4kuk - Revision history

OCA at 16:05, 20 September 2023

OCA — Wed, 20 Sep 2023 16:05:35 GMT

←Older revision		Revision as of 16:05, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dinoroseobacter_shibae_DFL_12_=_DSM_16493 Dinoroseobacter shibae DFL 12 = DSM 16493]. The March 2015 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KUK FirstGlance]. <br>		<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dinoroseobacter_shibae_DFL_12_=_DSM_16493 Dinoroseobacter shibae DFL 12 = DSM 16493]. The March 2015 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KUK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</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]] 1.5Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [https://pdbe.org/4kuk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [https://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk 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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [https://pdbe.org/4kuk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [https://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk ProSAT]</span></td></tr>
	</table>		</table>

OCA at 09:14, 7 December 2022

OCA — Wed, 07 Dec 2022 09:14:32 GMT

←Older revision		Revision as of 09:14, 7 December 2022
Line 3:		Line 3:
	<StructureSection load='4kuk' size='340' side='right'caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4kuk' size='340' side='right'caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Dinsh Dinsh~~]. The March 2015 RCSB PDB [~~http~~://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [~~http~~://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dinoroseobacter_shibae_DFL_12_=_DSM_16493 Dinoroseobacter shibae DFL 12 = DSM 16493]. The March 2015 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KUK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, ~~<scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [https://pdbe.org/4kuk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [https://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk ProSAT]</span></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[4kuo\|4kuo]]</td></tr>~~	+
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">Dshi_2006 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=398580 DINSH])~~</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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [~~http~~://pdbe.org/4kuk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8LP63_DINSH A8LP63_DINSH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dinsh~~]]	+	[[Category: Dinoroseobacter shibae DFL 12 = DSM 16493]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Phototropin]]		[[Category: Phototropin]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
-	[[Category: Batra-Safferling, R]]	+	[[Category: Batra-Safferling R]]
-	[[Category: Circolone, F]]	+	[[Category: Circolone F]]
-	[[Category: Drepper, T]]	+	[[Category: Drepper T]]
-	[[Category: Endres, S]]	+	[[Category: Endres S]]
-	[[Category: Granzin, J]]	+	[[Category: Granzin J]]
-	[[Category: Jaeger, K E]]	+	[[Category: Jaeger K-E]]
-	[[Category: Knieps-Gruenhagen, E]]	+	[[Category: Knieps-Gruenhagen E]]
-	[[Category: Krauss, U]]	+	[[Category: Krauss U]]
-	[[Category: Stadler, A]]	+	[[Category: Stadler A]]
-	[[Category: Willbold, D]]	+	[[Category: Willbold D]]
-	[[Category: Wirtz, A]]	+	[[Category: Wirtz A]]
-	~~[[Category: Fmn binding]]~~	+
-	~~[[Category: Light-oxygen-voltage]]~~	+
-	~~[[Category: Lov]]~~	+
-	~~[[Category: Pas domain]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 09:09, 3 April 2019

OCA — Wed, 03 Apr 2019 09:09:22 GMT

←Older revision		Revision as of 09:09, 3 April 2019
Line 1:		Line 1:

	==A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)==		==A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)==
-	<StructureSection load='4kuk' size='340' side='right' caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='4kuk' size='340' side='right'caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure. The March 2015 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dinsh Dinsh]. The March 2015 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KUK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kuo\|4kuo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kuo\|4kuo]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dshi_2006 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=398580 DINSH])</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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://pdbe.org/4kuk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk 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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://pdbe.org/4kuk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Dinsh]]
		+	[[Category: Large Structures]]
	[[Category: Phototropin]]		[[Category: Phototropin]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]

