5j62 - Revision history

OCA at 10:50, 6 September 2023

OCA — Wed, 06 Sep 2023 10:50:30 GMT

←Older revision		Revision as of 10:50, 6 September 2023
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	==FMN-dependent Nitroreductase (CDR20291_0684) from Clostridium difficile R20291==		==FMN-dependent Nitroreductase (CDR20291_0684) from Clostridium difficile R20291==
-	<StructureSection load='5j62' size='340' side='right' caption='[[5j62]], [[Resolution\|resolution]] 2.15Å' scene=''>	+	<StructureSection load='5j62' size='340' side='right'caption='[[5j62]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5j62]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Clostridioides_difficile_r20291~~ Clostridioides difficile ~~r20291~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J62 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5J62 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5j62]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridioides_difficile_R20291 Clostridioides difficile R20291]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J62 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5J62 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene~~>, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.15Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5j6c\|5j6c]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">CDR20291_0684 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=645463 Clostridioides difficile R20291])~~</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=5j62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j62 OCA], [https://pdbe.org/5j62 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5j62 RCSB], [https://www.ebi.ac.uk/pdbsum/5j62 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5j62 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=5j62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j62 OCA], [~~http~~://pdbe.org/5j62 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5j62 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5j62 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5j62 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: Clostridioides difficile ~~r20291~~]]	+	[[Category: Clostridioides difficile R20291]]
-	[[Category: Hessami, N]]	+	[[Category: Large Structures]]
-	[[Category: Karr~~, E A~~]]	+	[[Category: Hessami N]]
-	[[Category: Najar~~, F Z~~]]	+	[[Category: Karr EA]]
-	[[Category: Powell~~, S M~~]]	+	[[Category: Najar FZ]]
-	[[Category: Richter-Addo~~, G B~~]]	+	[[Category: Powell SM]]
-	[[Category: Thomas~~, L M~~]]	+	[[Category: Richter-Addo GB]]
-	[[Category: Wang, B]]	+	[[Category: Thomas LM]]
-	[[Category: West~~, A H]]~~	+	[[Category: Wang B]]
-	~~[[Category: Clostridium difficile]]~~	+	[[Category: West AH]]
-	~~[[Category: Hypervirulent]]~~	+
-	~~[[Category: Metronidazole resistance]]~~	+
-	~~[[Category: Nitroreductase]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: R20291~~]]	+

OCA at 10:03, 22 November 2017

OCA — Wed, 22 Nov 2017 10:03:03 GMT

←Older revision		Revision as of 10:03, 22 November 2017
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	<StructureSection load='5j62' size='340' side='right' caption='[[5j62]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='5j62' size='340' side='right' caption='[[5j62]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5j62]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J62 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5J62 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5j62]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridioides_difficile_r20291 Clostridioides difficile r20291]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J62 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5J62 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5j6c\|5j6c]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5j6c\|5j6c]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDR20291_0684 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=645463 Clostridioides difficile R20291])</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=5j62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j62 OCA], [http://pdbe.org/5j62 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j62 RCSB], [http://www.ebi.ac.uk/pdbsum/5j62 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j62 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=5j62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j62 OCA], [http://pdbe.org/5j62 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j62 RCSB], [http://www.ebi.ac.uk/pdbsum/5j62 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j62 ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Clostridioides difficile r20291]]
	[[Category: Hessami, N]]		[[Category: Hessami, N]]
	[[Category: Karr, E A]]		[[Category: Karr, E A]]

OCA at 13:53, 21 September 2016

OCA — Wed, 21 Sep 2016 13:53:23 GMT

←Older revision		Revision as of 13:53, 21 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5j62 is ~~ON HOLD until Paper~~ Publication	+	==FMN-dependent Nitroreductase (CDR20291_0684) from Clostridium difficile R20291==
		+	<StructureSection load='5j62' size='340' side='right' caption='[[5j62]], [[Resolution\|resolution]] 2.15Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5j62]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J62 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5J62 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5j6c\|5j6c]]</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=5j62 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j62 OCA], [http://pdbe.org/5j62 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j62 RCSB], [http://www.ebi.ac.uk/pdbsum/5j62 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j62 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Nitroreductases (NRs) are flavin mononucleotide (FMN)-dependent enzymes that catalyze the biotransformation of organic nitro compounds (RNO2; R = alkyl, aryl) to the nitroso RN = O, hydroxylamino RNHOH, or amine RNH2 derivatives. Metronidazole (Mtz) is a nitro-containing antibiotic that is commonly prescribed for lower-gut infections caused by the anaerobic bacterium Clostridium difficile. C. difficile infections rank number one among hospital acquired infections, and can result in diarrhea, severe colitis, or even death. Although NRs have been implicated in Mtz resistance of C. difficile, no NRs have been characterized from the hypervirulent R20291 strain of C. difficile. We report the first expression, purification, and three-dimensional X-ray crystal structures of two NRs from the C. difficile R20291 strain. The X-ray crystal structures of the two NRs were solved to 2.1 A resolution. Their homodimeric structures exhibit the classic NR alpha+beta fold, with each protomer binding one FMN cofactor near the dimer interface. Functional assays demonstrate that these two NRs metabolize Mtz with associated re-oxidation of the proteins. Importantly, these results represent the first isolation and characterization of NRs from the hypervirulent R20291 strain of relevance to organic RNO2 (e.g., Mtz) metabolism.

