1bxg - Revision history

OCA at 15:36, 13 March 2024

OCA — Wed, 13 Mar 2024 15:36:57 GMT

←Older revision		Revision as of 15:36, 13 March 2024
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	<StructureSection load='1bxg' size='340' side='right'caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1bxg' size='340' side='right'caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Rhoso Rhoso~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BXG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene~~></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.3Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [https://pdbe.org/1bxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [https://www.ebi.ac.uk/pdbsum/1bxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bxg 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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [https://pdbe.org/1bxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [https://www.ebi.ac.uk/pdbsum/1bxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bxg ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DHPH_RHOSO DHPH_RHOSO] Catalyzes the reversible NAD(+)-dependent oxidative deamination of L-phenylalanine to phenylpyruvate.<ref>PMID:10924111</ref> <ref>PMID:8206922</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 20:
	</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=1bxg 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=1bxg ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The molecular structures of recombinant L-phenylalanine dehydrogenase from Rhodococcus sp. M4 in two different inhibitory ternary complexes have been determined by X-ray crystallographic analyses to high resolution. Both structures show that L-phenylalanine dehydrogenase is a homodimeric enzyme with each monomer composed of distinct globular N- and C-terminal domains separated by a deep cleft containing the active site. The N-terminal domain binds the amino acid substrate and contributes to the interactions at the subunit:subunit interface. The C-terminal domain contains a typical Rossmann fold and orients the dinucleotide. The dimer has overall dimensions of approximately 82 A x 75 A x 75 A, with roughly 50 A separating the two active sites. The structures described here, namely the enzyme.NAD+.phenylpyruvate, and enzyme. NAD+.beta-phenylpropionate species, represent the first models for any amino acid dehydrogenase in a ternary complex. By analysis of the active-site interactions in these models, along with the currently available kinetic data, a detailed chemical mechanism has been proposed. This mechanism differs from those proposed to date in that it accounts for the inability of the amino acid dehydrogenases, in general, to function as hydroxy acid dehydrogenases.
-
-	Phenylalanine dehydrogenase from Rhodococcus sp. M4: high-resolution X-ray analyses of inhibitory ternary complexes reveal key features in the oxidative deamination mechanism.,Vanhooke JL, Thoden JB, Brunhuber NM, Blanchard JS, Holden HM Biochemistry. 1999 Feb 23;38(8):2326-39. PMID:10029526<ref>PMID:10029526</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1bxg" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phenylalanine dehydrogenase]]~~	+	[[Category: Rhodococcus sp]]
-	~~[[Category: Rhoso~~]]	+	[[Category: Blanchard JL]]
-	[[Category: Blanchard~~, J L~~]]	+	[[Category: Brunhuber NMW]]
-	[[Category: Brunhuber~~, N M.W~~]]	+	[[Category: Holden HM]]
-	[[Category: Holden~~, H M~~]]	+	[[Category: Thoden JB]]
-	[[Category: Thoden~~, J B~~]]	+	[[Category: Vanhooke JL]]
-	[[Category: Vanhooke~~, J L]]~~	+
-	~~[[Category: Amino acid dehydrogenase]]~~	+
-	~~[[Category: Oxidative deamination mechanism~~]]	+

OCA at 10:31, 14 July 2021

OCA — Wed, 14 Jul 2021 10:31:02 GMT

←Older revision		Revision as of 10:31, 14 July 2021
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	<StructureSection load='1bxg' size='340' side='right'caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1bxg' size='340' side='right'caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Rhoso Rhoso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1BXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhoso Rhoso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BXG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [~~http~~://pdbe.org/1bxg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1bxg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1bxg 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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [https://pdbe.org/1bxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [https://www.ebi.ac.uk/pdbsum/1bxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bxg ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 07:23, 10 October 2019

OCA — Thu, 10 Oct 2019 07:23:42 GMT

←Older revision		Revision as of 07:23, 10 October 2019
Line 1:		Line 1:

	==PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE==		==PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE==
-	<StructureSection load='1bxg' size='340' side='right' caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='1bxg' size='340' side='right'caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhoso Rhoso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>		<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhoso Rhoso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bx/1bxg_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bx/1bxg_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 31:		Line 31:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Phenylalanine dehydrogenase]]		[[Category: Phenylalanine dehydrogenase]]
	[[Category: Rhoso]]		[[Category: Rhoso]]

OCA at 08:15, 29 November 2017

OCA — Wed, 29 Nov 2017 08:15:56 GMT

←Older revision		Revision as of 08:15, 29 November 2017
Line 1:		Line 1:
		+
	==PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE==		==PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE==
	<StructureSection load='1bxg' size='340' side='right' caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1bxg' size='340' side='right' caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://pdbe.org/1bxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg 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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://pdbe.org/1bxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1bxg ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:20, 9 February 2016

OCA — Tue, 09 Feb 2016 10:20:32 GMT

←Older revision		Revision as of 10:20, 9 February 2016
Line 15:		Line 15:
	<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=1bxg ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 21:18, 10 September 2015

OCA — Thu, 10 Sep 2015 21:18:33 GMT

←Older revision		Revision as of 21:18, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1bxg' size='340' side='right' caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1bxg' size='340' side='right' caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rhodococcus_sp. Rhodococcus sp.~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhoso Rhoso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg 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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://pdbe.org/1bxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 1bxg" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Phenylalanine dehydrogenase]]		[[Category: Phenylalanine dehydrogenase]]
-	[[Category: ~~Rhodococcus sp~~]]	+	[[Category: Rhoso]]
	[[Category: Blanchard, J L]]		[[Category: Blanchard, J L]]
	[[Category: Brunhuber, N M.W]]		[[Category: Brunhuber, N M.W]]

