5yi3 - Revision history

OCA at 08:30, 22 November 2023

2023-11-22T08:30:30Z

←Older revision		Revision as of 08:30, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='5yi3' size='340' side='right'caption='[[5yi3]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='5yi3' size='340' side='right'caption='[[5yi3]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yi3]] is a 16 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lacla Lacla~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YI3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YI3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yi3]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis] and [https://en.wikipedia.org/wiki/Lactococcus_lactis_subsp._lactis_Il1403 Lactococcus lactis subsp. lactis Il1403]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YI3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YI3 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.9Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yhy\|5yhy]]~~, [[~~5yhx~~\|~~5yhx]], [[5yhz\|5yhz]], [[5yi0\|5yi0]], [[5yi2\|5yi2]], [[5yi1\|5yi1~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~zitR, L168265 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=272623 LACLA])~~</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=5yi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yi3 OCA], [https://pdbe.org/5yi3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yi3 RCSB], [https://www.ebi.ac.uk/pdbsum/5yi3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yi3 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=5yi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yi3 OCA], [~~http~~://pdbe.org/5yi3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yi3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yi3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yi3 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9CDU5_LACLA Q9CDU5_LACLA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5yi3" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5yi3" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Transcriptional activator 3D structures\|Transcriptional activator 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Lacla~~]]	+	[[Category: Lactococcus lactis]]
		+	[[Category: Lactococcus lactis subsp. lactis Il1403]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen, P]]	+	[[Category: Chen P]]
-	[[Category: Liu, H]]	+	[[Category: Liu H]]
-	[[Category: Song, Y]]	+	[[Category: Song Y]]
-	[[Category: Yi, C]]	+	[[Category: Yi C]]
-	[[Category: Zhu, R]]	+	[[Category: Zhu R]]
-	~~[[Category: Marr family]]~~	+
-	~~[[Category: Metal binding protein-dna complex]]~~	+
-	~~[[Category: Transcriptional regulator]]~~	+
-	~~[[Category: Winged helix-turn-helix]]~~	+
-	~~[[Category: Zinc binding protein~~]]	+

OCA at 12:43, 25 December 2019

2019-12-25T12:43:05Z

←Older revision		Revision as of 12:43, 25 December 2019
Line 1:		Line 1:

	==Structure of Lactococcus lactis ZitR, C30S mutant in complex with DNA==		==Structure of Lactococcus lactis ZitR, C30S mutant in complex with DNA==
-	<StructureSection load='5yi3' size='340' side='right' caption='[[5yi3]], [[Resolution\|resolution]] 2.90Å' scene=''>	+	<StructureSection load='5yi3' size='340' side='right'caption='[[5yi3]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yi3]] is a 16 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YI3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yi3]] is a 16 chain structure with sequence from [http://en.wikipedia.org/wiki/Lacla Lacla]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YI3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yhy\|5yhy]], [[5yhx\|5yhx]], [[5yhz\|5yhz]], [[5yi0\|5yi0]], [[5yi2\|5yi2]], [[5yi1\|5yi1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yhy\|5yhy]], [[5yhx\|5yhx]], [[5yhz\|5yhz]], [[5yi0\|5yi0]], [[5yi2\|5yi2]], [[5yi1\|5yi1]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">zitR, L168265 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272623 LACLA])</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=5yi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yi3 OCA], [http://pdbe.org/5yi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yi3 RCSB], [http://www.ebi.ac.uk/pdbsum/5yi3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yi3 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=5yi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yi3 OCA], [http://pdbe.org/5yi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yi3 RCSB], [http://www.ebi.ac.uk/pdbsum/5yi3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yi3 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Metalloregulators allosterically control transcriptional activity through metal binding-induced reorganization of ligand residues and/or hydrogen bonding networks, while the coordination atoms on the same ligand residues remain seldom changed. Here we show that the MarR-type zinc transcriptional regulator ZitR switches one of its histidine nitrogen atoms for zinc coordination during the allosteric control of DNA binding. The Zn(II)-coordination nitrogen on histidine 42 within ZitR's high-affinity zinc site (site 1) switches from Nepsilon2 to Ndelta1 upon Zn(II) binding to its low-affinity zinc site (site 2), which facilitates ZitR's conversion from the nonoptimal to the optimal DNA-binding conformation. This histidine switch-mediated cooperation between site 1 and site 2 enables ZitR to adjust its DNA-binding affinity in response to a broad range of zinc fluctuation, which may allow the fine tuning of transcriptional regulation.
		+
		+	Allosteric histidine switch for regulation of intracellular zinc(II) fluctuation.,Zhu R, Song Y, Liu H, Yang Y, Wang S, Yi C, Chen PR Proc Natl Acad Sci U S A. 2017 Dec 26;114(52):13661-13666. doi:, 10.1073/pnas.1708563115. Epub 2017 Dec 11. PMID:29229866<ref>PMID:29229866</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5yi3" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lacla]]
		+	[[Category: Large Structures]]
	[[Category: Chen, P]]		[[Category: Chen, P]]
	[[Category: Liu, H]]		[[Category: Liu, H]]

OCA at 07:23, 6 December 2017

2017-12-06T07:23:05Z

←Older revision		Revision as of 07:23, 6 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5yi3 is ~~ON HOLD~~	+	==Structure of Lactococcus lactis ZitR, C30S mutant in complex with DNA==
-		+	<StructureSection load='5yi3' size='340' side='right' caption='[[5yi3]], [[Resolution\|resolution]] 2.90Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5yi3]] is a 16 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YI3 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yhy\|5yhy]], [[5yhx\|5yhx]], [[5yhz\|5yhz]], [[5yi0\|5yi0]], [[5yi2\|5yi2]], [[5yi1\|5yi1]]</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=5yi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yi3 OCA], [http://pdbe.org/5yi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yi3 RCSB], [http://www.ebi.ac.uk/pdbsum/5yi3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yi3 ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Chen, P]]
		+	[[Category: Liu, H]]
		+	[[Category: Song, Y]]
		+	[[Category: Yi, C]]
		+	[[Category: Zhu, R]]
		+	[[Category: Marr family]]
		+	[[Category: Metal binding protein-dna complex]]
		+	[[Category: Transcriptional regulator]]
		+	[[Category: Winged helix-turn-helix]]
		+	[[Category: Zinc binding protein]]

OCA: Protected "5yi3" [edit=sysop:move=sysop]

2017-10-11T05:24:03Z

Protected "5yi3" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:24, 11 October 2017

OCA: New page: '''Unreleased structure''' The entry 5yi3 is ON HOLD Authors: Description: Category: Unreleased Structures

2017-10-11T05:24:01Z

New page: '''Unreleased structure''' The entry 5yi3 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5yi3 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]