4ckk - Revision history

OCA at 12:11, 20 December 2023

OCA — Wed, 20 Dec 2023 12:11:43 GMT

←Older revision		Revision as of 12:11, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CKK FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CKK FirstGlance]. <br>
-	</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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [https://pdbe.org/4ckk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [https://www.ebi.ac.uk/pdbsum/4ckk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ckk ProSAT]</span></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]] 1.9Å</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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [https://pdbe.org/4ckk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [https://www.ebi.ac.uk/pdbsum/4ckk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ckk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/A0A0H3JH39_ECO57 A0A0H3JH39_ECO57]] A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.[HAMAP-Rule:MF_01897]	+	[https://www.uniprot.org/uniprot/A0A0H3JH39_ECO57 A0A0H3JH39_ECO57] A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.[HAMAP-Rule:MF_01897]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:19, 14 September 2022

OCA — Wed, 14 Sep 2022 07:19:42 GMT

←Older revision		Revision as of 07:19, 14 September 2022
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	<StructureSection load='4ckk' size='340' side='right'caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4ckk' size='340' side='right'caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4CKK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CKK FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ckl\|4ckl]]</td></tr>~~	+	</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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [https://pdbe.org/4ckk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [https://www.ebi.ac.uk/pdbsum/4ckk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ckk ProSAT]</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_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] </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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [~~http~~://pdbe.org/4ckk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ckk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ckk ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/~~GYRA_SHIFL GYRA_SHIFL~~]] ~~DNA gyrase~~ negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and ~~also catalyzes~~ the interconversion of other topological isomers of ~~double-stranded DNA~~ rings, including catenanes and knotted rings ~~(By similarity)~~.	+	[[https://www.uniprot.org/uniprot/A0A0H3JH39_ECO57 A0A0H3JH39_ECO57]] A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.[HAMAP-Rule:MF_01897]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Edwards~~, M J~~]]	+	[[Category: Edwards MJ]]
-	[[Category: Hearnshaw~~, S J~~]]	+	[[Category: Hearnshaw SJ]]
-	[[Category: Lawson~~, D M~~]]	+	[[Category: Lawson DM]]
-	[[Category: Maxwell, A]]	+	[[Category: Maxwell A]]
-	[[Category: Stevenson~~, C E.M]]~~	+	[[Category: Stevenson CEM]]
-	~~[[Category: Antibiotic target]]~~	+
-	~~[[Category: Dna gyrase]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Topoisomerase~~]]	+

OCA at 16:28, 28 August 2019

OCA — Wed, 28 Aug 2019 16:28:16 GMT

←Older revision		Revision as of 16:28, 28 August 2019
Line 1:		Line 1:

	==Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit==		==Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit==
-	<StructureSection load='4ckk' size='340' side='right' caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4ckk' size='340' side='right'caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CKK FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CKK FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 4ckk" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4ckk" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Gyrase 3D Structures\|Gyrase 3D Structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Edwards, M J]]		[[Category: Edwards, M J]]
	[[Category: Hearnshaw, S J]]		[[Category: Hearnshaw, S J]]

OCA at 14:06, 15 November 2017

OCA — Wed, 15 Nov 2017 14:06:55 GMT

←Older revision		Revision as of 14:06, 15 November 2017
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 4ckk" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4ckk" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Gyrase\|Gyrase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 04:16, 5 August 2016

OCA — Fri, 05 Aug 2016 04:16:54 GMT

←Older revision		Revision as of 04:16, 5 August 2016
Line 1:		Line 1:
		+
	==Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit==		==Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit==
	<StructureSection load='4ckk' size='340' side='right' caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4ckk' size='340' side='right' caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>
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	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ckl\|4ckl]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ckl\|4ckl]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] </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_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] </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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [http://www.ebi.ac.uk/pdbsum/4ckk 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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [http://pdbe.org/4ckk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [http://www.ebi.ac.uk/pdbsum/4ckk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ckk ProSAT]</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 4ckk" style="background-color:#fffaf0;"></div>

