1s14 - Revision history

OCA at 08:27, 14 February 2024

OCA — Wed, 14 Feb 2024 08:27:22 GMT

←Older revision		Revision as of 08:27, 14 February 2024
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	<StructureSection load='1s14' size='340' side='right'caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1s14' size='340' side='right'caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1S14 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S14 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</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]] 2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'~~>~~[[1s16\|1s16]]~~<~~/div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [https://pdbe.org/1s14 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [https://www.ebi.ac.uk/pdbsum/1s14 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s14 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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [~~http~~://pdbe.org/1s14 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1s14 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1s14 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PARE_ECOLI PARE_ECOLI]] Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule. MukB stimulates the relaxation activity of topoisomerase IV and also has a modest effect on decatenation.<ref>PMID:21300644</ref> <ref>PMID:15105144</ref> <ref>PMID:20921377</ref>	+	[https://www.uniprot.org/uniprot/PARE_ECOLI PARE_ECOLI] Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule. MukB stimulates the relaxation activity of topoisomerase IV and also has a modest effect on decatenation.<ref>PMID:21300644</ref> <ref>PMID:15105144</ref> <ref>PMID:20921377</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		Line 20:
	</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=1s14 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=1s14 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Topoisomerase IV and DNA gyrase are related bacterial type II topoisomerases that utilize the free energy from ATP hydrolysis to catalyze topological changes in the bacterial genome. The essential function of DNA gyrase is the introduction of negative DNA supercoils into the genome, whereas the essential function of topoisomerase IV is to decatenate daughter chromosomes following replication. Here, we report the crystal structures of a 43-kDa N-terminal fragment of Escherichia coli topoisomerase IV ParE subunit complexed with adenylyl-imidodiphosphate at 2.0-A resolution and a 24-kDa N-terminal fragment of the ParE subunit complexed with novobiocin at 2.1-A resolution. The solved ParE structures are strikingly similar to the known gyrase B (GyrB) subunit structures. We also identified single-position equivalent amino acid residues in ParE (M74) and in GyrB (I78) that, when exchanged, increased the potency of novobiocin against topoisomerase IV by nearly 20-fold (to 12 nM). The corresponding exchange in gyrase (I78 M) yielded a 20-fold decrease in the potency of novobiocin (to 1.0 micro M). These data offer an explanation for the observation that novobiocin is significantly less potent against topoisomerase IV than against DNA gyrase. Additionally, the enzyme kinetic parameters were affected. In gyrase, the ATP K(m) increased approximately 5-fold and the V(max) decreased approximately 30%. In contrast, the topoisomerase IV ATP K(m) decreased by a factor of 6, and the V(max) increased approximately 2-fold from the wild-type values. These data demonstrate that the ParE M74 and GyrB I78 side chains impart opposite effects on the enzyme's substrate affinity and catalytic efficiency.
-
-	Crystal structures of Escherichia coli topoisomerase IV ParE subunit (24 and 43 kilodaltons): a single residue dictates differences in novobiocin potency against topoisomerase IV and DNA gyrase.,Bellon S, Parsons JD, Wei Y, Hayakawa K, Swenson LL, Charifson PS, Lippke JA, Aldape R, Gross CH Antimicrob Agents Chemother. 2004 May;48(5):1856-64. PMID:15105144<ref>PMID:15105144</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1s14" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gross~~, C H~~]]	+	[[Category: Gross CH]]
-	[[Category: Wei, Y]]	+	[[Category: Wei Y]]
-	~~[[Category: Alpha/beta globular protein]]~~	+
-	~~[[Category: Isomerase~~]]	+

OCA at 13:37, 16 December 2020

OCA — Wed, 16 Dec 2020 13:37:52 GMT

←Older revision		Revision as of 13:37, 16 December 2020
Line 1:		Line 1:

	==Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit==		==Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit==
-	<StructureSection load='1s14' size='340' side='right' caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='1s14' size='340' side='right'caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1S14 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1S14 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1s16\|1s16]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://pdbe.org/1s14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s14 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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://pdbe.org/1s14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s14 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Topoisomerase\|Topoisomerase]]	+	*[[Topoisomerase 3D structures\|Topoisomerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Gross, C H]]		[[Category: Gross, C H]]
	[[Category: Wei, Y]]		[[Category: Wei, Y]]
	[[Category: Alpha/beta globular protein]]		[[Category: Alpha/beta globular protein]]
	[[Category: Isomerase]]		[[Category: Isomerase]]

OCA at 06:55, 8 March 2018

OCA — Thu, 08 Mar 2018 06:55:32 GMT

←Older revision		Revision as of 06:55, 8 March 2018
Line 1:		Line 1:
		+
	==Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit==		==Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit==
	<StructureSection load='1s14' size='340' side='right' caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1s14' size='340' side='right' caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://pdbe.org/1s14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://pdbe.org/1s14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s14 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/s1/1s14_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/s1/1s14_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 18:44, 7 February 2016

OCA — Sun, 07 Feb 2016 18:44:02 GMT

←Older revision		Revision as of 18:44, 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=1s14 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:09, 10 September 2015

OCA — Thu, 10 Sep 2015 04:09:17 GMT

←Older revision		Revision as of 04:09, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1s14' size='340' side='right' caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1s14' size='340' side='right' caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S14 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S14 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://pdbe.org/1s14 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 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 1s14" 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: Gross, C H]]		[[Category: Gross, C H]]
	[[Category: Wei, Y]]		[[Category: Wei, Y]]
	[[Category: Alpha/beta globular protein]]		[[Category: Alpha/beta globular protein]]
	[[Category: Isomerase]]		[[Category: Isomerase]]

