4ely - Revision history

OCA at 15:04, 14 March 2024

2024-03-14T15:04:40Z

← Older revision		Revision as of 15:04, 14 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aliivibrio_fischeri Aliivibrio fischeri] and [https://en.wikipedia.org/wiki/Shigella_flexneri Shigella flexneri]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ELY FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aliivibrio_fischeri Aliivibrio fischeri] and [https://en.wikipedia.org/wiki/Shigella_flexneri Shigella flexneri]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ELY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.932Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [https://pdbe.org/4ely PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [https://www.ebi.ac.uk/pdbsum/4ely PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ely 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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [https://pdbe.org/4ely PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [https://www.ebi.ac.uk/pdbsum/4ely PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ely ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://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/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;">~~
	~~== Publication Abstract from PubMed ==~~
	Toxin-antitoxin (TA) modules are small operons associated with stress response of bacteria. F-plasmid CcdB(F) was the first TA toxin for which its target, gyrase, was identified. Plasmidic and chromosomal CcdBs belong to distinct families. Conserved residues crucial for gyrase poisoning activity of plasmidic CcdBs are not conserved among these families. Here we show that the chromosomal CcdB(Vfi) from Vibrio fischeri is an active gyrase poison that interacts with its target via an alternative energetic mechanism. Changes in the GyrA14-binding surface of the Vibrio and F-plasmid CcdB family members illustrate neutral drift where alternative interactions can be used to achieve the same functionality. Differences in affinity between V. fischeri and F-plasmid CcdB for gyrase and their corresponding CcdA antitoxin possibly reflect distinct roles for TA modules located on plasmids and chromosomes.

	Alternative interactions define gyrase specificity in the CcdB family.,De Jonge N, Simic M, Buts L, Haesaerts S, Roelants K, Garcia-Pino A, Sterckx Y, De Greve H, Lah J, Loris R Mol Microbiol. 2012 Jun;84(5):965-978. doi: 10.1111/j.1365-2958.2012.08069.x., Epub 2012 May 14. PMID:22582791<ref>PMID:22582791</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 4ely" style="background-color:#fffaf0;"></div>~~

	==See Also==		==See Also==
	*[[Gyrase 3D Structures\|Gyrase 3D Structures]]		*[[Gyrase 3D Structures\|Gyrase 3D Structures]]
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:17, 28 September 2022

2022-09-28T07:17:37Z

← Older revision		Revision as of 07:17, 28 September 2022
Line 1:		Line 1:

	==CCDBVFI:GYRA14EC==		==CCDBVFI:GYRA14EC==
	<StructureSection load='4ely' size='340' side='right' caption='[[4ely]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4ely' size='340' side='right'caption='[[4ely]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"achromobacter_fischeri"_(beijerinck_1889)_bergey_et_al._1930 "achromobacter~~ fischeri~~" (beijerinck 1889) bergey et al. 1930~~] and [~~http~~://en.wikipedia.org/wiki/~~"shigella_paradysenteriae"_weldin_1927 "shigella paradysenteriae" weldin 1927~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ELY FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aliivibrio_fischeri Aliivibrio fischeri] and [https://en.wikipedia.org/wiki/Shigella_flexneri Shigella flexneri]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ELY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene~~></td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jsc\|3jsc]], [[3jrz\|3jrz]], [[4elz\|4elz]]</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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [https://pdbe.org/4ely PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [https://www.ebi.ac.uk/pdbsum/4ely PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ely ProSAT]</span></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gyrA, GYRASE, S2444, SF2311 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=623 "Shigella paradysenteriae" Weldin 1927]), ccdB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=668 "Achromobacter fischeri" (Beijerinck 1889) Bergey et al. 1930])</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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [~~http~~://pdbe.org/4ely PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ely PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ely 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/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 ==
Line 23:		Line 20:

	==See Also==		==See Also==
	*[[Gyrase\|Gyrase]]		*[[Gyrase 3D Structures\|Gyrase 3D Structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Shigella paradysenteriae weldin 1927~~]]		[[Category: Aliivibrio fischeri]]
	[[Category: ~~Buts, L~~]]		[[Category: Large Structures]]
	[[Category: ~~Garcia-Pino, A~~]]		[[Category: Shigella flexneri]]
	[[Category: ~~Greve, H De~~]]		[[Category: Buts L]]
	[[Category: ~~Haesaerts, S~~]]		[[Category: De Greve H]]
	[[Category: Jonge, N De]]		[[Category: De Jonge N]]
	[[Category: ~~Lah, J~~]]		[[Category: Garcia-Pino A]]
	[[Category: ~~Loris, R~~]]		[[Category: Haesaerts S]]
	[[Category: ~~Roelants, K~~]]		[[Category: Lah J]]
	[[Category: ~~Simic,~~ R]]		[[Category: Loris R]]
	[[Category: ~~Sterckx, Y~~]]		[[Category: Roelants K]]
	[[Category: ~~Alpha+beta~~]]		[[Category: Simic R]]
	[[Category: ~~Topoisomerase]]~~		[[Category: Sterckx Y]]
	~~[[Category: Toxin-isomerase complex~~]]

