka, M.]]	+	[[Category: Fukuoka, M]]
-	[[Category: Nakanishi, Y.]]	+	[[Category: Nakanishi, Y]]
-	[[Category: Shibata, N.]]	+	[[Category: Shibata, N]]
-	[[Category: Toraya, T.]]	+	[[Category: Toraya, T]]
-	[[Category: Yamanishi, M.]]	+	[[Category: Yamanishi, M]]
-	[[Category: Yasuoka, N.]]	+	[[Category: Yasuoka, N]]
	[[Category: Alpha/beta barrel]]		[[Category: Alpha/beta barrel]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 18:31, 29 September 2014

OCA — Mon, 29 Sep 2014 18:31:15 GMT

←Older revision		Revision as of 18:31, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1uc5.~~png~~\|~~left~~\|200px]]	+	==Structure of diol dehydratase complexed with (R)-1,2-propanediol==
		+	<StructureSection load='1uc5' size='340' side='right' caption='[[1uc5]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UC5 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CNC:CO-CYANOCOBALAMIN'>CNC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]], [[1iwp\|1iwp]], [[1uc4\|1uc4]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Propanediol_dehydratase Propanediol dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.28 4.2.1.28] </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=1uc5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uc5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uc5 RCSB], [http://www.ebi.ac.uk/pdbsum/1uc5 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/uc/1uc5_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 ==
		+	Adenosylcobalamin-dependent diol dehydratase of Klebsiella oxytoca is apparently not stereospecific and catalyzes the conversion of both (R)- and (S)-1,2-propanediol to propionaldehyde. To explain this unusual property of the enzyme, we analyzed the crystal structures of diol dehydratase in complexes with cyanocobalamin and (R)- or (S)-1,2-propanediol. (R)- and (S)-isomers are bound in a symmetrical manner, although the hydrogen-bonding interactions between the substrate and the active-site residues are the same. From the position of the adenosyl radical in the modeled "distal" conformation, it is reasonable for the radical to abstract the pro-R and pro-S hydrogens from (R)- and (S)-isomers, respectively. The hydroxyl groups in the substrate radicals would migrates from C(2) to C(1) by a suprafacial shift, resulting in the stereochemical inversion at C(1). This causes 60 degrees clockwise and 70 degrees counterclockwise rotations of the C(1)-C(2) bond of the (R)- and (S)-isomers, respectively, if viewed from K+. A modeling study of 1,1-gem-diol intermediates indicated that new radical center C(2) becomes close to the methyl group of 5'-deoxyadenosine. Thus, the hydrogen back-abstraction (recombination) from 5'-deoxyadenosine by the product radical is structurally feasible. It was also predictable that the substitution of the migrating hydroxyl group by a hydrogen atom from 5'-deoxyadenosine takes place with the inversion of the configuration at C(2) of the substrate. Stereospecific dehydration of the 1,1-gem-diol intermediates can also be rationalized by assuming that Asp-alpha335 and Glu-alpha170 function as base catalysts in the dehydration of the (R)- and (S)-isomers, respectively. The structure-based mechanism and stereochemical courses of the reaction are proposed.

-	~~{{STRUCTURE_1uc5\| PDB=1uc5 \| SCENE= }}~~	+	Structural rationalization for the lack of stereospecificity in coenzyme B12-dependent diol dehydratase.,Shibata N, Nakanishi Y, Fukuoka M, Yamanishi M, Yasuoka N, Toraya T J Biol Chem. 2003 Jun 20;278(25):22717-25. Epub 2003 Apr 8. PMID:12684496<ref>PMID:12684496</ref>

-	~~===Structure of diol dehydratase complexed with (R)-1~~,~~2-propanediol===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12684496}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1uc5]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012684496<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Klebsiella oxytoca]]		[[Category: Klebsiella oxytoca]]
	[[Category: Propanediol dehydratase]]		[[Category: Propanediol dehydratase]]

OCA: Protected "1uc5" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 11:10:57 GMT

Protected "1uc5" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:10, 5 January 2013

OCA at 11:10, 5 January 2013

OCA — Sat, 05 Jan 2013 11:10:56 GMT

←Older revision		Revision as of 11:10, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1uc5.png\|left\|200px]]		[[Image:1uc5.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1uc5", 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_1uc5\| PDB=1uc5 \| SCENE= }}		{{STRUCTURE_1uc5\| PDB=1uc5 \| SCENE= }}

	===Structure of diol dehydratase complexed with (R)-1,2-propanediol===		===Structure of diol dehydratase complexed with (R)-1,2-propanediol===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12684496}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12684496 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12684496}}		{{ABSTRACT_PUBMED_12684496}}

	==About this Structure==		==About this Structure==
-	~~1UC5~~ is a 6 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA].	+	[[1uc5]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Klebsiella_oxytoca Klebsiella oxytoca]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UC5 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12684496~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012684496</ref><references group="xtra"/>
	[[Category: Klebsiella oxytoca]]		[[Category: Klebsiella oxytoca]]
	[[Category: Propanediol dehydratase]]		[[Category: Propanediol dehydratase]]
Line 33:		Line 21:
	[[Category: Yasuoka, N.]]		[[Category: Yasuoka, N.]]
	[[Category: Alpha/beta barrel]]		[[Category: Alpha/beta barrel]]
-		+	[[Category: Lyase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 04:22:32 2009''~~	+