4d02 - Revision history

OCA at 11:16, 9 May 2024

OCA — Thu, 09 May 2024 11:16:22 GMT

←Older revision		Revision as of 11:16, 9 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4D02 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4D02 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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]] 1.755Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [https://pdbe.org/4d02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [https://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [https://pdbe.org/4d02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [https://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/NORV_ECOLI NORV_ECOLI]] Anaerobic nitric oxide reductase; uses NADH to detoxify nitric oxide (NO), protecting several 4Fe-4S NO-sensitive enzymes. Has at least 2 reductase partners, only one of which (NorW, flavorubredoxin reductase) has been identified. NO probably binds to the di-iron center; electrons enter from the reductase at rubredoxin and are transferred sequentially to the FMN center and the di-iron center. Also able to function as an aerobic oxygen reductase.<ref>PMID:11751865</ref> <ref>PMID:12101220</ref>	+	[https://www.uniprot.org/uniprot/NORV_ECOLI NORV_ECOLI] Anaerobic nitric oxide reductase; uses NADH to detoxify nitric oxide (NO), protecting several 4Fe-4S NO-sensitive enzymes. Has at least 2 reductase partners, only one of which (NorW, flavorubredoxin reductase) has been identified. NO probably binds to the di-iron center; electrons enter from the reductase at rubredoxin and are transferred sequentially to the FMN center and the di-iron center. Also able to function as an aerobic oxygen reductase.<ref>PMID:11751865</ref> <ref>PMID:12101220</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:40, 14 September 2022

OCA — Wed, 14 Sep 2022 07:40:38 GMT

←Older revision		Revision as of 07:40, 14 September 2022
Line 3:		Line 3:
	<StructureSection load='4d02' size='340' side='right'caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='4d02' size='340' side='right'caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4D02 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4D02 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [~~http~~://pdbe.org/4d02 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [https://pdbe.org/4d02 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [https://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NORV_ECOLI NORV_ECOLI]] Anaerobic nitric oxide reductase; uses NADH to detoxify nitric oxide (NO), protecting several 4Fe-4S NO-sensitive enzymes. Has at least 2 reductase partners, only one of which (NorW, flavorubredoxin reductase) has been identified. NO probably binds to the di-iron center; electrons enter from the reductase at rubredoxin and are transferred sequentially to the FMN center and the di-iron center. Also able to function as an aerobic oxygen reductase.<ref>PMID:11751865</ref> <ref>PMID:12101220</ref>	+	[[https://www.uniprot.org/uniprot/NORV_ECOLI NORV_ECOLI]] Anaerobic nitric oxide reductase; uses NADH to detoxify nitric oxide (NO), protecting several 4Fe-4S NO-sensitive enzymes. Has at least 2 reductase partners, only one of which (NorW, flavorubredoxin reductase) has been identified. NO probably binds to the di-iron center; electrons enter from the reductase at rubredoxin and are transferred sequentially to the FMN center and the di-iron center. Also able to function as an aerobic oxygen reductase.<ref>PMID:11751865</ref> <ref>PMID:12101220</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bandeiras, T]]	+	[[Category: Bandeiras T]]
-	[[Category: Carrondo~~, M A~~]]	+	[[Category: Carrondo MA]]
-	[[Category: Frazao, C]]	+	[[Category: Frazao C]]
-	[[Category: Romao~~, C V~~]]	+	[[Category: Romao CV]]
-	[[Category: Teixeira, M]]	+	[[Category: Teixeira M]]
-	[[Category: Vicente~~, J B]]~~	+	[[Category: Vicente JB]]
-	~~[[Category: Electron transport]]~~	+
-	~~[[Category: Fdp]]~~	+
-	~~[[Category: Flrd]]~~	+
-	~~[[Category: Nitric oxide]]~~	+
-	~~[[Category: Roo]]~~	+
-	~~[[Category: Rubredoxin~~]]	+

OCA at 09:54, 20 March 2019

OCA — Wed, 20 Mar 2019 09:54:31 GMT

←Older revision		Revision as of 09:54, 20 March 2019
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	==The crystallographic structure of Flavorubredoxin from Escherichia coli==		==The crystallographic structure of Flavorubredoxin from Escherichia coli==
-	<StructureSection load='4d02' size='340' side='right' caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='4d02' size='340' side='right'caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://pdbe.org/4d02 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 ProSAT]</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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://pdbe.org/4d02 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 ProSAT]</span></td></tr>
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Bandeiras, T]]		[[Category: Bandeiras, T]]
	[[Category: Carrondo, M A]]		[[Category: Carrondo, M A]]

