OCA at 12:20, 1 February 2024

OCA — Thu, 01 Feb 2024 12:20:42 GMT

←Older revision		Revision as of 12:20, 1 February 2024
Line 1:		Line 1:

-	====	+	==DtxR-like iron-dependent regulator IdeR complexed with cobalt and its consensus DNA-binding sequence==
-	<StructureSection load='7b1y' size='340' side='right'caption='[[7b1y]]' scene=''>	+	<StructureSection load='7b1y' size='340' side='right'caption='[[7b1y]], [[Resolution\|resolution]] 2.12Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7b1y]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharopolyspora_erythraea_NRRL_2338 Saccharopolyspora erythraea NRRL 2338] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7B1Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7B1Y FirstGlance]. <br>
-	</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=7b1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7b1y OCA], [https://pdbe.org/7b1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7b1y RCSB], [https://www.ebi.ac.uk/pdbsum/7b1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7b1y ProSAT]</span></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]] 2.12Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</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=7b1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7b1y OCA], [https://pdbe.org/7b1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7b1y RCSB], [https://www.ebi.ac.uk/pdbsum/7b1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7b1y ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A2A9J1W2_SACEN A0A2A9J1W2_SACEN]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The iron-dependent regulator IdeR is the main transcriptional regulator controlling iron homeostasis genes in Actinobacteria, including species from the Corynebacterium, Mycobacterium and Streptomyces genera, as well as the erythromycin-producing bacterium Saccharopolyspora erythraea. Despite being a well-studied transcription factor since the identification of the Diphtheria toxin repressor DtxR three decades ago, the details of how IdeR proteins recognize their highly conserved 19-bp DNA target remain to be elucidated. IdeR makes few direct contacts with DNA bases in its target sequence, and we show here that these contacts are not required for target recognition. The results of our structural and mutational studies support a model wherein IdeR mainly uses an indirect readout mechanism, identifying its targets via the sequence-dependent DNA backbone structure rather than through specific contacts with the DNA bases. Furthermore, we show that IdeR efficiently recognizes a shorter palindromic sequence corresponding to a half binding site as compared to the full 19-bp target previously reported, expanding the number of potential target genes controlled by IdeR proteins.
		+
		+	The bacterial iron sensor IdeR recognizes its DNA targets by indirect readout.,Marcos-Torres FJ, Maurer D, Juniar L, Griese JJ Nucleic Acids Res. 2021 Sep 27;49(17):10120-10135. doi: 10.1093/nar/gkab711. PMID:34417623<ref>PMID:34417623</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7b1y" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Z-~~disk~~]]	+	[[Category: Saccharopolyspora erythraea NRRL 2338]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Griese JJ]]
		+	[[Category: Marcos-Torres FJ]]
		+	[[Category: Maurer D]]

OCA at 14:44, 3 March 2021

OCA — Wed, 03 Mar 2021 14:44:17 GMT

←Older revision		Revision as of 14:44, 3 March 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7b1y ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7b1y' size='340' side='right'caption='[[7b1y]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=7b1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7b1y OCA], [https://pdbe.org/7b1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7b1y RCSB], [https://www.ebi.ac.uk/pdbsum/7b1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7b1y ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 08:32, 17 February 2021

OCA — Wed, 17 Feb 2021 08:32:30 GMT

←Older revision		Revision as of 08:32, 17 February 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7b1y is ON HOLD	+	The entry 7b1y is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7b1y" [edit=sysop:move=sysop]

OCA — Wed, 02 Dec 2020 05:36:08 GMT

Protected "7b1y" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:36, 2 December 2020

OCA: New page: '''Unreleased structure''' The entry 7b1y is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Dec 2020 05:36:06 GMT

New page: '''Unreleased structure''' The entry 7b1y is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7b1y is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7b1y - Revision history

OCA at 12:20, 1 February 2024

OCA at 14:44, 3 March 2021

OCA at 08:32, 17 February 2021

OCA: Protected "7b1y" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7b1y is ON HOLD Authors: Description: Category: Unreleased Structures