OCA at 17:31, 24 December 2014

OCA — Wed, 24 Dec 2014 17:31:59 GMT

←Older revision		Revision as of 17:31, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S14 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S14 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PARE_ECOLI PARE_ECOLI]] Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule. MukB stimulates the relaxation activity of topoisomerase IV and also has a modest effect on decatenation.<ref>PMID:21300644</ref> <ref>PMID:15105144</ref> <ref>PMID:20921377</ref>
	== 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: Gross, C H.]]	+	[[Category: Gross, C H]]
-	[[Category: Wei, Y.]]	+	[[Category: Wei, Y]]
	[[Category: Alpha/beta globular protein]]		[[Category: Alpha/beta globular protein]]
	[[Category: Isomerase]]		[[Category: Isomerase]]

OCA at 19:36, 28 September 2014

OCA — Sun, 28 Sep 2014 19:36:59 GMT

←Older revision		Revision as of 19:36, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1s14.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit==
		+	<StructureSection load='1s14' size='340' side='right' caption='[[1s14]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1s14]] is a 2 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=1S14 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S14 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s16\|1s16]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PARE, NFXD, B3030 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=1s14 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s14 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s14 RCSB], [http://www.ebi.ac.uk/pdbsum/1s14 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/s1/1s14_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 ==
		+	Topoisomerase IV and DNA gyrase are related bacterial type II topoisomerases that utilize the free energy from ATP hydrolysis to catalyze topological changes in the bacterial genome. The essential function of DNA gyrase is the introduction of negative DNA supercoils into the genome, whereas the essential function of topoisomerase IV is to decatenate daughter chromosomes following replication. Here, we report the crystal structures of a 43-kDa N-terminal fragment of Escherichia coli topoisomerase IV ParE subunit complexed with adenylyl-imidodiphosphate at 2.0-A resolution and a 24-kDa N-terminal fragment of the ParE subunit complexed with novobiocin at 2.1-A resolution. The solved ParE structures are strikingly similar to the known gyrase B (GyrB) subunit structures. We also identified single-position equivalent amino acid residues in ParE (M74) and in GyrB (I78) that, when exchanged, increased the potency of novobiocin against topoisomerase IV by nearly 20-fold (to 12 nM). The corresponding exchange in gyrase (I78 M) yielded a 20-fold decrease in the potency of novobiocin (to 1.0 micro M). These data offer an explanation for the observation that novobiocin is significantly less potent against topoisomerase IV than against DNA gyrase. Additionally, the enzyme kinetic parameters were affected. In gyrase, the ATP K(m) increased approximately 5-fold and the V(max) decreased approximately 30%. In contrast, the topoisomerase IV ATP K(m) decreased by a factor of 6, and the V(max) increased approximately 2-fold from the wild-type values. These data demonstrate that the ParE M74 and GyrB I78 side chains impart opposite effects on the enzyme's substrate affinity and catalytic efficiency.

-	~~{{STRUCTURE_1s14\| PDB=1s14 \| SCENE= }}~~	+	Crystal structures of Escherichia coli topoisomerase IV ParE subunit (24 and 43 kilodaltons): a single residue dictates differences in novobiocin potency against topoisomerase IV and DNA gyrase.,Bellon S, Parsons JD, Wei Y, Hayakawa K, Swenson LL, Charifson PS, Lippke JA, Aldape R, Gross CH Antimicrob Agents Chemother. 2004 May;48(5):1856-64. PMID:15105144<ref>PMID:15105144</ref>

-	~~===Crystal structure~~ of ~~Escherichia coli Topoisomerase IV ParE 24kDa subunit===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15105144}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1s14]] is a 2 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=1S14 OCA].~~	+

	==See Also==		==See Also==
	*[[Topoisomerase\|Topoisomerase]]		*[[Topoisomerase\|Topoisomerase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015105144<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Gross, C H.]]		[[Category: Gross, C H.]]

OCA at 07:33, 20 October 2012

OCA — Sat, 20 Oct 2012 07:33:23 GMT

←Older revision		Revision as of 07:33, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1s14]] is a 2 chain structure ~~of [[Topoisomerase]]~~ 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=1S14 OCA].	+	[[1s14]] is a 2 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=1S14 OCA].

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

OCA at 16:42, 25 July 2012

OCA — Wed, 25 Jul 2012 16:42:20 GMT

←Older revision		Revision as of 16:42, 25 July 2012
Line 1:		Line 1:
	[[Image:1s14.png\|left\|200px]]		[[Image:1s14.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1s14", 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_1s14\| PDB=1s14 \| SCENE= }}		{{STRUCTURE_1s14\| PDB=1s14 \| SCENE= }}

	===Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit===		===Crystal structure of Escherichia coli Topoisomerase IV ParE 24kDa subunit===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15105144}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15105144 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15105144}}		{{ABSTRACT_PUBMED_15105144}}

Line 22:		Line 11:

	==See Also==		==See Also==
-	*[[Topoisomerase]]	+	*[[Topoisomerase\|Topoisomerase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15105144~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015105144</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Gross, C H.]]		[[Category: Gross, C H.]]

OCA: Protected "1s14" [edit=sysop:move=sysop]

OCA — Sun, 26 Dec 2010 08:49:12 GMT

Protected "1s14" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:49, 26 December 2010