OCA at 08:22, 9 March 2017

OCA — Thu, 09 Mar 2017 08:22:28 GMT

←Older revision		Revision as of 08:22, 9 March 2017
Line 11:		Line 11:
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
-	Flavodiiron proteins (FDPs) are ~~a family~~ of ~~enzymes endowed with bona fide oxygen-~~ and/or nitric oxide~~-reductase activity~~, ~~although their substrate specificity determinants remain elusive~~. ~~After a comprehensive comparison of available three-dimensional structures~~, ~~particularly~~ of ~~FDPs with~~ a clear preference ~~towards either O2 or~~ NO, ~~two main differences were identified near~~ the ~~diiron active site~~, ~~which led to~~ the ~~construction~~ of ~~site-directed mutants of Y271 and K53~~ in the ~~oxygen reducing Entamoeba histolytica EhFdp1. The biochemical and biophysical properties of these mutants were studied by UV~~-~~visible~~ and ~~electron paramagnetic resonance (EPR) spectroscopies coupled to potentiometry~~. ~~Their reactivity~~ with ~~O2 and NO was analyzed by stopped~~-~~flow absorption spectroscopy~~ and ~~amperometric methods~~. ~~These mutations~~, while ~~keeping~~ the ~~overall properties of~~ the ~~redox cofactors, resulted~~ in ~~increased NO reductase activity and faster inactivation~~ of the ~~enzyme in~~ the ~~reaction with O2~~, ~~pointing to a role of~~ the ~~mutated residues in substrate selectivity~~.	+	Flavodiiron proteins (FDPs) are present in organisms from all domains of life and have been described so far to be involved in the detoxification of oxygen or nitric oxide, acting as O2 and/or NO reductases. The Escherichia coli FDP, named flavorubredoxin (FlRd) is the most extensively studied FDP. Biochemical and in vivo studies revealed that FlRd is involved in NO detoxification, as part of the bacterial defense mechanisms against reactive nitrogen species. E. coli FlRd has a clear preference for NO as substrate in vitro, exhibiting a very low reactivity towards O2. To contribute to the understanding of the structural features defining this substrate selectivity, we determined the crystallographic structure of E. coli FlRd, both in the as-isolated and reduced states. The overall tetrameric structure revealed a highly conserved flavodiiron core domain, with a metallo-beta-lactamase-like domain containing a diiron center and a flavodoxin domain with a FMN cofactor. The metal center in the oxidized state has a mu-hydroxo bridge coordinating the two irons, while in the reduced state this moiety is not detected. Since only the flavodiiron domain was observed in these crystal structures, the structure of the rubredoxin domain was determined by NMR. Tunnels for the substrates were identified, and through Molecular Dynamics simulations no differences for O2 or NO permeation were found. The present data represents the first structure for a NO-selective FDP.

-	Flavodiiron ~~oxygen~~ reductase ~~from Entamoeba histolytica: Modulation of substrate preference by tyrosine 271 and lysine 53~~.,~~Goncalves VL~~, Vicente JB, ~~Pinto~~ L, ~~Romao CV~~, ~~Frazao C~~, ~~Sarti P~~, ~~Giuffre A~~, Teixeira M J Biol ~~Chem~~. ~~2014 Aug 23~~. pii: ~~jbc~~.~~M114~~.~~579086~~. PMID:~~25151360~~<ref>PMID:~~25151360~~</ref>	+	Structure of Escherichia coli Flavodiiron nitric oxide reductase.,Romao CV, Vicente JB, Borges PT, Victor BL, Lamosa P, Silva E, Pereira L, Bandeiras TM, Soares CM, Carrondo MA, Turner D, Teixeira M, Frazao C J Mol Biol. 2016 Oct 7. pii: S0022-2836(16)30423-5. doi:, 10.1016/j.jmb.2016.10.008. PMID:27725182<ref>PMID:27725182</ref>

	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>

OCA at 16:45, 5 August 2016

OCA — Fri, 05 Aug 2016 16:45:54 GMT

←Older revision		Revision as of 16:45, 5 August 2016
Line 1:		Line 1:
		+
	==The crystallographic structure of Flavorubredoxin from Escherichia coli==		==The crystallographic structure of Flavorubredoxin from Escherichia coli==
	<StructureSection load='4d02' size='340' side='right' caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='4d02' size='340' side='right' caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://pdbe.org/4d02 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4d02 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 4d02" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:24, 25 December 2014