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

OCA at 15:45, 25 December 2014

OCA — Thu, 25 Dec 2014 15:45:37 GMT

←Older revision		Revision as of 15:45, 25 December 2014
Line 2:		Line 2:
	<StructureSection load='4ckk' size='340' side='right' caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4ckk' size='340' side='right' caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. <br>	+	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CKK FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ckl\|4ckl]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ckl\|4ckl]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Glucokinase Glucokinase~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.~~2 2~~.7.1.2] </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_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] </span></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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [http://www.ebi.ac.uk/pdbsum/4ckk 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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [http://www.ebi.ac.uk/pdbsum/4ckk PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GYRA_SHIFL GYRA_SHIFL]] DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes the interconversion of other topological isomers of double-stranded DNA rings, including catenanes and knotted rings (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	A new crystal structure of the bifunctional antibiotic simocyclinone D8 bound to DNA gyrase gives fresh insight into the mechanism of inhibition.,Hearnshaw SJ, Edwards MJ, Stevenson CE, Lawson DM, Maxwell A J Mol Biol. 2014 Mar 1. pii: S0022-2836(14)00099-0. doi:, 10.1016/j.jmb.2014.02.017. PMID:24594357<ref>PMID:24594357</ref>		A new crystal structure of the bifunctional antibiotic simocyclinone D8 bound to DNA gyrase gives fresh insight into the mechanism of inhibition.,Hearnshaw SJ, Edwards MJ, Stevenson CE, Lawson DM, Maxwell A J Mol Biol. 2014 Mar 1. pii: S0022-2836(14)00099-0. doi:, 10.1016/j.jmb.2014.02.017. PMID:24594357<ref>PMID:24594357</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
		+
		+	==See Also==
		+	*[[Gyrase\|Gyrase]]
	== References ==		== References ==
	<references/>		<references/>
Line 20:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
-	[[Category: Edwards, M J.]]	+	[[Category: Edwards, M J]]
-	[[Category: Hearnshaw, S J.]]	+	[[Category: Hearnshaw, S J]]
-	[[Category: Lawson, D M.]]	+	[[Category: Lawson, D M]]
-	[[Category: Maxwell, A.]]	+	[[Category: Maxwell, A]]
-	[[Category: Stevenson, C E.M.]]	+	[[Category: Stevenson, C E.M]]
	[[Category: Antibiotic target]]		[[Category: Antibiotic target]]
	[[Category: Dna gyrase]]		[[Category: Dna gyrase]]
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Topoisomerase]]		[[Category: Topoisomerase]]

OCA at 06:47, 14 May 2014

OCA — Wed, 14 May 2014 06:47:02 GMT

←Older revision		Revision as of 06:47, 14 May 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4ckk\| PDB=4ckk \| SCENE= }}~~	+	==Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit==
-	===Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit===	+	<StructureSection load='4ckk' size='340' side='right' caption='[[4ckk]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24594357}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4ckk]] is a 4 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=4CKK OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ckl\|4ckl]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></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=4ckk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ckk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ckk RCSB], [http://www.ebi.ac.uk/pdbsum/4ckk PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Simocyclinone D8 (SD8) is an antibiotic produced by Streptomyces antibioticus that targets DNA gyrase. A previous structure of SD8 complexed with the N-terminal domain of the DNA gyrase A protein (GyrA) suggested that four SD8 molecules stabilised a tetramer of the protein; subsequent mass-spectrometry experiments suggested that a protein dimer with two symmetry-related SD8s was more likely. This work describes the structures of a further truncated form of the GyrA N-terminal domain fragment with and without SD8 bound. The structure with SD8 has the two SD8 molecules bound within the same GyrA dimer. This new structure is entirely consistent with the mutations in GyrA that confer SD8 resistance and, by comparison with a new apo structure of the GyrA N-terminal domain, reveals the likely conformation changes that occur upon SD8 binding, and the detailed mechanism of SD8 inhibition of gyrase. Isothermal titration calorimetry experiments are consistent with the crystallography results and further suggest that a previously observed complex between SD8 and GyrB is ~1000-fold weaker than the interaction with GyrA.

