3sm8 - Revision history

OCA at 09:52, 1 March 2024

OCA — Fri, 01 Mar 2024 09:52:12 GMT

←Older revision		Revision as of 09:52, 1 March 2024
Line 3:		Line 3:
	<StructureSection load='3sm8' size='340' side='right'caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>		<StructureSection load='3sm8' size='340' side='right'caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl+(2R,3S,4S)-5-[7,8-dimethyl-5-(3-methylbutanoyl)-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-2,3,4-trihydroxypentyl+dihydrogen+diphosphate'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.07Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl+(2R,3S,4S)-5-[7,8-dimethyl-5-(3-methylbutanoyl)-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-2,3,4-trihydroxypentyl+dihydrogen+diphosphate'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 "Bacillus aeruginosus" (Schroeter 1872) Trevisan 1885])</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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [https://pdbe.org/3sm8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [https://www.ebi.ac.uk/pdbsum/3sm8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sm8 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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [https://pdbe.org/3sm8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [https://www.ebi.ac.uk/pdbsum/3sm8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sm8 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/DAUA_PSEAE DAUA_PSEAE] DauA is highly expressed within the cystic fibrosis (CF) lung, and it is required for virulence via the optimal production of hydrogen cyanide, pyocyanine, pyoverdine, rhamnolipid and alginate during biofilm formation (PubMed:24011342). Involved in the catabolism of D-lysine and D-arginine. Under aerobic conditions, the arginine succinyltransferase (AST) and arginine transaminase (ATA) pathways are 2 major routes for L-arginine utilization as the sole source of carbon and nitrogen. The D-to-L racemization of arginine by DauA and DauB is necessary, before to be channeled into the AST and/or ATA pathways. DauA catalyzes the flavin-dependent oxidative deamination of D-arginine into 2-ketoarginine (2-KA) and ammonia (PubMed:3141581, PubMed:19139398, PubMed:19850617, PubMed:20809650). It has also dehydrogenase activity towards D-lysine, D-tyrosine, D-methionine, D-phenylalanine, D-ornithine, D-histidine and D-leucine as substrates (PubMed:19850617, PubMed:20809650).<ref>PMID:19139398</ref> <ref>PMID:19850617</ref> <ref>PMID:20809650</ref> <ref>PMID:24011342</ref> <ref>PMID:3141581</ref>
-	~~d-Arginine dehydrogenase~~ (~~DADH~~) ~~catalyzes~~ the ~~flavin-dependent oxidative deamination~~ of d-arginine and ~~other d~~-~~amino acids to~~ the ~~corresponding imino acids~~. The ~~1.07 A atomic~~-~~resolution structure~~ of ~~DADH crystallized with d-leucine unexpectedly revealed a covalent N(5) flavin adduct~~, ~~instead of~~ the ~~expected iminoleucine product in the active site~~. ~~This acyl adduct has been successfully reproduced by photoreduction of DADH in~~ the ~~presence~~ of ~~4-methyl~~-2-~~oxopentanoic acid~~ (~~ketoleucine~~)~~. The iminoleucine may be released readily because of weak interactions in the binding site~~, ~~in contrast to iminoarginine~~, ~~converted to ketoleucine~~, ~~which reacts with activated FAD to form the covalently linked acyl adduct~~.	+
-		+
-	~~Atomic~~-~~Resolution Structure of an N(5) Flavin Adduct in d~~-~~Arginine Dehydrogenase.~~,~~Fu G~~, ~~Yuan H~~, ~~Wang S, Gadda G~~, ~~Weber IT Biochemistry. 2011 Jul 26;50~~(~~29)~~:~~6292-4. Epub 2011 Jul 5~~. PMID:~~21707047~~<ref>PMID:~~21707047~~</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.~~<br>	+
-	</~~div~~>	+
-	<~~div class="pdbe-citations 3sm8" style="background-color~~:~~#fffaf0;"~~></~~div~~>	+
	== References ==		== References ==
	<references/>		<references/>
Line 23:		Line 15:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Fu, G~~]]	+	[[Category: Pseudomonas aeruginosa]]
-	[[Category: ~~Weber, I T~~]]	+	[[Category: Fu G]]
-	[[Category: ~~Oxidoreductase~~]]	+	[[Category: Weber IT]]

OCA at 08:01, 29 June 2022

OCA — Wed, 29 Jun 2022 08:01:44 GMT

←Older revision		Revision as of 08:01, 29 June 2022
Line 1:		Line 1:

