1iwb - Revision history

OCA at 18:12, 29 May 2024

2024-05-29T18:12:07Z

←Older revision		Revision as of 18:12, 29 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IWB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IWB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 1.85Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [https://pdbe.org/1iwb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [https://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb 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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [https://pdbe.org/1iwb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [https://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb ProSAT]</span></td></tr>
	</table>		</table>

OCA at 05:47, 31 May 2023

2023-05-31T05:47:57Z

←Older revision		Revision as of 05:47, 31 May 2023
Line 3:		Line 3:
	<StructureSection load='1iwb' size='340' side='right'caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1iwb' size='340' side='right'caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IWB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IWB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></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]]</div></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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [https://pdbe.org/1iwb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [https://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb 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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [https://pdbe.org/1iwb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [https://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb 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 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus oxytocus perniciosus flugge 1886~~]]	+	[[Category: Klebsiella oxytoca]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Propanediol dehydratase]]~~	+	[[Category: Masuda J]]
-	[[Category: Masuda, J]]	+	[[Category: Morimoto Y]]
-	[[Category: Morimoto, Y]]	+	[[Category: Shibata N]]
-	[[Category: Shibata, N]]	+	[[Category: Toraya T]]
-	[[Category: Toraya, T]]	+	[[Category: Yasuoka N]]
-	[[Category: Yasuoka, N]]	+
-	~~[[Category: Beta-alpha-barrel]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 11:06, 4 August 2021

2021-08-04T11:06:50Z

←Older revision		Revision as of 11:06, 4 August 2021
Line 3:		Line 3:
	<StructureSection load='1iwb' size='340' side='right'caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1iwb' size='340' side='right'caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1IWB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IWB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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]]</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]]</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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [~~http~~://pdbe.org/1iwb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb 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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [https://pdbe.org/1iwb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [https://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 09:56, 30 October 2019

2019-10-30T09:56:21Z

←Older revision		Revision as of 09:56, 30 October 2019
Line 1:		Line 1:

	==Crystal structure of diol dehydratase==		==Crystal structure of diol dehydratase==
-	<StructureSection load='1iwb' size='340' side='right' caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='1iwb' size='340' side='right'caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB 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: Masuda, J]]		[[Category: Masuda, J]]

OCA at 08:42, 17 January 2018

2018-01-17T08:42:24Z

←Older revision		Revision as of 08:42, 17 January 2018
Line 1:		Line 1:
		+
	==Crystal structure of diol dehydratase==		==Crystal structure of diol dehydratase==
	<StructureSection load='1iwb' size='340' side='right' caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1iwb' size='340' side='right' caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' 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]]</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]]</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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://pdbe.org/1iwb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb 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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://pdbe.org/1iwb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1iwb ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iw/1iwb_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iw/1iwb_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 16:16, 7 February 2016

2016-02-07T16:16:02Z

←Older revision		Revision as of 16:16, 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=1iwb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 03:08, 10 September 2015

2015-09-10T03:08:37Z

←Older revision		Revision as of 03:08, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1iwb' size='340' side='right' caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='1iwb' size='340' side='right' caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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]]</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]]</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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb 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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://pdbe.org/1iwb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb 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 1iwb" 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: Masuda, J]]		[[Category: Masuda, J]]

OCA at 12:06, 2 January 2015

2015-01-02T12:06:57Z

←Older revision		Revision as of 12:06, 2 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]]</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]]</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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb 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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb 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: Masuda, J.]]	+	[[Category: Masuda, J]]
-	[[Category: Morimoto, Y.]]	+	[[Category: Morimoto, Y]]
-	[[Category: Shibata, N.]]	+	[[Category: Shibata, N]]
-	[[Category: Toraya, T.]]	+	[[Category: Toraya, T]]
-	[[Category: Yasuoka, N.]]	+	[[Category: Yasuoka, N]]
	[[Category: Beta-alpha-barrel]]		[[Category: Beta-alpha-barrel]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 13:57, 28 September 2014

2014-09-28T13:57:24Z

←Older revision		Revision as of 13:57, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1iwb.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of diol dehydratase==
		+	<StructureSection load='1iwb' size='340' side='right' caption='[[1iwb]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1iwb]] 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=1IWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IWB FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dio\|1dio]], [[1eex\|1eex]], [[1egm\|1egm]], [[1egv\|1egv]]</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=1iwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iwb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1iwb RCSB], [http://www.ebi.ac.uk/pdbsum/1iwb 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/iw/1iwb_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 ==
		+	Substrate binding triggers catalytic radical formation through the cobalt-carbon bond homolysis in coenzyme B12-dependent enzymes. We have determined the crystal structure of the substrate-free form of Klebsiella oxytoca diol dehydratase*cyanocobalamin complex at 1.85 A resolution. The structure contains two units of the heterotrimer consisting of alpha, beta, and gamma subunits. As compared with the structure of its substrate-bound form, the beta subunits are tilted by approximately 3 degrees and cobalamin is also tilted so that pyrrole rings A and D are significantly lifted up toward the substrate-binding site, whereas pyrrole rings B and C are only slightly lifted up. The structure revealed that the potassium ion in the substrate-binding site of the substrate-free enzyme is also heptacoordinated; that is, two oxygen atoms of two water molecules coordinate to it instead of the substrate hydroxyls. A modeling study in which the structures of both the cobalamin moiety and the adenine ring of the coenzyme were superimposed onto those of the enzyme-bound cyanocobalamin and the adenine ring-binding pocket, respectively, demonstrated that the distortions of the Co-C bond in the substrate-free form are already marked but slightly smaller than those in the substrate-bound form. It was thus strongly suggested that the Co-C bond becomes largely activated (labilized) when the coenzyme binds to the apoenzyme even in the absence of substrate and undergoes homolysis through the substrate-induced conformational changes of the enzyme. Kinetic coupling of Co-C bond homolysis with hydrogen abstraction from the substrate shifts the equilibrium to dissociation.

-	~~{{STRUCTURE_1iwb\| PDB=1iwb \| SCENE= }}~~	+	Substrate-induced conformational change of a coenzyme B12-dependent enzyme: crystal structure of the substrate-free form of diol dehydratase.,Shibata N, Masuda J, Morimoto Y, Yasuoka N, Toraya T Biochemistry. 2002 Oct 22;41(42):12607-17. PMID:12379103<ref>PMID:12379103</ref>

-	~~===Crystal structure~~ of ~~diol dehydratase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12379103}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1iwb]] 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=1IWB OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012379103<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Klebsiella oxytoca]]		[[Category: Klebsiella oxytoca]]
	[[Category: Propanediol dehydratase]]		[[Category: Propanediol dehydratase]]

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

2012-10-24T06:31:08Z

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

←Older revision

Revision as of 06:31, 24 October 2012