5jri - Revision history

OCA at 19:03, 20 September 2023

OCA — Wed, 20 Sep 2023 19:03:27 GMT

←Older revision		Revision as of 19:03, 20 September 2023
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	==Structure of an oxidoreductase SeMet-labelled from Synechocystis sp. PCC6803==		==Structure of an oxidoreductase SeMet-labelled from Synechocystis sp. PCC6803==
-	<StructureSection load='5jri' size='340' side='right' caption='[[5jri]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='5jri' size='340' side='right'caption='[[5jri]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jri]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aphanocapsa_sp~~.~~_(strain_n-1) Aphanocapsa~~ sp. ~~(strain n-1)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JRI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jri]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803 Synechocystis sp. PCC 6803]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JRI FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=EDO:1,2-ETHANEDIOL'~~>~~EDO</scene>, <scene name='pdbligand=FAD:FLAVIN~~-~~ADENINE+DINUCLEOTIDE'>FAD</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]] 1.952Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">AOY38_16435 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])~~</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=5jri FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jri OCA], [https://pdbe.org/5jri PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jri RCSB], [https://www.ebi.ac.uk/pdbsum/5jri PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jri 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=5jri FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jri OCA], [~~http~~://pdbe.org/5jri PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jri RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jri PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jri ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/P74746_SYNY3 P74746_SYNY3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Balsera, M~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Buey, R M~~]]	+	[[Category: Synechocystis sp. PCC 6803]]
-	[[Category: ~~Pereda, J~~ M~~.de~~]]	+	[[Category: Balsera M]]
-	[[Category: ~~Oxidoreductase~~]]	+	[[Category: Buey RM]]
		+	[[Category: De Pereda JM]]

OCA at 10:04, 22 November 2017

OCA — Wed, 22 Nov 2017 10:04:00 GMT

←Older revision		Revision as of 10:04, 22 November 2017
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	<StructureSection load='5jri' size='340' side='right' caption='[[5jri]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='5jri' size='340' side='right' caption='[[5jri]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jri]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JRI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jri]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JRI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</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"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AOY38_16435 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</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=5jri FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jri OCA], [http://pdbe.org/5jri PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jri RCSB], [http://www.ebi.ac.uk/pdbsum/5jri PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jri 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=5jri FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jri OCA], [http://pdbe.org/5jri PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jri RCSB], [http://www.ebi.ac.uk/pdbsum/5jri PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jri ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Flavoproteins participate in a wide variety of physiologically relevant processes that typically involve redox reactions. Within this protein superfamily, there exists a group that is able to transfer reducing equivalents from FAD to a redox-active disulfide bridge, which further reduces disulfide bridges in target proteins to regulate their structure and function. We have identified a previously undescribed type of flavin enzyme that is exclusive to oxygenic photosynthetic prokaryotes and that is based on the primary sequence that had been assigned as an NADPH-dependent thioredoxin reductase (NTR). However, our experimental data show that the protein does not transfer reducing equivalents from flavins to disulfides as in NTRs but functions in the opposite direction. High-resolution structures of the protein from Gloeobacter violaceus and Synechocystis sp. PCC6803 obtained by X-ray crystallography showed two juxtaposed FAD molecules per monomer in redox communication with an active disulfide bridge in a variant of the fold adopted by NTRs. We have tentatively named the flavoprotein "DDOR" (diflavin-linked disulfide oxidoreductase) and propose that its activity is linked to a thiol-based transfer of reducing equivalents in bacterial membranes. These findings expand the structural and mechanistic repertoire of flavoenzymes with oxidoreductase activity and pave the way to explore new protein engineering approaches aimed at designing redox-active proteins for diverse biotechnological applications.
		+
		+	Unprecedented pathway of reducing equivalents in a diflavin-linked disulfide oxidoreductase.,Buey RM, Arellano JB, Lopez-Maury L, Galindo-Trigo S, Velazquez-Campoy A, Revuelta JL, de Pereda JM, Florencio FJ, Schurmann P, Buchanan BB, Balsera M Proc Natl Acad Sci U S A. 2017 Nov 13. pii: 201713698. doi:, 10.1073/pnas.1713698114. PMID:29133410<ref>PMID:29133410</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5jri" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:23, 15 November 2017

OCA — Wed, 15 Nov 2017 07:23:47 GMT

←Older revision		Revision as of 07:23, 15 November 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5jri is ~~ON HOLD until Paper Publication~~	+	==Structure of an oxidoreductase SeMet-labelled from Synechocystis sp. PCC6803==
-		+	<StructureSection load='5jri' size='340' side='right' caption='[[5jri]], [[Resolution\|resolution]] 1.95Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5jri]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JRI FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=5jri FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jri OCA], [http://pdbe.org/5jri PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jri RCSB], [http://www.ebi.ac.uk/pdbsum/5jri PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jri ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Balsera, M]]
		+	[[Category: Buey, R M]]
		+	[[Category: Pereda, J M.de]]
		+	[[Category: Oxidoreductase]]

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

OCA — Wed, 01 Jun 2016 13:44:09 GMT

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

←Older revision

Revision as of 13:44, 1 June 2016

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

OCA — Wed, 01 Jun 2016 13:44:08 GMT

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

New page

'''Unreleased structure'''

The entry 5jri is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]