2v3w - Revision history

OCA at 15:05, 13 December 2023

OCA — Wed, 13 Dec 2023 15:05:02 GMT

←Older revision		Revision as of 15:05, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='2v3w' size='340' side='right'caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2v3w' size='340' side='right'caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V3W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V3W FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</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]] 2.2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7]~~ </~~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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [https://pdbe.org/2v3w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [https://www.ebi.ac.uk/pdbsum/2v3w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3w 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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [https://pdbe.org/2v3w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [https://www.ebi.ac.uk/pdbsum/2v3w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3w ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MDLC_PSEPU MDLC_PSEPU]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus fluorescens putidus flugge 1886]]
-	[[Category: Benzoylformate decarboxylase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Berthold~~, C L~~]]	+	[[Category: Pseudomonas putida]]
-	[[Category: Gauchenova, K]]	+	[[Category: Berthold CL]]
-	[[Category: Gocke, D]]	+	[[Category: Gauchenova K]]
-	[[Category: Knoll, M]]	+	[[Category: Gocke D]]
-	[[Category: Kolter, G]]	+	[[Category: Knoll M]]
-	[[Category: Mueller, M]]	+	[[Category: Kolter G]]
-	[[Category: Pleiss, J]]	+	[[Category: Mueller M]]
-	[[Category: Pohl, M]]	+	[[Category: Pleiss J]]
-	[[Category: Schneider, G]]	+	[[Category: Pohl M]]
-	[[Category: Walter, L]]	+	[[Category: Schneider G]]
-	~~[[Category: Aromatic hydrocarbons catabolism]]~~	+	[[Category: Walter L]]
-	~~[[Category: Calcium]]~~	+
-	~~[[Category: Carboligation]]~~	+
-	~~[[Category: Decarboxylase]]~~	+
-	~~[[Category: Flavoprotein]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Magnesium]]~~	+
-	~~[[Category: Mandelate pathway]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Rational protein design]]~~	+
-	~~[[Category: Thdp-dependent]]~~	+
-	~~[[Category: Thiamine pyrophosphate~~]]	+

OCA at 20:57, 20 October 2021

OCA — Wed, 20 Oct 2021 20:57:15 GMT

←Older revision		Revision as of 20:57, 20 October 2021
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	<StructureSection load='2v3w' size='340' side='right'caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2v3w' size='340' side='right'caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2V3W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V3W FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [~~http~~://pdbe.org/2v3w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2v3w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3w 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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [https://pdbe.org/2v3w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [https://www.ebi.ac.uk/pdbsum/2v3w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3w ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 13:41, 18 December 2019

OCA — Wed, 18 Dec 2019 13:41:03 GMT

←Older revision		Revision as of 13:41, 18 December 2019
Line 1:		Line 1:

	==Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida==		==Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida==
-	<StructureSection load='2v3w' size='340' side='right' caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='2v3w' size='340' side='right'caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>		<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>
Line 34:		Line 34:
	[[Category: Bacillus fluorescens putidus flugge 1886]]		[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Benzoylformate decarboxylase]]		[[Category: Benzoylformate decarboxylase]]
		+	[[Category: Large Structures]]
	[[Category: Berthold, C L]]		[[Category: Berthold, C L]]
	[[Category: Gauchenova, K]]		[[Category: Gauchenova, K]]

OCA at 07:25, 17 January 2018

OCA — Wed, 17 Jan 2018 07:25:45 GMT

←Older revision		Revision as of 07:25, 17 January 2018
Line 1:		Line 1:
		+
	==Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida==		==Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida==
	<StructureSection load='2v3w' size='340' side='right' caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2v3w' size='340' side='right' caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://pdbe.org/2v3w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w 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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://pdbe.org/2v3w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3w 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/v3/2v3w_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v3/2v3w_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>
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	[[Category: Walter, L]]		[[Category: Walter, L]]
	[[Category: Aromatic hydrocarbons catabolism]]		[[Category: Aromatic hydrocarbons catabolism]]
		+	[[Category: Calcium]]
	[[Category: Carboligation]]		[[Category: Carboligation]]
	[[Category: Decarboxylase]]		[[Category: Decarboxylase]]

OCA at 16:05, 8 February 2016

OCA — Mon, 08 Feb 2016 16:05:18 GMT

←Older revision		Revision as of 16:05, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='2v3w' size='340' side='right' caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2v3w' size='340' side='right' caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_putida Pseudomonas putida~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w 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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://pdbe.org/2v3w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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=2v3w ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 2v3w" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Benzoylformate decarboxylase]]		[[Category: Benzoylformate decarboxylase]]
-	[[Category: Pseudomonas putida]]
	[[Category: Berthold, C L]]		[[Category: Berthold, C L]]
	[[Category: Gauchenova, K]]		[[Category: Gauchenova, K]]

OCA at 13:17, 19 January 2015

OCA — Mon, 19 Jan 2015 13:17:19 GMT

←Older revision		Revision as of 13:17, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>		<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w 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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w 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: Benzoylformate decarboxylase]]		[[Category: Benzoylformate decarboxylase]]
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
-	[[Category: Berthold, C L.]]	+	[[Category: Berthold, C L]]
-	[[Category: Gauchenova, K.]]	+	[[Category: Gauchenova, K]]
-	[[Category: Gocke, D.]]	+	[[Category: Gocke, D]]
-	[[Category: Knoll, M.]]	+	[[Category: Knoll, M]]
-	[[Category: Kolter, G.]]	+	[[Category: Kolter, G]]
-	[[Category: Mueller, M.]]	+	[[Category: Mueller, M]]
-	[[Category: Pleiss, J.]]	+	[[Category: Pleiss, J]]
-	[[Category: Pohl, M.]]	+	[[Category: Pohl, M]]
-	[[Category: Schneider, G.]]	+	[[Category: Schneider, G]]
-	[[Category: Walter, L.]]	+	[[Category: Walter, L]]
	[[Category: Aromatic hydrocarbons catabolism]]		[[Category: Aromatic hydrocarbons catabolism]]
	[[Category: Carboligation]]		[[Category: Carboligation]]