OCA — Thu, 25 Dec 2014 20:24:03 GMT

←Older revision		Revision as of 20:24, 25 December 2014
Line 6:		Line 6:
	<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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NORV_ECOLI NORV_ECOLI]] Anaerobic nitric oxide reductase; uses NADH to detoxify nitric oxide (NO), protecting several 4Fe-4S NO-sensitive enzymes. Has at least 2 reductase partners, only one of which (NorW, flavorubredoxin reductase) has been identified. NO probably binds to the di-iron center; electrons enter from the reductase at rubredoxin and are transferred sequentially to the FMN center and the di-iron center. Also able to function as an aerobic oxygen reductase.<ref>PMID:11751865</ref> <ref>PMID:12101220</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bandeiras, T.]]	+	[[Category: Bandeiras, T]]
-	[[Category: Carrondo, M A.]]	+	[[Category: Carrondo, M A]]
-	[[Category: Frazao, C.]]	+	[[Category: Frazao, C]]
-	[[Category: Romao, C V.]]	+	[[Category: Romao, C V]]
-	[[Category: Teixeira, M.]]	+	[[Category: Teixeira, M]]
-	[[Category: Vicente, J B.]]	+	[[Category: Vicente, J B]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Fdp]]		[[Category: Fdp]]

OCA at 08:44, 22 October 2014

OCA — Wed, 22 Oct 2014 08:44:24 GMT

←Older revision		Revision as of 08:44, 22 October 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 05:53, 4 September 2014

OCA — Thu, 04 Sep 2014 05:53:19 GMT

←Older revision		Revision as of 05:53, 4 September 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==The crystallographic structure of Flavorubredoxin from Escherichia coli==
		+	<StructureSection load='4d02' size='340' side='right' caption='[[4d02]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4d02]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4D02 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4D02 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<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=4d02 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4d02 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4d02 RCSB], [http://www.ebi.ac.uk/pdbsum/4d02 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Flavodiiron proteins (FDPs) are a family of enzymes endowed with bona fide oxygen- and/or nitric oxide-reductase activity, although their substrate specificity determinants remain elusive. After a comprehensive comparison of available three-dimensional structures, particularly of FDPs with a clear preference towards either O2 or NO, two main differences were identified near the diiron active site, which led to the construction of site-directed mutants of Y271 and K53 in the oxygen reducing Entamoeba histolytica EhFdp1. The biochemical and biophysical properties of these mutants were studied by UV-visible and electron paramagnetic resonance (EPR) spectroscopies coupled to potentiometry. Their reactivity with O2 and NO was analyzed by stopped-flow absorption spectroscopy and amperometric methods. These mutations, while keeping the overall properties of the redox cofactors, resulted in increased NO reductase activity and faster inactivation of the enzyme in the reaction with O2, pointing to a role of the mutated residues in substrate selectivity.

-	~~The entry 4d02 is ON HOLD until Paper Publication~~	+	Flavodiiron oxygen reductase from Entamoeba histolytica: Modulation of substrate preference by tyrosine 271 and lysine 53.,Goncalves VL, Vicente JB, Pinto L, Romao CV, Frazao C, Sarti P, Giuffre A, Teixeira M J Biol Chem. 2014 Aug 23. pii: jbc.M114.579086. PMID:25151360<ref>PMID:25151360</ref>

-	~~Authors: Romao~~, C.V.~~, Vicente, J~~.~~B.,~~ Bandeiras, T., Carrondo, M.A., Teixeira, M., ~~Frazao, C~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~The crystallographic structure of Flavorubredoxin from Escherichia coli~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bandeiras, T.]]
		+	[[Category: Carrondo, M A.]]
		+	[[Category: Frazao, C.]]
		+	[[Category: Romao, C V.]]
		+	[[Category: Teixeira, M.]]
		+	[[Category: Vicente, J B.]]
		+	[[Category: Electron transport]]
		+	[[Category: Fdp]]
		+	[[Category: Flrd]]
		+	[[Category: Nitric oxide]]
		+	[[Category: Roo]]
		+	[[Category: Rubredoxin]]

OCA: Protected "4d02" [edit=sysop:move=sysop]

OCA — Wed, 30 Apr 2014 05:52:12 GMT

Protected "4d02" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:52, 30 April 2014

OCA: New page: '''Unreleased structure''' The entry 4d02 is ON HOLD until Paper Publication Authors: Romao, C.V., Vicente, J.B., Bandeiras, T., Carrondo, M.A., Teixeira, M., Frazao, C. Description: T...

OCA — Wed, 30 Apr 2014 05:52:10 GMT

New page: '''Unreleased structure''' The entry 4d02 is ON HOLD until Paper Publication Authors: Romao, C.V., Vicente, J.B., Bandeiras, T., Carrondo, M.A., Teixeira, M., Frazao, C. Description: T...

New page

'''Unreleased structure'''

The entry 4d02 is ON HOLD until Paper Publication

Authors: Romao, C.V., Vicente, J.B., Bandeiras, T., Carrondo, M.A., Teixeira, M., Frazao, C.

Description: The crystallographic structure of Flavorubredoxin from Escherichia coli