OCA at 18:52, 1 February 2017

OCA — Wed, 01 Feb 2017 18:52:37 GMT

←Older revision		Revision as of 18:52, 1 February 2017
Line 1:		Line 1:
		+
	==A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)==		==A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)==
	<StructureSection load='4kuk' size='340' side='right' caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4kuk' size='340' side='right' caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kuo\|4kuo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kuo\|4kuo]]</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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk 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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://pdbe.org/4kuk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kuk 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 4kuk" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:49, 30 April 2015

OCA — Thu, 30 Apr 2015 05:49:56 GMT

←Older revision		Revision as of 05:49, 30 April 2015
Line 12:		Line 12:
	BACKGROUND: Light, oxygen, voltage (LOV) domains are widely distributed in plants, algae, fungi, bacteria, and represent the photo-responsive domains of various blue-light photoreceptor proteins. Their photocycle involves the blue-light triggered adduct formation between the C(4a) atom of a non-covalently bound flavin chromophore and the sulfur atom of a conserved cysteine in the LOV sensor domain. LOV proteins show considerable variation in the structure of N- and C-terminal elements which flank the LOV core domain, as well as in the lifetime of the adduct state. RESULTS: Here, we report the photochemical, structural and functional characterization of DsLOV, a LOV protein from the photoheterotrophic marine alpha-proteobacterium Dinoroseobacter shibae which exhibits an average adduct state lifetime of 9.6 s at 20 degrees C, and thus represents the fastest reverting bacterial LOV protein reported so far. Mutational analysis in D. shibae revealed a unique role of DsLOV in controlling the induction of photopigment synthesis in the absence of blue-light. The dark state crystal structure of DsLOV determined at 1.5 A resolution reveals a conserved core domain with an extended N-terminal cap. The dimer interface in the crystal structure forms a unique network of hydrogen bonds involving residues of the N-terminus and the beta-scaffold of the core domain. The structure of photoexcited DsLOV suggests increased flexibility in the N-cap region and a significant shift in the Calpha backbone of beta strands in the N- and C-terminal ends of the LOV core domain. CONCLUSIONS: The results presented here cover the characterization of the unusual short LOV protein DsLOV from Dinoroseobacter shibae including its regulatory function, extremely fast dark recovery and an N-terminus mediated dimer interface. Due to its unique photophysical, structural and regulatory properties, DsLOV might thus serve as an alternative model system for studying light perception by LOV proteins and physiological responses in bacteria.		BACKGROUND: Light, oxygen, voltage (LOV) domains are widely distributed in plants, algae, fungi, bacteria, and represent the photo-responsive domains of various blue-light photoreceptor proteins. Their photocycle involves the blue-light triggered adduct formation between the C(4a) atom of a non-covalently bound flavin chromophore and the sulfur atom of a conserved cysteine in the LOV sensor domain. LOV proteins show considerable variation in the structure of N- and C-terminal elements which flank the LOV core domain, as well as in the lifetime of the adduct state. RESULTS: Here, we report the photochemical, structural and functional characterization of DsLOV, a LOV protein from the photoheterotrophic marine alpha-proteobacterium Dinoroseobacter shibae which exhibits an average adduct state lifetime of 9.6 s at 20 degrees C, and thus represents the fastest reverting bacterial LOV protein reported so far. Mutational analysis in D. shibae revealed a unique role of DsLOV in controlling the induction of photopigment synthesis in the absence of blue-light. The dark state crystal structure of DsLOV determined at 1.5 A resolution reveals a conserved core domain with an extended N-terminal cap. The dimer interface in the crystal structure forms a unique network of hydrogen bonds involving residues of the N-terminus and the beta-scaffold of the core domain. The structure of photoexcited DsLOV suggests increased flexibility in the N-cap region and a significant shift in the Calpha backbone of beta strands in the N- and C-terminal ends of the LOV core domain. CONCLUSIONS: The results presented here cover the characterization of the unusual short LOV protein DsLOV from Dinoroseobacter shibae including its regulatory function, extremely fast dark recovery and an N-terminus mediated dimer interface. Due to its unique photophysical, structural and regulatory properties, DsLOV might thus serve as an alternative model system for studying light perception by LOV proteins and physiological responses in bacteria.

