4n82 - Revision history

OCA at 16:49, 20 September 2023

2023-09-20T16:49:13Z

←Older revision		Revision as of 16:49, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4n82]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_sanguinis_SK36 Streptococcus sanguinis SK36]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N82 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4n82]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_sanguinis_SK36 Streptococcus sanguinis SK36]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N82 FirstGlance]. <br>
-	</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=SO4:SULFATE+ION'>SO4</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]] 1.88Å</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=SO4:SULFATE+ION'>SO4</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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [https://pdbe.org/4n82 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [https://www.ebi.ac.uk/pdbsum/4n82 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n82 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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [https://pdbe.org/4n82 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [https://www.ebi.ac.uk/pdbsum/4n82 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n82 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:14, 11 January 2023

2023-01-11T08:14:01Z

←Older revision		Revision as of 08:14, 11 January 2023
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	==X-ray crystal structure of Streptococcus sanguinis NrdIox==		==X-ray crystal structure of Streptococcus sanguinis NrdIox==
-	<StructureSection load='4n82' size='340' side='right' caption='[[4n82]], [[Resolution\|resolution]] 1.88Å' scene=''>	+	<StructureSection load='4n82' size='340' side='right'caption='[[4n82]], [[Resolution\|resolution]] 1.88Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4n82]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Strsv Strsv~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4N82 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4n82]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_sanguinis_SK36 Streptococcus sanguinis SK36]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N82 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=SO4:SULFATE+ION'>SO4</scene>~~</td></tr>~~	+	</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4n83\|4n83]]</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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [https://pdbe.org/4n82 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [https://www.ebi.ac.uk/pdbsum/4n82 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n82 ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrdI, SSA_2263 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=388919 STRSV])~~</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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [~~http~~://pdbe.org/4n82 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4n82 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4n82 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A3CR20_STRSV A3CR20_STRSV]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 4n82" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4n82" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ribonucleotide reductase 3D structures\|Ribonucleotide reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Strsv~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Boal, A K~~]]	+	[[Category: Streptococcus sanguinis SK36]]
-	[[Category: ~~Rosenzweig, A C~~]]	+	[[Category: Boal AK]]
-	[[Category: ~~Flavin mononucleotide]]~~	+	[[Category: Rosenzweig AC]]
-	~~[[Category: Flavoprotein]]~~	+
-	~~[[Category: Oxidation-reduction]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Ribonucleotide reductase~~]]	+

OCA at 10:02, 15 November 2017

2017-11-15T10:02:56Z

←Older revision		Revision as of 10:02, 15 November 2017
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	</div>		</div>
	<div class="pdbe-citations 4n82" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4n82" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Ribonucleotide reductase\|Ribonucleotide reductase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:15, 11 August 2016

2016-08-11T17:15:06Z

←Older revision		Revision as of 17:15, 11 August 2016
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		+
	==X-ray crystal structure of Streptococcus sanguinis NrdIox==		==X-ray crystal structure of Streptococcus sanguinis NrdIox==
	<StructureSection load='4n82' size='340' side='right' caption='[[4n82]], [[Resolution\|resolution]] 1.88Å' scene=''>		<StructureSection load='4n82' size='340' side='right' caption='[[4n82]], [[Resolution\|resolution]] 1.88Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4n83\|4n83]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4n83\|4n83]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrdI, SSA_2263 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=388919 STRSV])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrdI, SSA_2263 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=388919 STRSV])</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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [http://www.ebi.ac.uk/pdbsum/4n82 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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [http://pdbe.org/4n82 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [http://www.ebi.ac.uk/pdbsum/4n82 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4n82 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 4n82" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 09:35, 5 January 2015

2015-01-05T09:35:32Z

←Older revision		Revision as of 09:35, 5 January 2015
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-	~~{{STRUCTURE_4n82\| PDB=4n82 \| SCENE= }}~~	+	==X-ray crystal structure of Streptococcus sanguinis NrdIox==
-	===X-ray crystal structure of Streptococcus sanguinis NrdIox===	+	<StructureSection load='4n82' size='340' side='right' caption='[[4n82]], [[Resolution\|resolution]] 1.88Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24381172}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4n82]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Strsv Strsv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N82 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=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4n83\|4n83]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrdI, SSA_2263 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=388919 STRSV])</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=4n82 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n82 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4n82 RCSB], [http://www.ebi.ac.uk/pdbsum/4n82 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Streptococcus sanguinis is a causative agent of infective endocarditis. Deletion of SsaB, a manganese transporter, drastically reduces S. sanguinis virulence. Many pathogenic organisms require class Ib RNR5 to catalyze the conversion of nucleotides to deoxynucleotides under aerobic conditions and recent studies demonstrate that this enzyme uses a dimanganese-tyrosyl radical (MnIII2-Y) cofactor in vivo. The proteins required for S. sanguinis ribonucleotide reduction (NrdE and NrdF, alpha and beta subunits of RNR; NrdH and TrxR, a glutaredoxin-like thioredoxin and a thioredoxin reductase; and NrdI, a flavodoxin essential for assembly of RNRs metallo-cofactor) have been identified and characterized. Apo-NrdF with FeII and O2 can self-assemble a diferric-tyrosyl radical (FeIII2-Y) cofactor (1.2 Y/beta2) and with the help of NrdI, can assemble a MnIII2-Y cofactor (0.9 Y*/beta2). The activity of RNR with its endogenous reductants, NrdH and TrxR, is 5,000 and 1,500 U/mg for the Mn- and Fe-NrdFs respectively. X-ray structures of S. sanguinis NrdIox and MnII2-NrdF are reported and provide a possible rationale for the weak affinity (2.9 muM) between them. These streptococcal proteins form a structurally distinct subclass relative to other Ib proteins with unique features likely important in cluster assembly including a long and negatively charged loop near the NrdI flavin and a bulky residue (Thr) at a constriction in the oxidant channel to the NrdI interface. These studies set the stage for identifying the active form of S. sanguinis class Ib RNR in an animal model for infective endocarditis and establishing whether the Mn requirement for pathogenesis is associated with RNR.

