7e0c - Revision history

OCA at 16:44, 29 November 2023

2023-11-29T16:44:08Z

←Older revision		Revision as of 16:44, 29 November 2023
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	<StructureSection load='7e0c' size='340' side='right'caption='[[7e0c]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='7e0c' size='340' side='right'caption='[[7e0c]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7e0c]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._x-119-6 Streptomyces sp. x-119-6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E0C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7e0c]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._X-119-6 Streptomyces sp. X-119-6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E0C FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FAD:FLAVIN~~-~~ADENINE+DINUCLEOTIDE'>FAD</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]] 2.65Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2e1m\|2e1m]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Lgox ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~196112 Streptomyces sp. X-119-6])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/L-glutamate_oxidase L-glutamate oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.3.11 1.4.3.11]~~ </~~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=7e0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e0c OCA], [https://pdbe.org/7e0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e0c RCSB], [https://www.ebi.ac.uk/pdbsum/7e0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e0c 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=7e0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e0c OCA], [https://pdbe.org/7e0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e0c RCSB], [https://www.ebi.ac.uk/pdbsum/7e0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e0c ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8L3C7_9ACTN Q8L3C7_9ACTN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: L-glutamate oxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Streptomyces sp. x-119-6]]	+	[[Category: Streptomyces sp. X-119-6]]
-	[[Category: Imada, K]]	+	[[Category: Imada K]]
-	[[Category: Inagaki, K]]	+	[[Category: Inagaki K]]
-	[[Category: Ito, N]]	+	[[Category: Ito N]]
-	[[Category: Matsuo, S]]	+	[[Category: Matsuo S]]
-	~~[[Category: L-amino acid oxidase]]~~	+
-	~~[[Category: L-glutamic acid oxidase]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 08:33, 21 April 2021

2021-04-21T08:33:29Z

←Older revision		Revision as of 08:33, 21 April 2021
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	==Structure of L-glutamate oxidase R305E mutant==		==Structure of L-glutamate oxidase R305E mutant==
-	<StructureSection load='7e0c' size='340' side='right'caption='[[7e0c]]' scene=''>	+	<StructureSection load='7e0c' size='340' side='right'caption='[[7e0c]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E0C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7e0c]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._x-119-6 Streptomyces sp. x-119-6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E0C FirstGlance]. <br>
-	</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=7e0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e0c OCA], [https://pdbe.org/7e0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e0c RCSB], [https://www.ebi.ac.uk/pdbsum/7e0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e0c ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</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;'>[[2e1m\|2e1m]]</div></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Lgox ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=196112 Streptomyces sp. X-119-6])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/L-glutamate_oxidase L-glutamate oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.3.11 1.4.3.11] </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=7e0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e0c OCA], [https://pdbe.org/7e0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e0c RCSB], [https://www.ebi.ac.uk/pdbsum/7e0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e0c ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The alternation of substrate specificity expands the application range of enzymes in industrial, medical, and pharmaceutical fields. l-Glutamate oxidase (LGOX) from Streptomyces sp. X-119-6 catalyzes the oxidative deamination of l-glutamate to produce 2-ketoglutarate with ammonia and hydrogen peroxide. LGOX shows strict substrate specificity for l-glutamate. Previous studies on LGOX revealed that Arg305 in its active site recognizes the side chain of l-glutamate, and replacement of Arg305 by other amino acids drastically changes the substrate specificity of LGOX. Here we demonstrate that the R305E mutant variant of LGOX exhibits strict specificity for l-arginine. The oxidative deamination activity of LGOX to l-arginine is higher than that of l-arginine oxidase form from Pseudomonas sp. TPU 7192. X-ray crystal structure analysis revealed that the guanidino group of l-arginine is recognized not only by Glu305 but also Asp433, Trp564, and Glu617, which interact with Arg305 in wild-type LGOX. Multiple interactions by these residues provide strict specificity and high activity of LGOX R305E toward l-arginine. LGOX R305E is a thermostable and pH stable enzyme. The amount of hydrogen peroxide, which is a byproduct of oxidative deamination of l-arginine by LGOX R305E, is proportional to the concentration of l-arginine in a range from 0 to 100 muM. The linear relationship is maintained around 1 muM of l-arginine. Thus, LGOX R305E is suitable for the determination of l-arginine.
		+
		+	A new l-arginine oxidase engineered from l-glutamate oxidase.,Yano Y, Matsuo S, Ito N, Tamura T, Kusakabe H, Inagaki K, Imada K Protein Sci. 2021 Mar 25. doi: 10.1002/pro.4070. PMID:33764624<ref>PMID:33764624</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7e0c" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: L-glutamate oxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Imada K]]	+	[[Category: Streptomyces sp. x-119-6]]
-	[[Category: Inagaki K]]	+	[[Category: Imada, K]]
-	[[Category: Ito N]]	+	[[Category: Inagaki, K]]
-	[[Category: Matsuo S]]	+	[[Category: Ito, N]]
		+	[[Category: Matsuo, S]]
		+	[[Category: L-amino acid oxidase]]
		+	[[Category: L-glutamic acid oxidase]]
		+	[[Category: Oxidoreductase]]

