3pm1 - Revision history

OCA at 10:41, 21 February 2024

2024-02-21T10:41:50Z

←Older revision		Revision as of 10:41, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3pm1' size='340' side='right'caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3pm1' size='340' side='right'caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Staam Staam~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ET:ETHIDIUM'>ET</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]] 2.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1jup\|1jup]], [[1jus\|1jus]], [[1jty\|1jty]], [[1jt6\|1jt6]], [[3bqz\|3bqz]], [[3br0\|3br0]], [[3br1\|3br1]], [[3br2\|3br2]], [[3br4\|3br4]], [[3br5\|3br5]], [[3br6\|3br6]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ET:ETHIDIUM'>ET</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">qacR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])~~</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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [https://pdbe.org/3pm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [https://www.ebi.ac.uk/pdbsum/3pm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pm1 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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [https://pdbe.org/3pm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [https://www.ebi.ac.uk/pdbsum/3pm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pm1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/QACR_STAAM QACR_STAAM]] Transcriptional repressor of qacA. Binds to IR1, an unusually long 28 bp operator, which is located downstream from the qacA promoter and overlaps its transcription start site. QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA (By similarity).	+	[https://www.uniprot.org/uniprot/QACR_STAAM QACR_STAAM] Transcriptional repressor of qacA. Binds to IR1, an unusually long 28 bp operator, which is located downstream from the qacA promoter and overlaps its transcription start site. QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA (By similarity).
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Structures of the multidrug-binding repressor protein QacR with monovalent and bivalent cationic drugs revealed that the carboxylate side-chains of E90 and E120 were proximal to the positively charged nitrogens of the ligands ethidium, malachite green and rhodamine 6G, and therefore may contribute to drug neutralization and binding affinity. Here, we report structural, biochemical and in vivo effects of substituting these glutamate residues. Unexpectedly, substitutions had little impact on ligand affinity or in vivo induction capabilities. Structures of QacR(E90Q) and QacR(E120Q) with ethidium or malachite green took similar global conformations that differed significantly from all previously described QacR-drug complexes but still prohibited binding to cognate DNA. Strikingly, the QacR(E90Q)-rhodamine 6G complex revealed two mutually exclusive rhodamine 6G binding sites. Despite multiple structural changes, all drug binding was essentially isoenergetic. Thus, these data strongly suggest that rather than contributing significantly to ligand binding affinity, the role of acidic residues lining the QacR multidrug-binding pocket is primarily to attract and guide cationic drugs to the "best available" positions within the pocket that elicit QacR induction.	+
-		+
-	A single acidic residue can guide binding site selection but does not govern QacR cationic-drug affinity.,Peters KM, Brooks BE, Schumacher MA, Skurray RA, Brennan RG, Brown MH PLoS One. 2011 Jan 17;6(1):e15974. PMID:21264225<ref>PMID:21264225</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3pm1" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]		*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]
	*[[Transcriptional activator 3D structures\|Transcriptional activator 3D structures]]		*[[Transcriptional activator 3D structures\|Transcriptional activator 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Staam~~]]	+	[[Category: Staphylococcus aureus subsp. aureus Mu50]]
-	[[Category: Schumacher~~, M A]]~~	+	[[Category: Schumacher MA]]
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Multidrug resistance]]~~	+
-	~~[[Category: Nucleoid]]~~	+
-	~~[[Category: Tetr family member]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription regulation~~]]	+

OCA at 08:45, 25 May 2022

2022-05-25T08:45:15Z

←Older revision		Revision as of 08:45, 25 May 2022
Line 1:		Line 1:

	==Structure of QacR E90Q bound to Ethidium==		==Structure of QacR E90Q bound to Ethidium==
-	<StructureSection load='3pm1' size='340' side='right' caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='3pm1' size='340' side='right'caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Staam Staam]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staam Staam]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ET:ETHIDIUM'>ET</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=ET:ETHIDIUM'>ET</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">[[1jup\|1jup]], [[1jus\|1jus]], [[1jty\|1jty]], [[1jt6\|1jt6]], [[3bqz\|3bqz]], [[3br0\|3br0]], [[3br1\|3br1]], [[3br2\|3br2]], [[3br4\|3br4]], [[3br5\|3br5]], [[3br6\|3br6]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1jup\|1jup]], [[1jus\|1jus]], [[1jty\|1jty]], [[1jt6\|1jt6]], [[3bqz\|3bqz]], [[3br0\|3br0]], [[3br1\|3br1]], [[3br2\|3br2]], [[3br4\|3br4]], [[3br5\|3br5]], [[3br6\|3br6]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">qacR ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">qacR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [~~http~~://pdbe.org/3pm1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3pm1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3pm1 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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [https://pdbe.org/3pm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [https://www.ebi.ac.uk/pdbsum/3pm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pm1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/QACR_STAAM QACR_STAAM]] Transcriptional repressor of qacA. Binds to IR1, an unusually long 28 bp operator, which is located downstream from the qacA promoter and overlaps its transcription start site. QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA (By similarity).	+	[[https://www.uniprot.org/uniprot/QACR_STAAM QACR_STAAM]] Transcriptional repressor of qacA. Binds to IR1, an unusually long 28 bp operator, which is located downstream from the qacA promoter and overlaps its transcription start site. QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3pm1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3pm1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tetracycline repressor protein 3D structures\|Tetracycline repressor protein 3D structures]]
		+	*[[Transcriptional activator 3D structures\|Transcriptional activator 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Staam]]		[[Category: Staam]]
	[[Category: Schumacher, M A]]		[[Category: Schumacher, M A]]