-	Structure and function of a short LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae.,Endres S, Granzin J, Circolone F, Stadler A, Krauss U, Drepper T, Svensson V, Knieps-Grunhagen E, Wirtz A, Cousin A, Tielen P, Willbold D, Jaeger KE, Batra-Safferling R BMC Microbiol. 2015 ~~Dec~~;15(1):~~365~~. doi: 10.1186/s12866-015-0365-0~~. Epub 2015 Feb , 14~~. PMID:~~25777007~~<ref>PMID:~~25777007~~</ref>	+	Structure and function of a short LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae.,Endres S, Granzin J, Circolone F, Stadler A, Krauss U, Drepper T, Svensson V, Knieps-Grunhagen E, Wirtz A, Cousin A, Tielen P, Willbold D, Jaeger KE, Batra-Safferling R BMC Microbiol. 2015 Feb 14;15(1):30. doi: 10.1186/s12866-015-0365-0. PMID:25887755<ref>PMID:25887755</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 07:26, 1 April 2015

OCA — Wed, 01 Apr 2015 07:26:40 GMT

←Older revision		Revision as of 07:26, 1 April 2015
Line 8:		Line 8:
	<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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk 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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	BACKGROUND: Light, oxygen, voltage (LOV) domains are widely distributed in plants, algae, fungi, bacteria, and represent the photo-responsive domains of various blue-light photoreceptor proteins. Their photocycle involves the blue-light triggered adduct formation between the C(4a) atom of a non-covalently bound flavin chromophore and the sulfur atom of a conserved cysteine in the LOV sensor domain. LOV proteins show considerable variation in the structure of N- and C-terminal elements which flank the LOV core domain, as well as in the lifetime of the adduct state. RESULTS: Here, we report the photochemical, structural and functional characterization of DsLOV, a LOV protein from the photoheterotrophic marine alpha-proteobacterium Dinoroseobacter shibae which exhibits an average adduct state lifetime of 9.6 s at 20 degrees C, and thus represents the fastest reverting bacterial LOV protein reported so far. Mutational analysis in D. shibae revealed a unique role of DsLOV in controlling the induction of photopigment synthesis in the absence of blue-light. The dark state crystal structure of DsLOV determined at 1.5 A resolution reveals a conserved core domain with an extended N-terminal cap. The dimer interface in the crystal structure forms a unique network of hydrogen bonds involving residues of the N-terminus and the beta-scaffold of the core domain. The structure of photoexcited DsLOV suggests increased flexibility in the N-cap region and a significant shift in the Calpha backbone of beta strands in the N- and C-terminal ends of the LOV core domain. CONCLUSIONS: The results presented here cover the characterization of the unusual short LOV protein DsLOV from Dinoroseobacter shibae including its regulatory function, extremely fast dark recovery and an N-terminus mediated dimer interface. Due to its unique photophysical, structural and regulatory properties, DsLOV might thus serve as an alternative model system for studying light perception by LOV proteins and physiological responses in bacteria.
		+
		+	Structure and function of a short LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae.,Endres S, Granzin J, Circolone F, Stadler A, Krauss U, Drepper T, Svensson V, Knieps-Grunhagen E, Wirtz A, Cousin A, Tielen P, Willbold D, Jaeger KE, Batra-Safferling R BMC Microbiol. 2015 Dec;15(1):365. doi: 10.1186/s12866-015-0365-0. Epub 2015 Feb , 14. PMID:25777007<ref>PMID:25777007</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:43, 4 March 2015

OCA — Wed, 04 Mar 2015 11:43:20 GMT

←Older revision		Revision as of 11:43, 4 March 2015
Line 2:		Line 2:
	<StructureSection load='4kuk' size='340' side='right' caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4kuk' size='340' side='right' caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure. The March 2015 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Phototropin'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2015_3 10.2210/rcsb_pdb/mom_2015_3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KUK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>
Line 10:		Line 10:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Phototropin]]
		+	[[Category: RCSB PDB Molecule of the Month]]
	[[Category: Batra-Safferling, R]]		[[Category: Batra-Safferling, R]]
	[[Category: Circolone, F]]		[[Category: Circolone, F]]

