1xpu - Revision history

OCA at 07:56, 15 May 2024

OCA — Wed, 15 May 2024 07:56:38 GMT

←Older revision		Revision as of 07:56, 15 May 2024
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	<StructureSection load='1xpu' size='340' side='right'caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>		<StructureSection load='1xpu' size='340' side='right'caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XPU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XPU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 3.05Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1xpo\|1xpo]], [[1xpr\|1xpr]]</div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [https://pdbe.org/1xpu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [https://www.ebi.ac.uk/pdbsum/1xpu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xpu 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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [https://pdbe.org/1xpu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [https://www.ebi.ac.uk/pdbsum/1xpu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xpu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~MEMA_METCA MEMA_METCA~~]~~] Responsible for the initial oxygenation of methane~~ to ~~methanol in methanotrophs. It also catalyzes~~ the ~~monohydroxylation~~ of ~~a variety of unactivated alkenes~~, ~~alicyclic, aromatic~~ and ~~heterocyclic compounds~~.	+	[https://www.uniprot.org/uniprot/RHO_ECOLI RHO_ECOLI] Facilitates transcription termination by a mechanism that involves rho binding to the nascent RNA, activation of rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template. RNA-dependent NTPAse which utilizes all four ribonucleoside triphosphates as substrates.[HAMAP-Rule:MF_01884]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Berger~~, J M~~]]	+	[[Category: Berger JM]]
-	[[Category: Brogan~~, A P~~]]	+	[[Category: Brogan AP]]
-	[[Category: Kohn, H]]	+	[[Category: Kohn H]]
-	[[Category: Park~~, B S~~]]	+	[[Category: Park BS]]
-	[[Category: Skordalakes, E]]	+	[[Category: Skordalakes E]]
-	~~[[Category: Atpgamma]]~~	+
-	~~[[Category: Rho transcription termination factor]]~~	+
-	~~[[Category: Transcription-rna complex~~]]	+

OCA at 16:18, 3 November 2021

OCA — Wed, 03 Nov 2021 16:18:01 GMT

←Older revision		Revision as of 16:18, 3 November 2021
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	<StructureSection load='1xpu' size='340' side='right'caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>		<StructureSection load='1xpu' size='340' side='right'caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XPU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XPU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1xpo\|1xpo]], [[1xpr\|1xpr]]</div></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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [~~http~~://pdbe.org/1xpu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xpu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xpu 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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [https://pdbe.org/1xpu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [https://www.ebi.ac.uk/pdbsum/1xpu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xpu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MEMA_METCA MEMA_METCA]] Responsible for the initial oxygenation of methane to methanol in methanotrophs. It also catalyzes the monohydroxylation of a variety of unactivated alkenes, alicyclic, aromatic and heterocyclic compounds.	+	[[https://www.uniprot.org/uniprot/MEMA_METCA MEMA_METCA]] Responsible for the initial oxygenation of methane to methanol in methanotrophs. It also catalyzes the monohydroxylation of a variety of unactivated alkenes, alicyclic, aromatic and heterocyclic compounds.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
	*[[Helicase 3D structures\|Helicase 3D structures]]		*[[Helicase 3D structures\|Helicase 3D structures]]
-	*[[Transcription Termination Factor Rho\|Transcription Termination Factor Rho]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:19, 22 January 2020

OCA — Wed, 22 Jan 2020 17:19:17 GMT

←Older revision		Revision as of 17:19, 22 January 2020
Line 1:		Line 1:

	==Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)==		==Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)==
-	<StructureSection load='1xpu' size='340' side='right' caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>	+	<StructureSection load='1xpu' size='340' side='right'caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Helicase\|Helicase]]	+	*[[Helicase 3D structures\|Helicase 3D structures]]
	*[[Transcription Termination Factor Rho\|Transcription Termination Factor Rho]]		*[[Transcription Termination Factor Rho\|Transcription Termination Factor Rho]]
	== References ==		== References ==
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Berger, J M]]		[[Category: Berger, J M]]
	[[Category: Brogan, A P]]		[[Category: Brogan, A P]]

OCA at 07:03, 18 April 2018

OCA — Wed, 18 Apr 2018 07:03:50 GMT

←Older revision		Revision as of 07:03, 18 April 2018
Line 1:		Line 1:
		+
	==Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)==		==Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)==
	<StructureSection load='1xpu' size='340' side='right' caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>		<StructureSection load='1xpu' size='340' side='right' caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://pdbe.org/1xpu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu 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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://pdbe.org/1xpu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xpu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xp/1xpu_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xp/1xpu_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>

OCA at 02:42, 10 February 2016

OCA — Wed, 10 Feb 2016 02:42:25 GMT

←Older revision		Revision as of 02:42, 10 February 2016
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	<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=1xpu ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:34, 11 September 2015