OCA at 11:28, 4 August 2016

2016-08-04T11:28:08Z

←Older revision		Revision as of 11:28, 4 August 2016
Line 1:		Line 1:
		+
	==Structure of QacR E90Q bound to Ethidium==		==Structure of QacR E90Q bound to Ethidium==
	<StructureSection load='3pm1' size='340' side='right' caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3pm1' size='340' side='right' caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus Staphylococcus aureus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staam Staam]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ET:ETHIDIUM'>ET</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=ET:ETHIDIUM'>ET</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">[[1jup\|1jup]], [[1jus\|1jus]], [[1jty\|1jty]], [[1jt6\|1jt6]], [[3bqz\|3bqz]], [[3br0\|3br0]], [[3br1\|3br1]], [[3br2\|3br2]], [[3br4\|3br4]], [[3br5\|3br5]], [[3br6\|3br6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1jup\|1jup]], [[1jus\|1jus]], [[1jty\|1jty]], [[1jt6\|1jt6]], [[3bqz\|3bqz]], [[3br0\|3br0]], [[3br1\|3br1]], [[3br2\|3br2]], [[3br4\|3br4]], [[3br5\|3br5]], [[3br6\|3br6]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">qacR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~1280 Staphylococcus aureus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">qacR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3pm1 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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [http://pdbe.org/3pm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3pm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pm1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3pm1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Staphylococcus aureus~~]]	+	[[Category: Staam]]
	[[Category: Schumacher, M A]]		[[Category: Schumacher, M A]]
	[[Category: Dna]]		[[Category: Dna]]

OCA at 08:50, 25 December 2014

2014-12-25T08:50:57Z

←Older revision		Revision as of 08:50, 25 December 2014
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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3pm1 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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3pm1 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/QACR_STAAM QACR_STAAM]] Transcriptional repressor of qacA. Binds to IR1, an unusually long 28 bp operator, which is located downstream from the qacA promoter and overlaps its transcription start site. QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 10:38, 19 December 2014

2014-12-19T10:38:39Z

←Older revision		Revision as of 10:38, 19 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3pm1\| PDB=3pm1 \| SCENE= }}~~	+	==Structure of QacR E90Q bound to Ethidium==
-	===Structure of QacR E90Q bound to Ethidium===	+	<StructureSection load='3pm1' size='340' side='right' caption='[[3pm1]], [[Resolution\|resolution]] 2.80Å' scene=''>
-	~~{{ABSTRACT_PUBMED_21264225}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3pm1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PM1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ET:ETHIDIUM'>ET</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">[[1jup\|1jup]], [[1jus\|1jus]], [[1jty\|1jty]], [[1jt6\|1jt6]], [[3bqz\|3bqz]], [[3br0\|3br0]], [[3br1\|3br1]], [[3br2\|3br2]], [[3br4\|3br4]], [[3br5\|3br5]], [[3br6\|3br6]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">qacR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</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=3pm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3pm1 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Structures of the multidrug-binding repressor protein QacR with monovalent and bivalent cationic drugs revealed that the carboxylate side-chains of E90 and E120 were proximal to the positively charged nitrogens of the ligands ethidium, malachite green and rhodamine 6G, and therefore may contribute to drug neutralization and binding affinity. Here, we report structural, biochemical and in vivo effects of substituting these glutamate residues. Unexpectedly, substitutions had little impact on ligand affinity or in vivo induction capabilities. Structures of QacR(E90Q) and QacR(E120Q) with ethidium or malachite green took similar global conformations that differed significantly from all previously described QacR-drug complexes but still prohibited binding to cognate DNA. Strikingly, the QacR(E90Q)-rhodamine 6G complex revealed two mutually exclusive rhodamine 6G binding sites. Despite multiple structural changes, all drug binding was essentially isoenergetic. Thus, these data strongly suggest that rather than contributing significantly to ligand binding affinity, the role of acidic residues lining the QacR multidrug-binding pocket is primarily to attract and guide cationic drugs to the "best available" positions within the pocket that elicit QacR induction.