	==Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct==		==Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct==
-	<StructureSection load='3sm8' size='340' side='right' caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>	+	<StructureSection load='3sm8' size='340' side='right'caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-~~AMINO~~-9H-~~PURIN~~-9-YL)-3,4-~~DIHYDROXYTETRAHYDROFURAN~~-2-YL]~~METHYL~~+(2R,3S,4S)-5-[7,8-~~DIMETHYL~~-5-(3-~~METHYLBUTANOYL~~)-2,4-~~DIOXO~~-1,3,4,5-~~TETRAHYDROBENZO~~[G]~~PTERIDIN~~-10(2H)-YL]-2,3,4-~~TRIHYDROXYPENTYL~~+~~DIHYDROGEN~~+~~DIPHOSPHATE~~'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl+(2R,3S,4S)-5-[7,8-dimethyl-5-(3-methylbutanoyl)-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-2,3,4-trihydroxypentyl+dihydrogen+diphosphate'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 "Bacillus aeruginosus" (Schroeter 1872) Trevisan 1885])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 "Bacillus aeruginosus" (Schroeter 1872) Trevisan 1885])</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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [~~http~~://pdbe.org/3sm8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3sm8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3sm8 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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [https://pdbe.org/3sm8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [https://www.ebi.ac.uk/pdbsum/3sm8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sm8 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Fu, G]]		[[Category: Fu, G]]
	[[Category: Weber, I T]]		[[Category: Weber, I T]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 12:28, 11 August 2016

OCA — Thu, 11 Aug 2016 12:28:44 GMT

←Older revision		Revision as of 12:28, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct==		==Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct==
	<StructureSection load='3sm8' size='340' side='right' caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>		<StructureSection load='3sm8' size='340' side='right' caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_aeruginosa Pseudomonas aeruginosa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+(2R,3S,4S)-5-[7,8-DIMETHYL-5-(3-METHYLBUTANOYL)-2,4-DIOXO-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL+DIHYDROGEN+DIPHOSPHATE'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+(2R,3S,4S)-5-[7,8-DIMETHYL-5-(3-METHYLBUTANOYL)-2,4-DIOXO-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL+DIHYDROGEN+DIPHOSPHATE'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 ~~Pseudomonas aeruginosa~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 "Bacillus aeruginosus" (Schroeter 1872) Trevisan 1885])</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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [http://www.ebi.ac.uk/pdbsum/3sm8 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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [http://pdbe.org/3sm8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [http://www.ebi.ac.uk/pdbsum/3sm8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3sm8 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	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 3sm8" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Pseudomonas aeruginosa]]
	[[Category: Fu, G]]		[[Category: Fu, G]]
	[[Category: Weber, I T]]		[[Category: Weber, I T]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 09:10, 4 January 2015

OCA — Sun, 04 Jan 2015 09:10:07 GMT

←Older revision		Revision as of 09:10, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+(2R,3S,4S)-5-[7,8-DIMETHYL-5-(3-METHYLBUTANOYL)-2,4-DIOXO-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL+DIHYDROGEN+DIPHOSPHATE'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+(2R,3S,4S)-5-[7,8-DIMETHYL-5-(3-METHYLBUTANOYL)-2,4-DIOXO-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL+DIHYDROGEN+DIPHOSPHATE'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 Pseudomonas aeruginosa])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 Pseudomonas aeruginosa])</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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [http://www.ebi.ac.uk/pdbsum/3sm8 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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [http://www.ebi.ac.uk/pdbsum/3sm8 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 14:
	Atomic-Resolution Structure of an N(5) Flavin Adduct in d-Arginine Dehydrogenase.,Fu G, Yuan H, Wang S, Gadda G, Weber IT Biochemistry. 2011 Jul 26;50(29):6292-4. Epub 2011 Jul 5. PMID:21707047<ref>PMID:21707047</ref>		Atomic-Resolution Structure of an N(5) Flavin Adduct in d-Arginine Dehydrogenase.,Fu G, Yuan H, Wang S, Gadda G, Weber IT Biochemistry. 2011 Jul 26;50(29):6292-4. Epub 2011 Jul 5. PMID:21707047<ref>PMID:21707047</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 21:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
-	[[Category: Fu, G.]]	+	[[Category: Fu, G]]
-	[[Category: Weber, I T.]]	+	[[Category: Weber, I T]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 05:19, 5 June 2014