OCA at 14:09, 5 August 2016

2016-08-05T14:09:33Z

← Older revision		Revision as of 14:09, 5 August 2016
Line 1:		Line 1:

	==CCDBVFI:GYRA14EC==		==CCDBVFI:GYRA14EC==
	<StructureSection load='4ely' size='340' side='right' caption='[[4ely]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4ely' size='340' side='right' caption='[[4ely]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aliivibrio_fischeri Aliivibrio~~ fischeri] and [http://en.wikipedia.org/wiki/~~Shigella_flexneri Shigella flexneri~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ELY FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_fischeri"_(beijerinck_1889)_bergey_et_al._1930 "achromobacter fischeri" (beijerinck 1889) bergey et al. 1930] and [http://en.wikipedia.org/wiki/"shigella_paradysenteriae"_weldin_1927 "shigella paradysenteriae" weldin 1927]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ELY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jsc\|3jsc]], [[3jrz\|3jrz]], [[4elz\|4elz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jsc\|3jsc]], [[3jrz\|3jrz]], [[4elz\|4elz]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gyrA, GYRASE, S2444, SF2311 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=623 Shigella ~~flexneri~~]), ccdB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=668 ~~Aliivibrio~~ fischeri])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gyrA, GYRASE, S2444, SF2311 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=623 "Shigella paradysenteriae" Weldin 1927]), ccdB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=668 "Achromobacter fischeri" (Beijerinck 1889) Bergey et al. 1930])</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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [http://www.ebi.ac.uk/pdbsum/4ely 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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [http://pdbe.org/4ely PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [http://www.ebi.ac.uk/pdbsum/4ely PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ely ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 4ely" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Aliivibrio fischeri]]~~		[[Category: Shigella paradysenteriae weldin 1927]]
	[[Category: Shigella ~~flexneri~~]]
	[[Category: Buts, L]]		[[Category: Buts, L]]
	[[Category: Garcia-Pino, A]]		[[Category: Garcia-Pino, A]]

OCA at 03:08, 25 December 2014

2014-12-25T03:08:18Z

← Older revision		Revision as of 03:08, 25 December 2014
Line 1:		Line 1:
	[[~~Image~~:~~4ely~~.~~png~~\|~~left~~\|~~200px~~]]		==CCDBVFI:GYRA14EC==
			<StructureSection load='4ely' size='340' side='right' caption='[[4ely]], [[Resolution\|resolution]] 1.93Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4ely]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aliivibrio_fischeri Aliivibrio fischeri] and [http://en.wikipedia.org/wiki/Shigella_flexneri Shigella flexneri]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ELY FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3jsc\|3jsc]], [[3jrz\|3jrz]], [[4elz\|4elz]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">gyrA, GYRASE, S2444, SF2311 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=623 Shigella flexneri]), ccdB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=668 Aliivibrio fischeri])</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=4ely FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ely OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ely RCSB], [http://www.ebi.ac.uk/pdbsum/4ely PDBsum]</span></td></tr>
			</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;">
			== Publication Abstract from PubMed ==
			Toxin-antitoxin (TA) modules are small operons associated with stress response of bacteria. F-plasmid CcdB(F) was the first TA toxin for which its target, gyrase, was identified. Plasmidic and chromosomal CcdBs belong to distinct families. Conserved residues crucial for gyrase poisoning activity of plasmidic CcdBs are not conserved among these families. Here we show that the chromosomal CcdB(Vfi) from Vibrio fischeri is an active gyrase poison that interacts with its target via an alternative energetic mechanism. Changes in the GyrA14-binding surface of the Vibrio and F-plasmid CcdB family members illustrate neutral drift where alternative interactions can be used to achieve the same functionality. Differences in affinity between V. fischeri and F-plasmid CcdB for gyrase and their corresponding CcdA antitoxin possibly reflect distinct roles for TA modules located on plasmids and chromosomes.

