4xsz - Revision history

OCA at 07:48, 27 September 2023

2023-09-27T07:48:56Z

←Older revision		Revision as of 07:48, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_ATCC_8739 Escherichia coli ATCC 8739], [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12] and [https://en.wikipedia.org/wiki/Escherichia_coli_O139:H28_str._E24377A Escherichia coli O139:H28 str. E24377A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_ATCC_8739 Escherichia coli ATCC 8739], [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12] and [https://en.wikipedia.org/wiki/Escherichia_coli_O139:H28_str._E24377A Escherichia coli O139:H28 str. E24377A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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]] 3.683Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [https://pdbe.org/4xsz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [https://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz 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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [https://pdbe.org/4xsz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [https://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz ProSAT]</span></td></tr>
	</table>		</table>

OCA at 17:50, 26 April 2023

2023-04-26T17:50:51Z

←Older revision		Revision as of 17:50, 26 April 2023
Line 1:		Line 1:

	==Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme==		==Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme==
-	<StructureSection load='4xsz' size='340' side='right' caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>	+	<StructureSection load='4xsz' size='340' side='right'caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Eco24 Eco24~~], [~~http~~://en.wikipedia.org/wiki/~~Ecolc Ecolc~~] and [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_ATCC_8739 Escherichia coli ATCC 8739], [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12] and [https://en.wikipedia.org/wiki/Escherichia_coli_O139:H28_str._E24377A Escherichia coli O139:H28 str. E24377A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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">[[4xsy\|4xsy]], [[4xsx\|4xsx]]</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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [https://pdbe.org/4xsz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [https://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rpoD, alt, b3067, JW3039 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [~~http~~://pdbe.org/4xsz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/RPOZ_ECOLC RPOZ_ECOLC]] Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. [[http://www.uniprot.org/uniprot/RPOA_ECO24 RPOA_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOC_ECO24 RPOC_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOB_ECO24 RPOB_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOD_ECOLI RPOD_ECOLI]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium.	+	[https://www.uniprot.org/uniprot/RPOA_ECO24 RPOA_ECO24] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4xsz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4xsz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
		+	*[[Sigma factor 3D structures\|Sigma factor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~DNA-directed RNA polymerase~~]]	+	[[Category: Escherichia coli ATCC 8739]]
-	[[Category: ~~Eco24~~]]	+	[[Category: Escherichia coli K-12]]
-	[[Category: ~~Ecolc~~]]	+	[[Category: Escherichia coli O139:H28 str. E24377A]]
-	[[Category: ~~Ecoli~~]]	+	[[Category: Large Structures]]
-	[[Category: Bae, B]]	+	[[Category: Bae B]]
-	[[Category: Darst~~, S A]]~~	+	[[Category: Darst SA]]
-	~~[[Category: Bacterial rna polymerase antibiotic complex]]~~	+
-	~~[[Category: Transcription-antibiotic complex~~]]	+

OCA at 09:37, 22 November 2017

2017-11-22T09:37:44Z

←Older revision		Revision as of 09:37, 22 November 2017
Line 3:		Line 3:
	<StructureSection load='4xsz' size='340' side='right' caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>		<StructureSection load='4xsz' size='340' side='right' caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/~~Escherichia_coli_(strain_atcc_8739_/_dsm_1576_/_crooks) Escherichia coli (strain atcc 8739 / dsm 1576 / crooks)~~] and [http://en.wikipedia.org/wiki/~~Escherichia_coli_o139:h28_(strain_e24377a_/_etec) Escherichia coli o139:h28 (strain e24377a / etec)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco24 Eco24], [http://en.wikipedia.org/wiki/Ecolc Ecolc] and [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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">[[4xsy\|4xsy]], [[4xsx\|4xsx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xsy\|4xsy]], [[4xsx\|4xsx]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rpoD, alt, b3067, JW3039 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [http://pdbe.org/4xsz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [http://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz 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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [http://pdbe.org/4xsz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [http://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz ProSAT]</span></td></tr>
Line 25:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: DNA-directed RNA polymerase]]		[[Category: DNA-directed RNA polymerase]]
		+	[[Category: Eco24]]
		+	[[Category: Ecolc]]
		+	[[Category: Ecoli]]
	[[Category: Bae, B]]		[[Category: Bae, B]]
	[[Category: Darst, S A]]		[[Category: Darst, S A]]
	[[Category: Bacterial rna polymerase antibiotic complex]]		[[Category: Bacterial rna polymerase antibiotic complex]]
	[[Category: Transcription-antibiotic complex]]		[[Category: Transcription-antibiotic complex]]

OCA at 14:12, 24 May 2017

2017-05-24T14:12:59Z

←Older revision		Revision as of 14:12, 24 May 2017
Line 1:		Line 1:
		+
	==Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme==		==Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme==
	<StructureSection load='4xsz' size='340' side='right' caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>		<StructureSection load='4xsz' size='340' side='right' caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xsy\|4xsy]], [[4xsx\|4xsx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xsy\|4xsy]], [[4xsx\|4xsx]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [http://www.ebi.ac.uk/pdbsum/4xsz 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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [http://pdbe.org/4xsz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [http://www.ebi.ac.uk/pdbsum/4xsz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xsz 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 4xsz" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:37, 5 August 2015