-	~~Authors~~:	+	Crystal structures of two nitroreductases from hypervirulent Clostridium difficile and functionally related interactions with the antibiotic metronidazole.,Wang B, Powell SM, Hessami N, Najar FZ, Thomas LM, Karr EA, West AH, Richter-Addo GB Nitric Oxide. 2016 Sep 10. pii: S1089-8603(16)30090-8. doi:, 10.1016/j.niox.2016.09.003. PMID:27623089<ref>PMID:27623089</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5j62" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Hessami, N]]
		+	[[Category: Karr, E A]]
		+	[[Category: Najar, F Z]]
		+	[[Category: Powell, S M]]
		+	[[Category: Richter-Addo, G B]]
		+	[[Category: Thomas, L M]]
		+	[[Category: Wang, B]]
		+	[[Category: West, A H]]
		+	[[Category: Clostridium difficile]]
		+	[[Category: Hypervirulent]]
		+	[[Category: Metronidazole resistance]]
		+	[[Category: Nitroreductase]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: R20291]]

OCA at 08:01, 14 July 2016

OCA — Thu, 14 Jul 2016 08:01:47 GMT

←Older revision		Revision as of 08:01, 14 July 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5j62 is ON HOLD	+	The entry 5j62 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 23:05, 12 July 2016

OCA — Tue, 12 Jul 2016 23:05:29 GMT

←Older revision		Revision as of 23:05, 12 July 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5j62 is ON HOLD ~~until Paper Publication~~	+	The entry 5j62 is ON HOLD

	Authors:		Authors:

OCA at 15:05, 15 May 2016

OCA — Sun, 15 May 2016 15:05:40 GMT

←Older revision		Revision as of 15:05, 15 May 2016
Line 3:		Line 3:
	The entry 5j62 is ON HOLD until Paper Publication		The entry 5j62 is ON HOLD until Paper Publication

-	Authors: ~~Wang, B., Powell, S.M., Hessami, N., Najar, F.Z., Thomas, L.M., West, A.H., Karr, E.A., Richter-Addo, G.B.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Karr, E.A]]
-	[[Category: Hessami, N]]
-	[[Category: Richter-Addo, G.B]]
-	[[Category: Thomas, L.M]]
-	[[Category: West, A.H]]
-	[[Category: Wang, B]]
-	[[Category: Najar, F.Z]]
-	[[Category: Powell, S.M]]

OCA: Protected "5j62" [edit=sysop:move=sysop]

OCA — Wed, 11 May 2016 01:31:57 GMT

Protected "5j62" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:31, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5j62 is ON HOLD until Paper Publication Authors: Wang, B., Powell, S.M., Hessami, N., Najar, F.Z., Thomas, L.M., West, A.H., Karr, E.A., Richter-Add...

OCA — Wed, 11 May 2016 01:31:56 GMT

New page: '''Unreleased structure''' The entry 5j62 is ON HOLD until Paper Publication Authors: Wang, B., Powell, S.M., Hessami, N., Najar, F.Z., Thomas, L.M., West, A.H., Karr, E.A., Richter-Add...

New page

'''Unreleased structure'''

The entry 5j62 is ON HOLD until Paper Publication

Authors: Wang, B., Powell, S.M., Hessami, N., Najar, F.Z., Thomas, L.M., West, A.H., Karr, E.A., Richter-Addo, G.B.

Description:
[[Category: Unreleased Structures]]
[[Category: Karr, E.A]]
[[Category: Hessami, N]]
[[Category: Richter-Addo, G.B]]
[[Category: Thomas, L.M]]
[[Category: West, A.H]]
[[Category: Wang, B]]
[[Category: Najar, F.Z]]
[[Category: Powell, S.M]]