	~~{{STRUCTURE_4ely\| PDB=4ely \| SCENE= }}~~		Alternative interactions define gyrase specificity in the CcdB family.,De Jonge N, Simic M, Buts L, Haesaerts S, Roelants K, Garcia-Pino A, Sterckx Y, De Greve H, Lah J, Loris R Mol Microbiol. 2012 Jun;84(5):965-978. doi: 10.1111/j.1365-2958.2012.08069.x., Epub 2012 May 14. PMID:22582791<ref>PMID:22582791</ref>

	~~===CCDBVFI:GYRA14EC===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>

	~~{{ABSTRACT_PUBMED_22582791}}~~		==See Also==
			*[[Gyrase\|Gyrase]]
	==~~About this Structure~~==		== References ==
	[[4ely]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aliivibrio_fischeri Aliivibrio fischeri] and [http://en.wikipedia.org/wiki/Shigella_flexneri Shigella flexneri]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ku8 3ku8]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ELY OCA~~].		<references/>
			__TOC__
	==~~Reference~~==		</StructureSection>
	<~~ref group="xtra">PMID:022582791<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Aliivibrio fischeri]]		[[Category: Aliivibrio fischeri]]
	[[Category: Shigella flexneri]]		[[Category: Shigella flexneri]]
	[[Category: Buts, L.]]		[[Category: Buts, L]]
	[[Category: Garcia-Pino, A.]]		[[Category: Garcia-Pino, A]]
	[[Category: Greve, H De.]]		[[Category: Greve, H De]]
	[[Category: Haesaerts, S.]]		[[Category: Haesaerts, S]]
	[[Category: Jonge, N De.]]		[[Category: Jonge, N De]]
	[[Category: Lah, J.]]		[[Category: Lah, J]]
	[[Category: Loris, R.]]		[[Category: Loris, R]]
	[[Category: Roelants, K.]]		[[Category: Roelants, K]]
	[[Category: Simic, R.]]		[[Category: Simic, R]]
	[[Category: Sterckx, Y.]]		[[Category: Sterckx, Y]]
	[[Category: Alpha+beta]]		[[Category: Alpha+beta]]
	[[Category: Topoisomerase]]		[[Category: Topoisomerase]]
	[[Category: Toxin-isomerase complex]]		[[Category: Toxin-isomerase complex]]

OCA at 08:17, 2 January 2013

2013-01-02T08:17:16Z

← Older revision		Revision as of 08:17, 2 January 2013
Line 1:		Line 1:
	[[Image:4ely.~~jpg~~\|left\|200px]]		[[Image:4ely.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_4ely", 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_4ely\| PDB=4ely \| SCENE= }}		{{STRUCTURE_4ely\| PDB=4ely \| SCENE= }}

	===CCDBVFI:GYRA14EC===		===CCDBVFI:GYRA14EC===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_22582791}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 22582791 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_22582791}}		{{ABSTRACT_PUBMED_22582791}}

OCA at 05:48, 30 May 2012

2012-05-30T05:48:27Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:4ely.jpg|left|200px]]
-The entry 4ely is ON HOLD  until Paper Publication
+<!--
-Authors: De Jonge, N., Simic, R., Buts, L., Haesaerts, S., Roelants, K., Garcia-Pino, A., Sterckx, Y., De Greve, H., Lah, J., Loris, R.
+===CCDBVFI:GYRA14EC===
-Description: CCDBVFI:GYRA14EC

OCA at 05:37, 23 May 2012

2012-05-23T05:37:45Z

← Older revision		Revision as of 05:37, 23 May 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4ely is ON HOLD		The entry 4ely is ON HOLD until Paper Publication

	Authors: De Jonge, N., Simic, R., Buts, L., Haesaerts, S., Roelants, K., Garcia-Pino, A., Sterckx, Y., De Greve, H., Lah, J., Loris, R.		Authors: De Jonge, N., Simic, R., Buts, L., Haesaerts, S., Roelants, K., Garcia-Pino, A., Sterckx, Y., De Greve, H., Lah, J., Loris, R.

	Description: CCDBVFI:GYRA14EC		Description: CCDBVFI:GYRA14EC

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

2012-04-18T07:35:09Z

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

← Older revision	Revision as of 07:35, 18 April 2012
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4ely is ON HOLD Authors: De Jonge, N., Simic, R., Buts, L., Haesaerts, S., Roelants, K., Garcia-Pino, A., Sterckx, Y., De Greve, H., Lah, J., Loris,...

2012-04-18T07:35:08Z

New page: '''Unreleased structure''' The entry 4ely is ON HOLD Authors: De Jonge, N., Simic, R., Buts, L., Haesaerts, S., Roelants, K., Garcia-Pino, A., Sterckx, Y., De Greve, H., Lah, J., Loris,...

New page

'''Unreleased structure'''

The entry 4ely is ON HOLD

Authors: De Jonge, N., Simic, R., Buts, L., Haesaerts, S., Roelants, K., Garcia-Pino, A., Sterckx, Y., De Greve, H., Lah, J., Loris, R.

Description: CCDBVFI:GYRA14EC