OCA at 06:51, 7 April 2021

2021-04-07T06:51:11Z

←Older revision		Revision as of 06:51, 7 April 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7e0c ~~is ON HOLD until Paper Publication~~	+	==Structure of L-glutamate oxidase R305E mutant==
-		+	<StructureSection load='7e0c' size='340' side='right'caption='[[7e0c]]' scene=''>
-	~~Authors~~: ~~Ito~~, N., ~~Matsuo~~, S., ~~Inagaki, K~~., ~~Imada, K~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E0C FirstGlance]. <br>
-	~~Description: Structure of L-glutamate oxidase R305E mutant~~	+	</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=7e0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e0c OCA], [https://pdbe.org/7e0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e0c RCSB], [https://www.ebi.ac.uk/pdbsum/7e0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e0c ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Ito, N~~]]	+	__TOC__
-	[[Category: Inagaki, K]]	+	</StructureSection>
-	[[Category: ~~Matsuo, S~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Imada, K~~]]	+	[[Category: Imada K]]
		+	[[Category: Inagaki K]]
		+	[[Category: Ito N]]
		+	[[Category: Matsuo S]]

OCA at 14:28, 10 March 2021

2021-03-10T14:28:06Z

←Older revision		Revision as of 14:28, 10 March 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7e0c is ON HOLD	+	The entry 7e0c is ON HOLD until Paper Publication

	Authors: Ito, N., Matsuo, S., Inagaki, K., Imada, K.		Authors: Ito, N., Matsuo, S., Inagaki, K., Imada, K.

OCA: Protected "7e0c" [edit=sysop:move=sysop]

2021-02-03T09:22:20Z

Protected "7e0c" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:22, 3 February 2021

OCA: New page: '''Unreleased structure''' The entry 7e0c is ON HOLD Authors: Ito, N., Matsuo, S., Inagaki, K., Imada, K. Description: Structure of L-glutamate oxidase R305E mutant [[Category: Unrelea...

2021-02-03T09:22:18Z

New page: '''Unreleased structure''' The entry 7e0c is ON HOLD Authors: Ito, N., Matsuo, S., Inagaki, K., Imada, K. Description: Structure of L-glutamate oxidase R305E mutant [[Category: Unrelea...

New page

'''Unreleased structure'''

The entry 7e0c is ON HOLD

Authors: Ito, N., Matsuo, S., Inagaki, K., Imada, K.

Description: Structure of L-glutamate oxidase R305E mutant
[[Category: Unreleased Structures]]
[[Category: Ito, N]]
[[Category: Inagaki, K]]
[[Category: Matsuo, S]]
[[Category: Imada, K]]