5n2i - Revision history

OCA at 17:58, 8 November 2023

OCA — Wed, 08 Nov 2023 17:58:42 GMT

←Older revision		Revision as of 17:58, 8 November 2023
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	<StructureSection load='5n2i' size='340' side='right'caption='[[5n2i]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='5n2i' size='340' side='right'caption='[[5n2i]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n2i]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N2I OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5N2I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n2i]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermobifida_fusca_YX Thermobifida fusca YX]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N2I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5N2I FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</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]] 1.8Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5n2i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n2i OCA], [~~http~~://pdbe.org/5n2i PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5n2i RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5n2i PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5n2i ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</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=5n2i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n2i OCA], [https://pdbe.org/5n2i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5n2i RCSB], [https://www.ebi.ac.uk/pdbsum/5n2i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5n2i ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q47RA9_THEFY Q47RA9_THEFY]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Binda, C]]	+	[[Category: Thermobifida fusca YX]]
-	[[Category: Fraaije~~, M W~~]]	+	[[Category: Binda C]]
-	[[Category: Kumar, H]]	+	[[Category: Fraaije MW]]
-	[[Category: Mattevi, A]]	+	[[Category: Kumar H]]
-	[[Category: Nguyen, Q T]]	+	[[Category: Mattevi A]]
-	~~[[Category: Dimer of dimer]]~~	+	[[Category: Nguyen Q-T]]
-	~~[[Category: F420:nadph oxidoreductase]]~~	+
-	~~[[Category: Nadp+ bound]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 11:56, 26 August 2020

OCA — Wed, 26 Aug 2020 11:56:27 GMT

←Older revision		Revision as of 11:56, 26 August 2020
Line 1:		Line 1:

	==F420:NADPH oxidoreductase from Thermobifida fusca with NADP+ bound==		==F420:NADPH oxidoreductase from Thermobifida fusca with NADP+ bound==
-	<StructureSection load='5n2i' size='340' side='right' caption='[[5n2i]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='5n2i' size='340' side='right'caption='[[5n2i]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n2i]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N2I OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5N2I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n2i]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N2I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5N2I FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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=5n2i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n2i OCA], [http://pdbe.org/5n2i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n2i RCSB], [http://www.ebi.ac.uk/pdbsum/5n2i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n2i ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5n2i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n2i OCA], [http://pdbe.org/5n2i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n2i RCSB], [http://www.ebi.ac.uk/pdbsum/5n2i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n2i ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Binda, C]]		[[Category: Binda, C]]
	[[Category: Fraaije, M W]]		[[Category: Fraaije, M W]]

OCA at 13:55, 27 April 2017

OCA — Thu, 27 Apr 2017 13:55:10 GMT

←Older revision		Revision as of 13:55, 27 April 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5n2i is ~~ON HOLD until Paper~~ Publication	+	==F420:NADPH oxidoreductase from Thermobifida fusca with NADP+ bound==
		+	<StructureSection load='5n2i' size='340' side='right' caption='[[5n2i]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5n2i]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N2I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N2I FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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=5n2i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n2i OCA], [http://pdbe.org/5n2i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n2i RCSB], [http://www.ebi.ac.uk/pdbsum/5n2i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n2i ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	F420H2-dependent enzymes reduce a wide range of substrates that are otherwise recalcitrant to enzyme-catalyzed reduction, and their potential for applications in biocatalysis has attracted increasingly attention. Thermobifida fusca is a moderately thermophilic bacterium and holds high biocatalytic potential as a source for several highly thermostable enzymes. We report here on the isolation and characterization of a thermostable F420:NADPH oxidoreductase (Tfu-FNO) from T. fusca, being the first F420-dependent enzyme described from this bacterium. Tfu-FNO was heterologously expressed in Escherichia coli, yielding up to 200 mg recombinant enzyme per liter of culture. We found that Tfu-FNO is highly thermostable, reaching its highest activity at 65 degrees C and that Tfu-FNO is likely to act in vivo as an F420 reductase at the expense of NADPH, similar to its counterpart in Streptomyces griseus We obtained the crystal structure of FNO in complex with NADP+ at 1.8 A resolution, providing the first bacterial FNO structure. The overall architecture and NADP+-binding site of Tfu-FNO were highly similar to those of the Archaeoglobus fulgidus FNO (Af-FNO). The active site is located in a hydrophobic pocket between an N-terminal dinucleotide-binding domain and a smaller C-terminal do-main. Residues interacting with the 2'-phosphate of NADP+ were probed by targeted mutagenesis, indicating that Thr28, Ser50, Arg51, and Arg55 are important for discriminating between NADP+ and NAD+. Interestingly, a T28A mutant increased the kinetic efficiency more than three-fold as compared with the wild-type enzyme when NADH is the substrate. The biochemical and structural data presented here provide crucial insights into the molecular recognition of the two cofactors, F420 and NAD(P)H by FNO.

-	~~Authors~~: ~~Kumar~~, H., Nguyen~~, Q.-T.~~, Binda, C., Mattevi, A., Fraaije~~, M~~.W.	+	Isolation and characterization of a thermostable F420:NADPH oxidoreductase from Thermobifida fusca.,Kumar H, Nguyen QT, Binda C, Mattevi A, Fraaije MW J Biol Chem. 2017 Apr 14. pii: jbc.M117.787754. doi: 10.1074/jbc.M117.787754. PMID:28411200<ref>PMID:28411200</ref>

-	~~Description~~: ~~F420~~:~~NADPH oxidoreductase from Thermobifida fusca with NADP+ bound~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5n2i" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Binda, C]]
		+	[[Category: Fraaije, M W]]
	[[Category: Kumar, H]]		[[Category: Kumar, H]]
-	[[Category: Fraaije, M.W]]
	[[Category: Mattevi, A]]		[[Category: Mattevi, A]]
-	[[Category: Nguyen, Q.-T]]	+	[[Category: Nguyen, Q T]]
-	[[Category: ~~Binda, C~~]]	+	[[Category: Dimer of dimer]]
		+	[[Category: F420:nadph oxidoreductase]]
		+	[[Category: Nadp+ bound]]
		+	[[Category: Oxidoreductase]]

OCA: Protected "5n2i" [edit=sysop:move=sysop]

OCA — Thu, 09 Mar 2017 11:57:28 GMT

Protected "5n2i" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:57, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5n2i is ON HOLD until Paper Publication Authors: Kumar, H., Nguyen, Q.-T., Binda, C., Mattevi, A., Fraaije, M.W. Description: F420:NADPH oxidoreduc...

OCA — Thu, 09 Mar 2017 11:57:26 GMT

New page: '''Unreleased structure''' The entry 5n2i is ON HOLD until Paper Publication Authors: Kumar, H., Nguyen, Q.-T., Binda, C., Mattevi, A., Fraaije, M.W. Description: F420:NADPH oxidoreduc...

New page

'''Unreleased structure'''

The entry 5n2i is ON HOLD until Paper Publication

Authors: Kumar, H., Nguyen, Q.-T., Binda, C., Mattevi, A., Fraaije, M.W.

Description: F420:NADPH oxidoreductase from Thermobifida fusca with NADP+ bound
[[Category: Unreleased Structures]]
[[Category: Kumar, H]]
[[Category: Fraaije, M.W]]
[[Category: Mattevi, A]]
[[Category: Nguyen, Q.-T]]
[[Category: Binda, C]]