OCA at 08:08, 26 November 2014

OCA — Wed, 26 Nov 2014 08:08:28 GMT

←Older revision		Revision as of 08:08, 26 November 2014
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)==
-		+	<StructureSection load='4kuk' size='340' side='right' caption='[[4kuk]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~The entry~~ 4kuk is ~~ON HOLD until Nov 26 2015~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4kuk]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KUK FirstGlance]. <br>
-	~~Authors~~: ~~Circolone~~, F., ~~Granzin, J~~., ~~Stadler, A~~., ~~Krauss, U~~., Drepper, T., Endres, S., Knieps-Gruenhagen, E., ~~Wirtz~~, A., Willbold, D., ~~Batra~~-~~Safferling, R., Jaeger, K.~~-E.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=RBF:RIBOFLAVIN'>RBF</scene></td></tr>
-		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=NMM:(2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC+ACID'>NMM</scene></td></tr>
-	~~Description~~: ~~A superfast recovering full-length LOV~~ protein ~~from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)~~	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kuo\|4kuo]]</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=4kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kuk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kuk RCSB], [http://www.ebi.ac.uk/pdbsum/4kuk PDBsum]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Batra-Safferling, R]]
		+	[[Category: Circolone, F]]
		+	[[Category: Drepper, T]]
		+	[[Category: Endres, S]]
		+	[[Category: Granzin, J]]
		+	[[Category: Jaeger, K E]]
		+	[[Category: Knieps-Gruenhagen, E]]
		+	[[Category: Krauss, U]]
		+	[[Category: Stadler, A]]
		+	[[Category: Willbold, D]]
		+	[[Category: Wirtz, A]]
		+	[[Category: Fmn binding]]
		+	[[Category: Light-oxygen-voltage]]
		+	[[Category: Lov]]
		+	[[Category: Pas domain]]
		+	[[Category: Signaling protein]]

OCA at 05:55, 30 April 2014

OCA — Wed, 30 Apr 2014 05:55:57 GMT

←Older revision		Revision as of 05:55, 30 April 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4kuk is ON HOLD until ~~Paper Publication~~	+	The entry 4kuk is ON HOLD until Nov 26 2015

	Authors: Circolone, F., Granzin, J., Stadler, A., Krauss, U., Drepper, T., Endres, S., Knieps-Gruenhagen, E., Wirtz, A., Willbold, D., Batra-Safferling, R., Jaeger, K.-E.		Authors: Circolone, F., Granzin, J., Stadler, A., Krauss, U., Drepper, T., Endres, S., Knieps-Gruenhagen, E., Wirtz, A., Willbold, D., Batra-Safferling, R., Jaeger, K.-E.

	Description: A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)		Description: A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)

OCA at 13:15, 3 July 2013

OCA — Wed, 03 Jul 2013 13:15:29 GMT

←Older revision		Revision as of 13:15, 3 July 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Circolone, F., Granzin, J., Stadler, A., Krauss, U., Drepper, T., Endres, S., Knieps-Gruenhagen, E., Wirtz, A., Willbold, D., Batra-Safferling, R., Jaeger, K.-E.		Authors: Circolone, F., Granzin, J., Stadler, A., Krauss, U., Drepper, T., Endres, S., Knieps-Gruenhagen, E., Wirtz, A., Willbold, D., Batra-Safferling, R., Jaeger, K.-E.

-	Description: ~~Structural studies of a~~ superfast full-length LOV protein from Dinoroseobacter shibae	+	Description: A superfast recovering full-length LOV protein from the marine phototrophic bacterium Dinoroseobacter shibae (Dark state)