OCA at 06:20, 29 September 2014

OCA — Mon, 29 Sep 2014 06:20:32 GMT

←Older revision		Revision as of 06:20, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2v3w.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida==
		+	<StructureSection load='2v3w' size='340' side='right' caption='[[2v3w]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2V3W FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bfd\|1bfd]], [[1mcz\|1mcz]], [[1pi3\|1pi3]], [[1po7\|1po7]], [[1q6z\|1q6z]], [[1yno\|1yno]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Benzoylformate_decarboxylase Benzoylformate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.7 4.1.1.7] </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=2v3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3w OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2v3w RCSB], [http://www.ebi.ac.uk/pdbsum/2v3w 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/v3/2v3w_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 ==
		+	Benzoylformate decarboxylase (BFD) from Pseudomonas putida is an exceptional thiamin diphosphate-dependent enzyme, as it catalyzes the formation of (S)-2-hydroxy-1-phenylpropan-1-one from benzaldehyde and acetaldehyde. This is the only currently known S-selective reaction (92 % ee) catalyzed by this otherwise R-selective class of enzymes. Here we describe the molecular basis of the introduction of S selectivity into ThDP-dependent decarboxylases. By shaping the active site of BFD through the use of rational protein design, structural analysis, and molecular modeling, optimal steric stabilization of the acceptor aldehyde in a structural element called the S pocket was identified as the predominant interaction for adjusting stereoselectivity. Our studies revealed Leu461 as a hot spot for stereoselectivity in BFD. Exchange to alanine and glycine resulted in variants that catalyze the S-stereoselective addition of larger acceptor aldehydes, such as propanal with benzaldehyde and its derivatives-a reaction not catalyzed by the wild-type enzyme. Crystal structure analysis of the variant BFDL461A supports the modeling studies.

-	~~{{STRUCTURE_2v3w\| PDB=2v3w \| SCENE= }}~~	+	Rational protein design of ThDP-dependent enzymes-engineering stereoselectivity.,Gocke D, Walter L, Gauchenova E, Kolter G, Knoll M, Berthold CL, Schneider G, Pleiss J, Muller M, Pohl M Chembiochem. 2008 Feb 15;9(3):406-12. PMID:18224647<ref>PMID:18224647</ref>

-	~~===Crystal structure~~ of the ~~benzoylformate decarboxylase variant L461A from Pseudomonas putida===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18224647}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[2v3w]] is a 4 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA].~~	+	</StructureSection>
	[[Category: Benzoylformate decarboxylase]]		[[Category: Benzoylformate decarboxylase]]
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]

OCA at 15:01, 28 November 2012

OCA — Wed, 28 Nov 2012 15:01:28 GMT

←Older revision		Revision as of 15:01, 28 November 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2v3w]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA].	+	[[2v3w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA].
	[[Category: Benzoylformate decarboxylase]]		[[Category: Benzoylformate decarboxylase]]
		+	[[Category: Pseudomonas putida]]
	[[Category: Berthold, C L.]]		[[Category: Berthold, C L.]]
	[[Category: Gauchenova, K.]]		[[Category: Gauchenova, K.]]

OCA: Protected "2v3w" [edit=sysop:move=sysop]

OCA — Wed, 10 Oct 2012 06:23:38 GMT

Protected "2v3w" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:23, 10 October 2012

OCA at 06:23, 10 October 2012

OCA — Wed, 10 Oct 2012 06:23:37 GMT

←Older revision		Revision as of 06:23, 10 October 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2v3w.png\|left\|200px]]		[[Image:2v3w.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2v3w", 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_2v3w\| PDB=2v3w \| SCENE= }}		{{STRUCTURE_2v3w\| PDB=2v3w \| SCENE= }}

-	===~~CRYSTAL STRUCTURE OF THE BENZOYLFORMATE DECARBOXYLASE VARIANT~~ L461A ~~FROM PSEUDOMONAS PUTIDA~~===	+	===Crystal structure of the benzoylformate decarboxylase variant L461A from Pseudomonas putida===

		+	{{ABSTRACT_PUBMED_18224647}}

	==About this Structure==		==About this Structure==
-	~~2V3W~~ is a 4 ~~chains~~ structure ~~of sequences from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA].	+	[[2v3w]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V3W OCA].
	[[Category: Benzoylformate decarboxylase]]		[[Category: Benzoylformate decarboxylase]]
-	[[Category: Pseudomonas putida]]
	[[Category: Berthold, C L.]]		[[Category: Berthold, C L.]]
	[[Category: Gauchenova, K.]]		[[Category: Gauchenova, K.]]
Line 28:		Line 21:
	[[Category: Walter, L.]]		[[Category: Walter, L.]]
	[[Category: Aromatic hydrocarbons catabolism]]		[[Category: Aromatic hydrocarbons catabolism]]
-	[[Category: Calcium]]
	[[Category: Carboligation]]		[[Category: Carboligation]]
	[[Category: Decarboxylase]]		[[Category: Decarboxylase]]
Line 39:		Line 31:
	[[Category: Thdp-dependent]]		[[Category: Thdp-dependent]]
	[[Category: Thiamine pyrophosphate]]		[[Category: Thiamine pyrophosphate]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 00:18:31 2009''