2o78 - Revision history

OCA at 10:32, 30 August 2023

2023-08-30T10:32:43Z

←Older revision		Revision as of 10:32, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2o78' size='340' side='right'caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2o78' size='340' side='right'caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"luteovulum_sphaeroides"_(van_niel_1944)_suresh_et_al._2019 "luteovulum~~ sphaeroides~~" (van niel 1944) suresh et al. 2019~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O78 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Cereibacter_sphaeroides Cereibacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O78 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</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]] 1.9Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene>, <scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</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;~~'>~~[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]~~</~~div~~>~~</td></tr>~~	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Luteovulum sphaeroides" (van Niel 1944) Suresh et al. 2019])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [https://pdbe.org/2o78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [https://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [https://pdbe.org/2o78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [https://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~TALY_RHOS4 TALY_RHOS4]~~] Catalyzes the non-oxidative deamination of L-tyrosine. Has very low phenylalanine ammonia-lyase activity (in vitro).<ref>PMID:17185228</ref>	+	[https://www.uniprot.org/uniprot/TALY_CERS4 TALY_CERS4] Catalyzes the non-oxidative deamination of L-tyrosine. Has very low phenylalanine ammonia-lyase activity (in vitro).<ref>PMID:17185228</ref>
	== 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: Cereibacter sphaeroides]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Baiga~~, T J~~]]	+	[[Category: Baiga TJ]]
-	[[Category: Bowman~~, M E~~]]	+	[[Category: Bowman ME]]
-	[[Category: Louie~~, G V~~]]	+	[[Category: Louie GV]]
-	[[Category: Moffitt~~, M C~~]]	+	[[Category: Moffitt MC]]
-	[[Category: Moore~~, B S~~]]	+	[[Category: Moore BS]]
-	[[Category: Noel~~, J P]]~~	+	[[Category: Noel JP]]
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Methylidene imidazolone prosthetic group~~]]	+

OCA at 18:14, 20 October 2021

2021-10-20T18:14:19Z

←Older revision		Revision as of 18:14, 20 October 2021
Line 3:		Line 3:
	<StructureSection load='2o78' size='340' side='right'caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2o78' size='340' side='right'caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/"~~rhodococcus_capsulatus~~"~~_molisch_1907~~ "~~rhodococcus capsulatus~~" ~~molisch 1907~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O78 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/"luteovulum_sphaeroides"_(van_niel_1944)_suresh_et_al._2019 "luteovulum sphaeroides" (van niel 1944) suresh et al. 2019]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O78 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</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;'>[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</div></td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "~~Rhodococcus capsulatus~~" ~~Molisch 1907~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Luteovulum sphaeroides" (van Niel 1944) Suresh et al. 2019])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [https://pdbe.org/2o78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [https://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [https://pdbe.org/2o78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [https://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 ProSAT]</span></td></tr>
	</table>		</table>
Line 35:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Rhodococcus capsulatus molisch 1907]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Baiga, T J]]		[[Category: Baiga, T J]]

OCA at 16:01, 8 June 2021

2021-06-08T16:01:57Z

←Older revision		Revision as of 16:01, 8 June 2021
Line 1:		Line 1:

	==Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid==		==Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid==
-	<StructureSection load='2o78' size='340' side='right' caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='2o78' size='340' side='right'caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2O78 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O78 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [~~http~~://pdbe.org/2o78 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [https://pdbe.org/2o78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [https://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TALY_RHOS4 TALY_RHOS4]] Catalyzes the non-oxidative deamination of L-tyrosine. Has very low phenylalanine ammonia-lyase activity (in vitro).<ref>PMID:17185228</ref>	+	[[https://www.uniprot.org/uniprot/TALY_RHOS4 TALY_RHOS4]] Catalyzes the non-oxidative deamination of L-tyrosine. Has very low phenylalanine ammonia-lyase activity (in vitro).<ref>PMID:17185228</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Rhodococcus capsulatus molisch 1907]]		[[Category: Rhodococcus capsulatus molisch 1907]]
		+	[[Category: Large Structures]]
	[[Category: Baiga, T J]]		[[Category: Baiga, T J]]
	[[Category: Bowman, M E]]		[[Category: Bowman, M E]]

OCA at 07:04, 22 August 2018

2018-08-22T07:04:44Z

←Older revision		Revision as of 07:04, 22 August 2018
Line 1:		Line 1:
		+
	==Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid==		==Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid==
	<StructureSection load='2o78' size='340' side='right' caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2o78' size='340' side='right' caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://pdbe.org/2o78 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://pdbe.org/2o78 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2o78 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o7/2o78_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o7/2o78_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 04:38, 7 February 2016

2016-02-07T04:38:51Z

←Older revision		Revision as of 04:38, 7 February 2016
Line 19:		Line 19:
	<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=2o78 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 21:56, 9 September 2015