-	~~==Function==~~	+	A single acidic residue can guide binding site selection but does not govern QacR cationic-drug affinity.,Peters KM, Brooks BE, Schumacher MA, Skurray RA, Brennan RG, Brown MH PLoS One. 2011 Jan 17;6(1):e15974. PMID:21264225<ref>PMID:21264225</ref>
-	~~[[http://www~~.~~uniprot.org/uniprot/QACR_STAAM QACR_STAAM]] Transcriptional repressor of qacA. Binds to IR1~~, ~~an unusually long 28 bp operator~~, ~~which is located downstream from the qacA promoter and overlaps its transcription start site~~. ~~QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA~~ (~~By similarity~~).	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3pm1]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Staphylococcus_aureus Staphylococcus aureus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:021264225</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
-	[[Category: Schumacher, M A.]]	+	[[Category: Schumacher, M A]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Multidrug resistance]]		[[Category: Multidrug resistance]]

OCA at 07:42, 16 May 2013

2013-05-16T07:42:06Z

←Older revision		Revision as of 07:42, 16 May 2013
Line 1:		Line 1:
-	[[Image:3pm1.jpg\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3pm1", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3pm1\| PDB=3pm1 \| SCENE= }}		{{STRUCTURE_3pm1\| PDB=3pm1 \| SCENE= }}
-
	===Structure of QacR E90Q bound to Ethidium===		===Structure of QacR E90Q bound to Ethidium===
		+	{{ABSTRACT_PUBMED_21264225}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/QACR_STAAM QACR_STAAM]] Transcriptional repressor of qacA. Binds to IR1, an unusually long 28 bp operator, which is located downstream from the qacA promoter and overlaps its transcription start site. QacR is induced from its IR1 site by binding to one of many structurally dissimilar cationic lipophilic compounds, which are also substrates of QacA (By similarity).
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21264225}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov)~~, ~~where 21264225~~ is the ~~PubMed ID number~~.	+
-	~~-->~~	+
-	~~{{ABSTRACT_PUBMED_21264225}}~~	+

	==About this Structure==		==About this Structure==
Line 22:		Line 10:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:021264225</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021264225</ref><references group="xtra"/><references/>
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
	[[Category: Schumacher, M A.]]		[[Category: Schumacher, M A.]]

OCA: Protected "3pm1" [edit=sysop:move=sysop]

2011-07-13T07:23:09Z

Protected "3pm1" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:23, 13 July 2011

OCA at 07:23, 13 July 2011

2011-07-13T07:23:00Z

←Older revision		Revision as of 07:23, 13 July 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3pm1.jpg\|left\|200px]]

-	The ~~entry 3pm1~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3pm1", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3pm1\| PDB=3pm1 \| SCENE= }}

-	~~Authors: Schumacher, M.A.~~	+	===Structure of QacR E90Q bound to Ethidium===

-	Description: Structure of QacR E90Q bound to Ethidium

-	~~''Page seeded by~~ [http://oca.weizmann.ac.il/oca OCA ] ~~on Wed Dec 15 08~~:24:~~14 2010''~~	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21264225}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21264225 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21264225}}
		+
		+	==About this Structure==
		+	[[3pm1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PM1 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021264225</ref><references group="xtra"/>
		+	[[Category: Staphylococcus aureus]]
		+	[[Category: Schumacher, M A.]]
		+	[[Category: Dna]]
		+	[[Category: Multidrug resistance]]
		+	[[Category: Nucleoid]]
		+	[[Category: Tetr family member]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription regulation]]

OCA at 05:11, 15 December 2010

2010-12-15T05:11:54Z

←Older revision		Revision as of 05:11, 15 December 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3pm1 is ON HOLD	+	The entry 3pm1 is ON HOLD until Paper Publication

	Authors: Schumacher, M.A.		Authors: Schumacher, M.A.
Line 7:		Line 7:
	Description: Structure of QacR E90Q bound to Ethidium		Description: Structure of QacR E90Q bound to Ethidium

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Nov 24 13~~:58:48 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 15 08:24:14 2010''

OCA: New page: '''Unreleased structure''' The entry 3pm1 is ON HOLD Authors: Schumacher, M.A. Description: Structure of QacR E90Q bound to Ethidium ''Page seeded by [http://oca.weizmann.ac.il/oca OC...

2010-11-24T10:47:18Z

New page: '''Unreleased structure''' The entry 3pm1 is ON HOLD Authors: Schumacher, M.A. Description: Structure of QacR E90Q bound to Ethidium ''Page seeded by [http://oca.weizmann.ac.il/oca OC...

New page

'''Unreleased structure'''

The entry 3pm1 is ON HOLD

Authors: Schumacher, M.A.

Description: Structure of QacR E90Q bound to Ethidium

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 24 13:58:48 2010''