OCA at 11:15, 22 December 2014

OCA — Mon, 22 Dec 2014 11:15:48 GMT

←Older revision		Revision as of 11:15, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>		<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg 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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg 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 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Phenylalanine dehydrogenase]]		[[Category: Phenylalanine dehydrogenase]]
-	[[Category: Rhodococcus sp.]]	+	[[Category: Rhodococcus sp]]
-	[[Category: Blanchard, J L.]]	+	[[Category: Blanchard, J L]]
-	[[Category: Brunhuber, N M.W.]]	+	[[Category: Brunhuber, N M.W]]
-	[[Category: Holden, H M.]]	+	[[Category: Holden, H M]]
-	[[Category: Thoden, J B.]]	+	[[Category: Thoden, J B]]
-	[[Category: Vanhooke, J L.]]	+	[[Category: Vanhooke, J L]]
	[[Category: Amino acid dehydrogenase]]		[[Category: Amino acid dehydrogenase]]
	[[Category: Oxidative deamination mechanism]]		[[Category: Oxidative deamination mechanism]]

OCA at 09:45, 13 August 2014

OCA — Wed, 13 Aug 2014 09:45:22 GMT

←Older revision		Revision as of 09:45, 13 August 2014
Line 1:		Line 1:
-	[[~~Image~~:1bxg.~~png\|left~~\|200px]]	+	==PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE==
		+	<StructureSection load='1bxg' size='340' side='right' caption='[[1bxg]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BXG FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HCI:HYDROCINNAMIC+ACID'>HCI</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylalanine_dehydrogenase Phenylalanine dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.1.20 1.4.1.20] </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=1bxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bxg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bxg RCSB], [http://www.ebi.ac.uk/pdbsum/1bxg 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/bx/1bxg_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 ==
		+	The molecular structures of recombinant L-phenylalanine dehydrogenase from Rhodococcus sp. M4 in two different inhibitory ternary complexes have been determined by X-ray crystallographic analyses to high resolution. Both structures show that L-phenylalanine dehydrogenase is a homodimeric enzyme with each monomer composed of distinct globular N- and C-terminal domains separated by a deep cleft containing the active site. The N-terminal domain binds the amino acid substrate and contributes to the interactions at the subunit:subunit interface. The C-terminal domain contains a typical Rossmann fold and orients the dinucleotide. The dimer has overall dimensions of approximately 82 A x 75 A x 75 A, with roughly 50 A separating the two active sites. The structures described here, namely the enzyme.NAD+.phenylpyruvate, and enzyme. NAD+.beta-phenylpropionate species, represent the first models for any amino acid dehydrogenase in a ternary complex. By analysis of the active-site interactions in these models, along with the currently available kinetic data, a detailed chemical mechanism has been proposed. This mechanism differs from those proposed to date in that it accounts for the inability of the amino acid dehydrogenases, in general, to function as hydroxy acid dehydrogenases.

-	~~{{STRUCTURE_1bxg\| PDB=1bxg \| SCENE= }}~~	+	Phenylalanine dehydrogenase from Rhodococcus sp. M4: high-resolution X-ray analyses of inhibitory ternary complexes reveal key features in the oxidative deamination mechanism.,Vanhooke JL, Thoden JB, Brunhuber NM, Blanchard JS, Holden HM Biochemistry. 1999 Feb 23;38(8):2326-39. PMID:10029526<ref>PMID:10029526</ref>

-	~~===PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_10029526}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1bxg]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rhodococcus_sp~~. ~~Rhodococcus sp.]. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:010029526<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Phenylalanine dehydrogenase]]		[[Category: Phenylalanine dehydrogenase]]
	[[Category: Rhodococcus sp.]]		[[Category: Rhodococcus sp.]]

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

OCA — Sun, 21 Oct 2012 20:48:26 GMT

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

←Older revision

Revision as of 20:48, 21 October 2012

OCA at 20:48, 21 October 2012

OCA — Sun, 21 Oct 2012 20:48:20 GMT

←Older revision		Revision as of 20:48, 21 October 2012
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-	{{Seed}}
	[[Image:1bxg.png\|left\|200px]]		[[Image:1bxg.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1bxg", 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_1bxg\| PDB=1bxg \| SCENE= }}		{{STRUCTURE_1bxg\| PDB=1bxg \| SCENE= }}

	===PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE===		===PHENYLALANINE DEHYDROGENASE STRUCTURE IN TERNARY COMPLEX WITH NAD+ AND BETA-PHENYLPROPIONATE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_10029526}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 10029526 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_10029526}}		{{ABSTRACT_PUBMED_10029526}}

	==About this Structure==		==About this Structure==
-	~~1BXG~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA].	+	[[1bxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BXG OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10029526~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010029526</ref><references group="xtra"/>
	[[Category: Phenylalanine dehydrogenase]]		[[Category: Phenylalanine dehydrogenase]]
	[[Category: Rhodococcus sp.]]		[[Category: Rhodococcus sp.]]
Line 33:		Line 21:
	[[Category: Amino acid dehydrogenase]]		[[Category: Amino acid dehydrogenase]]
	[[Category: Oxidative deamination mechanism]]		[[Category: Oxidative deamination mechanism]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 09:05:45 2009''