-	~~==Function==~~	+	A new crystal structure of the bifunctional antibiotic simocyclinone D8 bound to DNA gyrase gives fresh insight into the mechanism of inhibition.,Hearnshaw SJ, Edwards MJ, Stevenson CE, Lawson DM, Maxwell A J Mol Biol. 2014 Mar 1. pii: S0022-2836(14)00099-0. doi:, 10.1016/j.jmb.2014.02.017. PMID:24594357<ref>PMID:24594357</ref>
-	~~[[http://www.uniprot.org/uniprot/GYRA_SHIFL GYRA_SHIFL]]~~ DNA gyrase ~~negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes~~ the ~~interconversion~~ of ~~other topological isomers of double-stranded DNA rings~~, ~~including catenanes and knotted rings~~ (~~By similarity~~).	+

-	~~==About this Structure==~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-	~~[[4ckk]] is~~ a ~~4 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4CKK OCA].~~	+	</div>
-		+	== References ==
-	==~~See Also==~~	+	<references/>
-	*[[Gyrase\|Gyrase]]	+	__TOC__
-		+	</StructureSection>
-	~~==Reference~~==	+	[[Category: Bacillus coli migula 1895]]
-	~~<ref group="xtra">PMID:024594357</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+
	[[Category: Edwards, M J.]]		[[Category: Edwards, M J.]]
	[[Category: Hearnshaw, S J.]]		[[Category: Hearnshaw, S J.]]

OCA at 08:48, 19 March 2014

OCA — Wed, 19 Mar 2014 08:48:52 GMT

←Older revision		Revision as of 08:48, 19 March 2014
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	{{STRUCTURE_4ckk\| PDB=4ckk \| SCENE= }}		{{STRUCTURE_4ckk\| PDB=4ckk \| SCENE= }}
	===Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit===		===Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit===
		+	{{ABSTRACT_PUBMED_24594357}}

	==Function==		==Function==
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	==About this Structure==		==About this Structure==
	[[4ckk]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CKK OCA].		[[4ckk]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CKK OCA].
		+
		+	==See Also==
		+	*[[Gyrase\|Gyrase]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:024594357</ref><references group="xtra"/><references/>
	[[Category: Edwards, M J.]]		[[Category: Edwards, M J.]]
	[[Category: Hearnshaw, S J.]]		[[Category: Hearnshaw, S J.]]

OCA at 13:56, 12 March 2014

OCA — Wed, 12 Mar 2014 13:56:02 GMT

←Older revision		Revision as of 13:56, 12 March 2014
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4ckk\| PDB=4ckk \| SCENE= }}
		+	===Apo structure of 55 kDa N-terminal domain of E. coli DNA gyrase A subunit===

-	~~The entry 4ckk is ON HOLD until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/GYRA_SHIFL GYRA_SHIFL]] DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes the interconversion of other topological isomers of double-stranded DNA rings, including catenanes and knotted rings (By similarity).

-	~~Authors~~: ~~Hearnshaw, S~~.J., Edwards, M.J., ~~Stevenson, C~~.~~E.M.,~~ Lawson, D.M., Maxwell, A.	+	==About this Structure==
-		+	[[4ckk]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CKK OCA].
-	~~Description~~: ~~Apo structure of 55 kDa N-terminal domain of~~ E. ~~coli DNA~~ gyrase ~~A subunit~~	+	[[Category: Edwards, M J.]]
		+	[[Category: Hearnshaw, S J.]]
		+	[[Category: Lawson, D M.]]
		+	[[Category: Maxwell, A.]]
		+	[[Category: Stevenson, C E.M.]]
		+	[[Category: Antibiotic target]]
		+	[[Category: Dna gyrase]]
		+	[[Category: Isomerase]]
		+	[[Category: Topoisomerase]]

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

OCA — Wed, 15 Jan 2014 07:27:02 GMT

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

←Older revision

Revision as of 07:27, 15 January 2014