-	~~==About this Structure==~~	+	Streptococcus sanguinis Class Ib Ribonucleotide Reductase: High Activity with Both Iron and Manganese Cofactors and Structural Insights.,Makhlynets O, Boal AK, Rhodes DV, Kitten T, Rosenzweig AC, Stubbe J J Biol Chem. 2013 Dec 31. PMID:24381172<ref>PMID:24381172</ref>
-	~~[[4n82]] is a 2 chain structure. Full crystallographic information is available from [http~~:~~//oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4N82 OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:024381172</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: Boal, A K.]]	+
-	[[Category: Rosenzweig, A C.]]	+	==See Also==
		+	*[[Ribonucleotide reductase\|Ribonucleotide reductase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Strsv]]
		+	[[Category: Boal, A K]]
		+	[[Category: Rosenzweig, A C]]
	[[Category: Flavin mononucleotide]]		[[Category: Flavin mononucleotide]]
	[[Category: Flavoprotein]]		[[Category: Flavoprotein]]

OCA at 14:27, 3 March 2014

2014-03-03T14:27:59Z

←Older revision		Revision as of 14:27, 3 March 2014
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	{{STRUCTURE_4n82\| PDB=4n82 \| SCENE= }}		{{STRUCTURE_4n82\| PDB=4n82 \| SCENE= }}
	===X-ray crystal structure of Streptococcus sanguinis NrdIox===		===X-ray crystal structure of Streptococcus sanguinis NrdIox===
		+	{{ABSTRACT_PUBMED_24381172}}

	==About this Structure==		==About this Structure==
	[[4n82]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA].		[[4n82]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:024381172</ref><references group="xtra"/><references/>
	[[Category: Boal, A K.]]		[[Category: Boal, A K.]]
	[[Category: Rosenzweig, A C.]]		[[Category: Rosenzweig, A C.]]

OCA at 10:38, 8 January 2014

2014-01-08T10:38:51Z

←Older revision		Revision as of 10:38, 8 January 2014
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4n82\| PDB=4n82 \| SCENE= }}
		+	===X-ray crystal structure of Streptococcus sanguinis NrdIox===

-	~~The entry~~ 4n82 is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4n82]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4N82 OCA].
-	~~Authors~~: Boal, A.K., Rosenzweig, A.C.	+	[[Category: Boal, A K.]]
-		+	[[Category: Rosenzweig, A C.]]
-	~~Description~~: X-~~ray crystal structure of Streptococcus sanguinis NrdIox~~	+	[[Category: Flavin mononucleotide]]
		+	[[Category: Flavoprotein]]
		+	[[Category: Oxidation-reduction]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Ribonucleotide reductase]]

OCA at 12:55, 20 November 2013

2013-11-20T12:55:49Z

←Older revision		Revision as of 12:55, 20 November 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4n82 is ON HOLD	+	The entry 4n82 is ON HOLD until Paper Publication

	Authors: Boal, A.K., Rosenzweig, A.C.		Authors: Boal, A.K., Rosenzweig, A.C.

	Description: X-ray crystal structure of Streptococcus sanguinis NrdIox		Description: X-ray crystal structure of Streptococcus sanguinis NrdIox

OCA: Protected "4n82" [edit=sysop:move=sysop]

2013-10-23T06:18:00Z

Protected "4n82" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:18, 23 October 2013

OCA: New page: '''Unreleased structure''' The entry 4n82 is ON HOLD Authors: Boal, A.K., Rosenzweig, A.C. Description: X-ray crystal structure of Streptococcus sanguinis NrdIox

2013-10-23T06:17:59Z

New page: '''Unreleased structure''' The entry 4n82 is ON HOLD Authors: Boal, A.K., Rosenzweig, A.C. Description: X-ray crystal structure of Streptococcus sanguinis NrdIox

New page

'''Unreleased structure'''

The entry 4n82 is ON HOLD

Authors: Boal, A.K., Rosenzweig, A.C.

Description: X-ray crystal structure of Streptococcus sanguinis NrdIox