1bi3 - Revision history

OCA at 09:32, 21 December 2022

2022-12-21T09:32:32Z

←Older revision		Revision as of 09:32, 21 December 2022
Line 3:		Line 3:
	<StructureSection load='1bi3' size='340' side='right'caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1bi3' size='340' side='right'caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_diphtheriae"_kruse_in_flugge_1886 "bacillus~~ diphtheriae~~" kruse in flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=~~SO4~~:~~SULFATE+ION~~'>~~SO4~~</scene>, <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" id="ligandDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~CSS~~:~~S-MERCAPTOCYSTEINE~~'>~~CSS~~</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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [https://pdbe.org/1bi3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [https://www.ebi.ac.uk/pdbsum/1bi3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bi3 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 "Bacillus diphtheriae" Kruse in Flugge 1886])</td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [~~http~~://pdbe.org/1bi3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1bi3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1bi3 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DTXR_CORDI DTXR_CORDI]] Iron-binding repressor of the dipheteria toxin gene expression. May serve as a global regulator of gene expression. Represses ripA under iron excess.	+	[https://www.uniprot.org/uniprot/DTXR_CORDI DTXR_CORDI] Iron-binding repressor of the dipheteria toxin gene expression. May serve as a global regulator of gene expression. Represses ripA under iron excess.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ diphtheriae ~~kruse in flugge 1886~~]]	+	[[Category: Corynebacterium diphtheriae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hol~~, W G.J~~]]	+	[[Category: Hol WGJ]]
-	[[Category: Pohl, E]]	+	[[Category: Pohl E]]
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Repressor]]~~	+
-	~~[[Category: Transcription regulation~~]]	+

OCA at 10:14, 18 November 2020

2020-11-18T10:14:14Z

←Older revision		Revision as of 10:14, 18 November 2020
Line 1:		Line 1:

	==STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR==		==STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR==
-	<StructureSection load='1bi3' size='340' side='right' caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='1bi3' size='340' side='right'caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_diphtheriae"_kruse_in_flugge_1886 "bacillus diphtheriae" kruse in flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_diphtheriae"_kruse_in_flugge_1886 "bacillus diphtheriae" kruse in flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <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" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 "Bacillus diphtheriae" Kruse in Flugge 1886])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 "Bacillus diphtheriae" Kruse in Flugge 1886])</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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://pdbe.org/1bi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1bi3 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://pdbe.org/1bi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1bi3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/1bi3_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/1bi3_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1bi3" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1bi3" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Diphtheria toxin repressor\|Diphtheria toxin repressor]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus diphtheriae kruse in flugge 1886]]		[[Category: Bacillus diphtheriae kruse in flugge 1886]]
		+	[[Category: Large Structures]]
	[[Category: Hol, W G.J]]		[[Category: Hol, W G.J]]
	[[Category: Pohl, E]]		[[Category: Pohl, E]]

OCA at 10:57, 8 November 2017

2017-11-08T10:57:39Z

←Older revision		Revision as of 10:57, 8 November 2017
Line 1:		Line 1:
		+
	==STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR==		==STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR==
	<StructureSection load='1bi3' size='340' side='right' caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1bi3' size='340' side='right' caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' 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=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 "Bacillus diphtheriae" Kruse in Flugge 1886])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 "Bacillus diphtheriae" Kruse in Flugge 1886])</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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://pdbe.org/1bi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://pdbe.org/1bi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1bi3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1bi3" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1bi3" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Diphtheria toxin repressor\|Diphtheria toxin repressor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:53, 7 February 2016

2016-02-07T16:53:22Z

←Older revision		Revision as of 16:53, 7 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1bi3 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 03:25, 10 September 2015

2015-09-10T03:25:08Z

←Older revision		Revision as of 03:25, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1bi3' size='340' side='right' caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1bi3' size='340' side='right' caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Corynebacterium_diphtheriae Corynebacterium~~ diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_diphtheriae"_kruse_in_flugge_1886 "bacillus diphtheriae" kruse in flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <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=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 ~~Corynebacterium~~ diphtheriae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 "Bacillus diphtheriae" Kruse in Flugge 1886])</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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://pdbe.org/1bi3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	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 1bi3" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Corynebacterium~~ diphtheriae]]	+	[[Category: Bacillus diphtheriae kruse in flugge 1886]]
	[[Category: Hol, W G.J]]		[[Category: Hol, W G.J]]
	[[Category: Pohl, E]]		[[Category: Pohl, E]]

