5kow - Revision history

OCA at 10:50, 27 September 2023

OCA — Wed, 27 Sep 2023 10:50:18 GMT

←Older revision		Revision as of 10:50, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5kow' size='340' side='right'caption='[[5kow]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5kow' size='340' side='right'caption='[[5kow]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kow]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"actinomyces_bovis_farcinicus"_gasperini_1894 "actinomyces bovis farcinicus" gasperini 1894~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KOW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KOW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kow]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Nocardia_farcinica Nocardia farcinica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KOW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KOW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <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]] 2.1Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Related_structure~~\|~~Related:]]</b></td><td class="sblockDat">[[5kox\|5kox~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <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"~~>pcpB_1, ERS450000_00511 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~37329~~ "~~Actinomyces bovis farcinicus~~" ~~Gasperini 1894])</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=5kow FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kow OCA], [https://pdbe.org/5kow PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kow RCSB], [https://www.ebi.ac.uk/pdbsum/5kow PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kow ProSAT]</span></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Pentachlorophenol_monooxygenase Pentachlorophenol monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.13.50 1.14.13.50]~~ </~~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=5kow FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kow OCA], [~~http~~://pdbe.org/5kow PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kow RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kow PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kow ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ROX_NOCFA ROX_NOCFA] Monooxygenase that can modify rifampicin, thereby inactivating its antibiotic activity (PubMed:19942945, PubMed:29578336). It constitutes a secondary rifampicin resistance factor (PubMed:19942945).<ref>PMID:19942945</ref> <ref>PMID:29578336</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Actinomyces bovis farcinicus gasperini 1894]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Pentachlorophenol monooxygenase~~]]	+	[[Category: Nocardia farcinica]]
-	[[Category: Liu, L K]]	+	[[Category: Liu L-K]]
-	[[Category: Tanner~~, J J]]~~	+	[[Category: Tanner JJ]]
-	~~[[Category: Flavoprotein]]~~	+
-	~~[[Category: Monooxygenase]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:45, 27 November 2019

OCA — Wed, 27 Nov 2019 07:45:25 GMT

←Older revision		Revision as of 07:45, 27 November 2019
Line 1:		Line 1:

	==Structure of rifampicin monooxygenase==		==Structure of rifampicin monooxygenase==
-	<StructureSection load='5kow' size='340' side='right' caption='[[5kow]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5kow' size='340' side='right'caption='[[5kow]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kow]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KOW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KOW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kow]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_bovis_farcinicus"_gasperini_1894 "actinomyces bovis farcinicus" gasperini 1894]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KOW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KOW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <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">[[5kox\|5kox]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kox\|5kox]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pcpB_1, ERS450000_00511 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37329 "Actinomyces bovis farcinicus" Gasperini 1894])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pentachlorophenol_monooxygenase Pentachlorophenol monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.13.50 1.14.13.50] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pentachlorophenol_monooxygenase Pentachlorophenol monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.13.50 1.14.13.50] </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=5kow FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kow OCA], [http://pdbe.org/5kow PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kow RCSB], [http://www.ebi.ac.uk/pdbsum/5kow PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kow 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=5kow FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kow OCA], [http://pdbe.org/5kow PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kow RCSB], [http://www.ebi.ac.uk/pdbsum/5kow PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kow ProSAT]</span></td></tr>
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5kow" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5kow" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Monooxygenase 3D structures\|Monooxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Actinomyces bovis farcinicus gasperini 1894]]
		+	[[Category: Large Structures]]
	[[Category: Pentachlorophenol monooxygenase]]		[[Category: Pentachlorophenol monooxygenase]]
	[[Category: Liu, L K]]		[[Category: Liu, L K]]

OCA at 21:11, 10 September 2016

OCA — Sat, 10 Sep 2016 21:11:48 GMT

←Older revision		Revision as of 21:11, 10 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5kow is ~~ON HOLD until Paper~~ Publication	+	==Structure of rifampicin monooxygenase==
		+	<StructureSection load='5kow' size='340' side='right' caption='[[5kow]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kow]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KOW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KOW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <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">[[5kox\|5kox]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pentachlorophenol_monooxygenase Pentachlorophenol monooxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.13.50 1.14.13.50] </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=5kow FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kow OCA], [http://pdbe.org/5kow PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kow RCSB], [http://www.ebi.ac.uk/pdbsum/5kow PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kow ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rifampicin monooxygenase (RIFMO) catalyzes the N-hydroxylation of the natural product antibiotic rifampicin (RIF) to 2'-N-hydroxy-4-oxo-rifampicin, a metabolite with much lower antimicrobial activity. RIFMO shares moderate sequence similarity with well-characterized flavoprotein monooxygenases, but the protein has not been isolated and characterized at the molecular level. Herein, we report crystal structures of RIFMO from Nocardia farcinica, the determination of the oligomeric state in solution with small-angle X-ray scattering, and the spectrophotometric characterization of substrate binding. The structure identifies RIFMO as a class A flavoprotein monooxygenase and is similar in fold and quaternary structure to MtmOIV and OxyS, which are enzymes in the mithramycin and oxytetracycline biosynthetic pathways, respectively. RIFMO is distinguished from other class A flavoprotein monooxygenases by its unique middle domain, which is involved in binding RIF. Small-angle X-ray scattering analysis shows that RIFMO dimerizes via the FAD-binding domain to form a bell-shaped homodimer in solution with a maximal dimension of 110 A. RIF binding was monitored using absorbance at 525 nm to determine a dissociation constant of 13 muM. Steady-state oxygen consumption assays show that NADPH efficiently reduces the FAD only when RIF is present, implying that RIF binds before NADPH in the catalytic scheme. The 1.8 A resolution structure of RIFMO complexed with RIF represents the pre-catalytic conformation that occurs prior to formation of the ternary E-RIF-NADPH complex. The RIF naphthoquinone blocks access to the FAD N5 atom, implying that large conformational changes are required for NADPH to reduce the FAD. A model for these conformational changes is proposed.

-	~~Authors~~:	+	The Structure of the Antibiotic Deactivating, N-hydroxylating Rifampicin Monooxygenase.,Liu LK, Abdelwahab H, Martin Del Campo JS, Mehra-Chaudhary R, Sobrado P, Tanner JJ J Biol Chem. 2016 Aug 24. pii: jbc.M116.745315. PMID:27557658<ref>PMID:27557658</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5kow" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Pentachlorophenol monooxygenase]]
		+	[[Category: Liu, L K]]
		+	[[Category: Tanner, J J]]
		+	[[Category: Flavoprotein]]
		+	[[Category: Monooxygenase]]
		+	[[Category: Oxidoreductase]]

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

OCA — Thu, 14 Jul 2016 09:31:12 GMT

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

←Older revision

Revision as of 09:31, 14 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kow is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Thu, 14 Jul 2016 09:31:11 GMT

New page: '''Unreleased structure''' The entry 5kow is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5kow is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]