2015-09-09T21:56:01Z

←Older revision		Revision as of 21:56, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='2o78' size='340' side='right' caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2o78' size='340' side='right' caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rhodobacter_sphaeroides Rhodobacter sphaeroides~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O78 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O78 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 ~~Rhodobacter sphaeroides~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://pdbe.org/2o78 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TALY_RHOS4 TALY_RHOS4]] Catalyzes the non-oxidative deamination of L-tyrosine. Has very low phenylalanine ammonia-lyase activity (in vitro).<ref>PMID:17185228</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 27:		Line 29:
	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 2o78" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rhodobacter sphaeroides~~]]	+	[[Category: Rhodococcus capsulatus molisch 1907]]
	[[Category: Baiga, T J]]		[[Category: Baiga, T J]]
	[[Category: Bowman, M E]]		[[Category: Bowman, M E]]

OCA at 15:24, 19 January 2015

2015-01-19T15:24:45Z

←Older revision		Revision as of 15:24, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O78 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O78 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 Rhodobacter sphaeroides])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 Rhodobacter sphaeroides])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 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:
	</StructureSection>		</StructureSection>
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
-	[[Category: Baiga, T J.]]	+	[[Category: Baiga, T J]]
-	[[Category: Bowman, M E.]]	+	[[Category: Bowman, M E]]
-	[[Category: Louie, G V.]]	+	[[Category: Louie, G V]]
-	[[Category: Moffitt, M C.]]	+	[[Category: Moffitt, M C]]
-	[[Category: Moore, B S.]]	+	[[Category: Moore, B S]]
-	[[Category: Noel, J P.]]	+	[[Category: Noel, J P]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Methylidene imidazolone prosthetic group]]		[[Category: Methylidene imidazolone prosthetic group]]

OCA at 18:46, 30 September 2014

2014-09-30T18:46:33Z

←Older revision		Revision as of 18:46, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2o78.~~png~~\|~~left~~\|200px]]	+	==Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid==
		+	<StructureSection load='2o78' size='340' side='right' caption='[[2o78]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2o78]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O78 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TCA:PHENYLETHYLENECARBOXYLIC+ACID'>TCA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MDO:{2-[(1S)-1-AMINOETHYL]-4-METHYLIDENE-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>MDO</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o6y\|2o6y]], [[1gkm\|1gkm]], [[1w27\|1w27]], [[1y2m\|1y2m]], [[1t6j\|1t6j]], [[2nyn\|2nyn]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hutH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 Rhodobacter sphaeroides])</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=2o78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o78 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o78 RCSB], [http://www.ebi.ac.uk/pdbsum/2o78 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/o7/2o78_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 ==
		+	Aromatic amino acid ammonia-lyases catalyze the deamination of L-His, L-Phe, and L-Tyr, yielding ammonia plus aryl acids bearing an alpha,beta-unsaturated propenoic acid. We report crystallographic analyses of unliganded Rhodobacter sphaeroides tyrosine ammonia-lyase (RsTAL) and RsTAL bound to p-coumarate and caffeate. His 89 of RsTAL forms a hydrogen bond with the p-hydroxyl moieties of coumarate and caffeate. His 89 is conserved in TALs but replaced in phenylalanine ammonia-lyases (PALs) and histidine ammonia-lyases (HALs). Substitution of His 89 by Phe, a characteristic residue of PALs, yields a mutant with a switch in kinetic preference from L-Tyr to L-Phe. Structures of the H89F mutant in complex with the PAL product, cinnamate, or the PAL-specific inhibitor, 2-aminoindan-2-phosphonate (AIP), support the role of position 89 as a specificity determinant in the family of aromatic amino acid ammonia-lyases and aminomutases responsible for beta-amino acid biosynthesis.

-	~~{{STRUCTURE_2o78\| PDB=2o78 \| SCENE= }}~~	+	Structural determinants and modulation of substrate specificity in phenylalanine-tyrosine ammonia-lyases.,Louie GV, Bowman ME, Moffitt MC, Baiga TJ, Moore BS, Noel JP Chem Biol. 2006 Dec;13(12):1327-38. PMID:17185228<ref>PMID:17185228</ref>

-	~~===Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17185228}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2o78]] is~~ a ~~8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017185228<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
	[[Category: Baiga, T J.]]		[[Category: Baiga, T J.]]

OCA: Protected "2o78" [edit=sysop:move=sysop]

2013-01-07T11:04:21Z

Protected "2o78" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:04, 7 January 2013

OCA at 11:04, 7 January 2013

2013-01-07T11:04:18Z

←Older revision		Revision as of 11:04, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2o78.png\|left\|200px]]		[[Image:2o78.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2o78", 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_2o78\| PDB=2o78 \| SCENE= }}		{{STRUCTURE_2o78\| PDB=2o78 \| SCENE= }}

	===Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid===		===Tyrosine ammonia-lyase from Rhodobacter sphaeroides (His89Phe variant) complexed with cinnamic acid===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17185228}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17185228 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17185228}}		{{ABSTRACT_PUBMED_17185228}}

	==About this Structure==		==About this Structure==
-	~~2O78~~ is a 8 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA].	+	[[2o78]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O78 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17185228~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017185228</ref><references group="xtra"/>
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
	[[Category: Baiga, T J.]]		[[Category: Baiga, T J.]]
Line 31:		Line 19:
	[[Category: Moore, B S.]]		[[Category: Moore, B S.]]
	[[Category: Noel, J P.]]		[[Category: Noel, J P.]]
		+	[[Category: Lyase]]
	[[Category: Methylidene imidazolone prosthetic group]]		[[Category: Methylidene imidazolone prosthetic group]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:23:05 2009''