OCA at 16:50, 24 December 2014

2014-12-24T16:50:05Z

←Older revision		Revision as of 16:50, 24 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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DTXR_CORDI DTXR_CORDI]] Iron-binding repressor of the dipheteria toxin gene expression. May serve as a global regulator of gene expression. Represses ripA under iron excess.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 11:45, 22 December 2014

2014-12-22T11:45:14Z

←Older revision		Revision as of 11:45, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 Corynebacterium diphtheriae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 Corynebacterium diphtheriae])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 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=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Corynebacterium diphtheriae]]		[[Category: Corynebacterium diphtheriae]]
-	[[Category: Hol, W G.J.]]	+	[[Category: Hol, W G.J]]
-	[[Category: Pohl, E.]]	+	[[Category: Pohl, E]]
	[[Category: Dna-binding]]		[[Category: Dna-binding]]
	[[Category: Iron]]		[[Category: Iron]]
	[[Category: Repressor]]		[[Category: Repressor]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]

OCA at 09:47, 13 August 2014

2014-08-13T09:47:50Z

←Older revision		Revision as of 09:47, 13 August 2014
Line 1:		Line 1:
-	[[~~Image:~~1bi3.~~png~~\|~~left~~\|200px]]	+	==STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR==
		+	<StructureSection load='1bi3' size='340' side='right' caption='[[1bi3]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BI3 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSS:S-MERCAPTOCYSTEINE'>CSS</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DTXR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1717 Corynebacterium diphtheriae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1bi3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bi3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bi3 RCSB], [http://www.ebi.ac.uk/pdbsum/1bi3 PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/1bi3_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The diphtheria toxin repressor (DtxR) from Corynebacterium diphtheriae is a divalent metal-activated repressor of chromosomal genes that encode proteins responsible for siderophore-mediated iron uptake and also of the gene of certain corynebacteriophages that encodes diphtheria toxin. DtxR consists of two 25.3-kDa three-domain subunits and is a member of a family of related repressor proteins in several Gram-positive bacterial species, some of which are important human pathogens. In this paper, we report on the first high resolution crystal structures of apo-DtxR in two related space groups. In addition, crystal structures of Zn-DtxR were determined in the same two space groups. The resolutions of the structures range from 2.2 to 2.4 A. The four refined models of the apo- and the holo-repressor exhibit quite similar metal binding centers, which do, however, show higher thermal motion in the apo-structures. All four structures reported differ from each other in one important aspect. The N-terminal DNA-binding domain and the last 20 residues of the dimerization domain of each subunit move significantly with respect to the core of the DtxR dimer, which consists of residues 74-120 from both subunits. These results provide the first indication of a conformational change that may occur upon binding of the holo-repressor to DNA.

-	~~{{STRUCTURE_1bi3\| PDB=1bi3 \| SCENE= }}~~	+	Motion of the DNA-binding domain with respect to the core of the diphtheria toxin repressor (DtxR) revealed in the crystal structures of apo- and holo-DtxR.,Pohl E, Holmes RK, Hol WG J Biol Chem. 1998 Aug 28;273(35):22420-7. PMID:9712865<ref>PMID:9712865</ref>

-	~~===STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_9712865}}~~	+	==See Also==
-		+	*[[Diphtheria toxin repressor\|Diphtheria toxin repressor]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1bi3~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:009712865<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Corynebacterium diphtheriae]]		[[Category: Corynebacterium diphtheriae]]
	[[Category: Hol, W G.J.]]		[[Category: Hol, W G.J.]]

OCA: Protected "1bi3" [edit=sysop:move=sysop]

2012-10-21T20:22:53Z

Protected "1bi3" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:22, 21 October 2012

OCA at 20:22, 21 October 2012

2012-10-21T20:22:50Z

←Older revision		Revision as of 20:22, 21 October 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1bi3.png\|left\|200px]]		[[Image:1bi3.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1bi3", 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_1bi3\| PDB=1bi3 \| SCENE= }}		{{STRUCTURE_1bi3\| PDB=1bi3 \| SCENE= }}

	===STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR===		===STRUCTURE OF APO-AND HOLO-DIPHTHERIA TOXIN REPRESSOR===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_9712865}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 9712865 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_9712865}}		{{ABSTRACT_PUBMED_9712865}}

	==About this Structure==		==About this Structure==
-	~~1BI3~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA].	+	[[1bi3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Corynebacterium_diphtheriae Corynebacterium diphtheriae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BI3 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~9712865~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:009712865</ref><references group="xtra"/>
	[[Category: Corynebacterium diphtheriae]]		[[Category: Corynebacterium diphtheriae]]
	[[Category: Hol, W G.J.]]		[[Category: Hol, W G.J.]]
Line 31:		Line 19:
	[[Category: Repressor]]		[[Category: Repressor]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:15:18 2009''