OCA — Fri, 11 Sep 2015 04:34:54 GMT

←Older revision		Revision as of 04:34, 11 September 2015
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	<StructureSection load='1xpu' size='340' side='right' caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>		<StructureSection load='1xpu' size='340' side='right' caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu 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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://pdbe.org/1xpu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 1xpu" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Berger, J M]]		[[Category: Berger, J M]]
	[[Category: Brogan, A P]]		[[Category: Brogan, A P]]

OCA at 11:13, 25 December 2014

OCA — Thu, 25 Dec 2014 11:13:41 GMT

←Older revision		Revision as of 11:13, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu 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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MEMA_METCA MEMA_METCA]] Responsible for the initial oxygenation of methane to methanol in methanotrophs. It also catalyzes the monohydroxylation of a variety of unactivated alkenes, alicyclic, aromatic and heterocyclic compounds.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Berger, J M.]]	+	[[Category: Berger, J M]]
-	[[Category: Brogan, A P.]]	+	[[Category: Brogan, A P]]
-	[[Category: Kohn, H.]]	+	[[Category: Kohn, H]]
-	[[Category: Park, B S.]]	+	[[Category: Park, B S]]
-	[[Category: Skordalakes, E.]]	+	[[Category: Skordalakes, E]]
	[[Category: Atpgamma]]		[[Category: Atpgamma]]
	[[Category: Rho transcription termination factor]]		[[Category: Rho transcription termination factor]]
	[[Category: Transcription-rna complex]]		[[Category: Transcription-rna complex]]

OCA at 18:24, 29 September 2014

OCA — Mon, 29 Sep 2014 18:24:46 GMT

←Older revision		Revision as of 18:24, 29 September 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1xpu\| PDB=1xpu \| SCENE= }}~~	+	==Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)==
-	===Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)===	+	<StructureSection load='1xpu' size='340' side='right' caption='[[1xpu]], [[Resolution\|resolution]] 3.05Å' scene=''>
-	~~{{ABSTRACT_PUBMED_15642265}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XPU FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AGS:PHOSPHOTHIOPHOSPHORIC+ACID-ADENYLATE+ESTER'>AGS</scene>, <scene name='pdbligand=FPD:5A-(3-FORMYLPHENYLSULFANYL)-DIHYDROBICYCLOMYCIN'>FPD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xpo\|1xpo]], [[1xpr\|1xpr]]</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=1xpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xpu RCSB], [http://www.ebi.ac.uk/pdbsum/1xpu 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/xp/1xpu_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 ==
		+	Rho is a hexameric RNA/DNA helicase/translocase that terminates transcription of select genes in bacteria. The naturally occurring antibiotic, bicyclomycin (BCM), acts as a noncompetitive inhibitor of ATP turnover to disrupt this process. We have determined three independent X-ray crystal structures of Rho complexed with BCM and two semisynthetic derivatives, 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB) and 5a-formylbicyclomycin (FB) to 3.15, 3.05, and 3.15 A resolution, respectively. The structures show that BCM and its derivatives are nonnucleotide inhibitors that interact with Rho at a pocket adjacent to the ATP and RNA binding sites in the C-terminal half of the protein. BCM association prevents ATP turnover by an unexpected mechanism, occluding the binding of the nucleophilic water molecule required for ATP hydrolysis. Our data explain why only certain elements of BCM have been amenable to modification and serve as a template for the design of new inhibitors.

-	~~==About this~~ Structure==	+	Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin.,Skordalakes E, Brogan AP, Park BS, Kohn H, Berger JM Structure. 2005 Jan;13(1):99-109. PMID:15642265<ref>PMID:15642265</ref>
-	~~[[1xpu]] is a 12 chain structure with sequence from [http~~:~~//en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=1XPU OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Helicase\|Helicase]]		*[[Helicase\|Helicase]]
	*[[Transcription Termination Factor Rho\|Transcription Termination Factor Rho]]		*[[Transcription Termination Factor Rho\|Transcription Termination Factor Rho]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015642265<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Berger, J M.]]		[[Category: Berger, J M.]]

OCA at 09:12, 11 March 2013

OCA — Mon, 11 Mar 2013 09:12:25 GMT

←Older revision		Revision as of 09:12, 11 March 2013
Line 1:		Line 1:
-	[[Image:1xpu.png\|left\|200px]]
-
	{{STRUCTURE_1xpu\| PDB=1xpu \| SCENE= }}		{{STRUCTURE_1xpu\| PDB=1xpu \| SCENE= }}
-
	===Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)===		===Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)===
-
	{{ABSTRACT_PUBMED_15642265}}		{{ABSTRACT_PUBMED_15642265}}

OCA at 16:02, 20 October 2012

OCA — Sat, 20 Oct 2012 16:02:52 GMT

←Older revision		Revision as of 16:02, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1xpu]] is a 12 chain structure ~~of [[Helicase]]~~ with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA].	+	[[1xpu]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPU OCA].

	==See Also==		==See Also==