OCA — Thu, 05 Jun 2014 05:19:18 GMT

←Older revision		Revision as of 05:19, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3sm8.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct==
		+	<StructureSection load='3sm8' size='340' side='right' caption='[[3sm8]], [[Resolution\|resolution]] 1.07Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3sm8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SM8 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FNK:[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+(2R,3S,4S)-5-[7,8-DIMETHYL-5-(3-METHYLBUTANOYL)-2,4-DIOXO-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL+DIHYDROGEN+DIPHOSPHATE'>FNK</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nyc\|3nyc]], [[3nye\|3nye]], [[3nyf\|3nyf]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">dauA, PA3863, PAO1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=287 Pseudomonas aeruginosa])</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=3sm8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sm8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3sm8 RCSB], [http://www.ebi.ac.uk/pdbsum/3sm8 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	d-Arginine dehydrogenase (DADH) catalyzes the flavin-dependent oxidative deamination of d-arginine and other d-amino acids to the corresponding imino acids. The 1.07 A atomic-resolution structure of DADH crystallized with d-leucine unexpectedly revealed a covalent N(5) flavin adduct, instead of the expected iminoleucine product in the active site. This acyl adduct has been successfully reproduced by photoreduction of DADH in the presence of 4-methyl-2-oxopentanoic acid (ketoleucine). The iminoleucine may be released readily because of weak interactions in the binding site, in contrast to iminoarginine, converted to ketoleucine, which reacts with activated FAD to form the covalently linked acyl adduct.

-	<!--	+	Atomic-Resolution Structure of an N(5) Flavin Adduct in d-Arginine Dehydrogenase.,Fu G, Yuan H, Wang S, Gadda G, Weber IT Biochemistry. 2011 Jul 26;50(29):6292-4. Epub 2011 Jul 5. PMID:21707047<ref>PMID:21707047</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3sm8"~~, ~~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_3sm8\| PDB=3sm8 \| SCENE= }}~~	+

-	~~===Crystal Structure~~ of ~~Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21707047}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21707047 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21707047}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3sm8]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021707047<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
	[[Category: Fu, G.]]		[[Category: Fu, G.]]
	[[Category: Weber, I T.]]		[[Category: Weber, I T.]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 06:16, 27 July 2011

OCA — Wed, 27 Jul 2011 06:16:48 GMT

←Older revision		Revision as of 06:16, 27 July 2011
Line 1:		Line 1:
-	[[Image:3sm8.~~jpg~~\|left\|200px]]	+	[[Image:3sm8.png\|left\|200px]]

	<!--		<!--

OCA at 06:39, 20 July 2011

OCA — Wed, 20 Jul 2011 06:39:10 GMT

←Older revision		Revision as of 06:39, 20 July 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3sm8.jpg\|left\|200px]]

-	The ~~entry 3sm8~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3sm8", 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_3sm8\| PDB=3sm8 \| SCENE= }}

-	~~Authors: Fu, G., Weber, I. T.~~	+	===Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct===

-	~~Description~~: ~~Crystal~~ Structure of Pseudomonas aeruginosa D-~~Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21707047}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21707047 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21707047}}
		+
		+	==About this Structure==
		+	[[3sm8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SM8 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021707047</ref><references group="xtra"/>
		+	[[Category: Pseudomonas aeruginosa]]
		+	[[Category: Fu, G.]]
		+	[[Category: Weber, I T.]]
		+	[[Category: Oxidoreductase]]

OCA: Protected "3sm8" [edit=sysop:move=sysop]

OCA — Wed, 06 Jul 2011 18:28:29 GMT

Protected "3sm8" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:28, 6 July 2011

OCA: New page: '''Unreleased structure''' The entry 3sm8 is ON HOLD Authors: Fu, G., Weber, I. T. Description: Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an ...

OCA — Wed, 06 Jul 2011 18:28:28 GMT

New page: '''Unreleased structure''' The entry 3sm8 is ON HOLD Authors: Fu, G., Weber, I. T. Description: Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an ...

New page

'''Unreleased structure'''

The entry 3sm8 is ON HOLD

Authors: Fu, G., Weber, I. T.

Description: Crystal Structure of Pseudomonas aeruginosa D-Arginine Dehydrogenase in Complex with an (N5) Flavin Adduct