2015-08-05T13:37:25Z

←Older revision		Revision as of 13:37, 5 August 2015
Line 10:		Line 10:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/RPOZ_ECOLC RPOZ_ECOLC]] Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. [[http://www.uniprot.org/uniprot/RPOA_ECO24 RPOA_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOC_ECO24 RPOC_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOB_ECO24 RPOB_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOD_ECOLI RPOD_ECOLI]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium.		[[http://www.uniprot.org/uniprot/RPOZ_ECOLC RPOZ_ECOLC]] Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. [[http://www.uniprot.org/uniprot/RPOA_ECO24 RPOA_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOC_ECO24 RPOC_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOB_ECO24 RPOB_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOD_ECOLI RPOD_ECOLI]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	RNA polymerase inhibitors like the CBR class that target the enzyme's complex catalytic center are attractive leads for new antimicrobials. Catalysis by RNA polymerase involves multiple rearrangements of bridge helix, trigger loop, and active-center side chains that isomerize the triphosphate of bound NTP and two Mg2+ ions from a preinsertion state to a reactive configuration. CBR inhibitors target a crevice between the N-terminal portion of the bridge helix and a surrounding cap region within which the bridge helix is thought to rearrange during the nucleotide addition cycle. We report crystal structures of CBR inhibitor/Escherichia coli RNA polymerase complexes as well as biochemical tests that establish two distinct effects of the inhibitors on the RNA polymerase catalytic site. One effect involves inhibition of trigger-loop folding via the F loop in the cap, which affects both nucleotide addition and hydrolysis of 3'-terminal dinucleotides in certain backtracked complexes. The second effect is trigger-loop independent, affects only nucleotide addition and pyrophosphorolysis, and may involve inhibition of bridge-helix movements that facilitate reactive triphosphate alignment.
		+
		+	CBR antimicrobials inhibit RNA polymerase via at least two bridge-helix cap-mediated effects on nucleotide addition.,Bae B, Nayak D, Ray A, Mustaev A, Landick R, Darst SA Proc Natl Acad Sci U S A. 2015 Jul 20. pii: 201502368. PMID:26195788<ref>PMID:26195788</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:17, 22 July 2015

2015-07-22T14:17:48Z

←Older revision		Revision as of 14:17, 22 July 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme==
-		+	<StructureSection load='4xsz' size='340' side='right' caption='[[4xsz]], [[Resolution\|resolution]] 3.68Å' scene=''>
-	~~The entry~~ 4xsz is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4xsz]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/ ], [http://en.wikipedia.org/wiki/Escherichia_coli_(strain_atcc_8739_/_dsm_1576_/_crooks) Escherichia coli (strain atcc 8739 / dsm 1576 / crooks)] and [http://en.wikipedia.org/wiki/Escherichia_coli_o139:h28_(strain_e24377a_/_etec) Escherichia coli o139:h28 (strain e24377a / etec)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XSZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XSZ FirstGlance]. <br>
-	~~Authors~~: ~~Bae~~, B., ~~Darst~~, S.A.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=42U:4-[3-(4-FLUOROPHENYL)-1H-PYRAZOL-4-YL]-N-[2-(PIPERAZIN-1-YL)ETHYL]-2-(TRIFLUOROMETHYL)ANILINE'>42U</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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">[[4xsy\|4xsy]], [[4xsx\|4xsx]]</td></tr>
-	~~Description~~: ~~Crystal structure~~ of ~~CBR 9393 bound to Escherichia coli~~ RNA polymerase ~~holoenzyme~~	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=4xsz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xsz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4xsz RCSB], [http://www.ebi.ac.uk/pdbsum/4xsz PDBsum]</span></td></tr>
-	[[Category: ~~Darst, S.A~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RPOZ_ECOLC RPOZ_ECOLC]] Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. [[http://www.uniprot.org/uniprot/RPOA_ECO24 RPOA_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOC_ECO24 RPOC_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOB_ECO24 RPOB_ECO24]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOD_ECOLI RPOD_ECOLI]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: DNA-directed RNA polymerase]]
	[[Category: Bae, B]]		[[Category: Bae, B]]
		+	[[Category: Darst, S A]]
		+	[[Category: Bacterial rna polymerase antibiotic complex]]
		+	[[Category: Transcription-antibiotic complex]]

OCA at 12:21, 25 February 2015

2015-02-25T12:21:45Z

←Older revision		Revision as of 12:21, 25 February 2015
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Bae, B., Darst, S.A.		Authors: Bae, B., Darst, S.A.

OCA: Protected "4xsz" [edit=sysop:move=sysop]

2015-01-28T15:48:53Z

Protected "4xsz" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:48, 28 January 2015

OCA: New page: '''Unreleased structure''' The entry 4xsz is ON HOLD Authors: Bae, B., Darst, S.A. Description: Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme [[Cate...

2015-01-28T15:48:51Z

New page: '''Unreleased structure''' The entry 4xsz is ON HOLD Authors: Bae, B., Darst, S.A. Description: Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme [[Cate...

New page

'''Unreleased structure'''

The entry 4xsz is ON HOLD

Authors: Bae, B., Darst, S.A.

Description: Crystal structure of CBR 9393 bound to Escherichia coli RNA polymerase holoenzyme
[[Category: Unreleased Structures]]
[[Category: Darst, S.A]]
[[Category: Bae, B]]