1qaa - Revision history

OCA at 09:39, 8 September 2021

2021-09-08T09:39:40Z

← Older revision		Revision as of 09:39, 8 September 2021
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	<StructureSection load='1qaa' size='340' side='right'caption='[[1qaa]]' scene=''>		<StructureSection load='1qaa' size='340' side='right'caption='[[1qaa]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1QAA FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QAA FirstGlance]. <br>
	</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=1qaa FirstGlance], [~~http~~://www.ebi.ac.uk/pdbsum/1qaa PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1qaa ProSAT]</span></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=1qaa FirstGlance], [https://www.ebi.ac.uk/pdbsum/1qaa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qaa ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:01, 27 November 2019

2019-11-27T10:01:50Z

← Older revision		Revision as of 10:01, 27 November 2019
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	==KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR==		==KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR==
	<StructureSection load='1qaa' size='340' side='right' caption='[[1qaa]]' scene=''>		<StructureSection load='1qaa' size='340' side='right'caption='[[1qaa]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Theoretical Model]]		[[Category: Theoretical Model]]
			[[Category: Large Structures]]
	[[Category: Chattopadhyaya, R]]		[[Category: Chattopadhyaya, R]]
	[[Category: Ghosh, K]]		[[Category: Ghosh, K]]

OCA at 08:03, 24 February 2018

2018-02-24T08:03:13Z

← Older revision		Revision as of 08:03, 24 February 2018
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>
	</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=1qaa FirstGlance], [http://www.ebi.ac.uk/pdbsum/1qaa PDBsum]</span></td></tr>		</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=1qaa FirstGlance], [http://www.ebi.ac.uk/pdbsum/1qaa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1qaa ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:43, 11 February 2016

2016-02-11T09:43:07Z

← Older revision		Revision as of 09:43, 11 February 2016
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			{{Theoretical_model}}

	==KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR==		==KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR==
	<StructureSection load='1qaa' size='340' side='right' caption='[[1qaa]]' scene=''>		<StructureSection load='1qaa' size='340' side='right' caption='[[1qaa]]' scene=''>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Theoretical Model]]
	[[Category: Chattopadhyaya, R]]		[[Category: Chattopadhyaya, R]]
	[[Category: Ghosh, K]]		[[Category: Ghosh, K]]

OCA at 22:31, 10 September 2015

2015-09-10T22:31:05Z

← Older revision		Revision as of 22:31, 10 September 2015
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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 1qaa" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:55, 6 January 2015

2015-01-06T06:55:53Z

← Older revision		Revision as of 06:55, 6 January 2015
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>
	</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=1qaa FirstGlance], [http://www.ebi.ac.uk/pdbsum/1qaa PDBsum]</span></td></tr>		</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=1qaa FirstGlance], [http://www.ebi.ac.uk/pdbsum/1qaa PDBsum]</span></td></tr>
	<table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 19:29, 28 September 2014

2014-09-28T19:29:08Z

← Older revision		Revision as of 19:29, 28 September 2014
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	~~{{Theoretical_model}}~~		==KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR==
			<StructureSection load='1qaa' size='340' side='right' caption='[[1qaa]]' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QAA FirstGlance]. <br>
			</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=1qaa FirstGlance], [http://www.ebi.ac.uk/pdbsum/1qaa PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			A complete three dimensional model (RCSB000408; PDB code 1qaa) for the LexA repressor dimer bound to the recA operator site consistent with relevant biochemical and biophysical data for the repressor is proposed. A model of interaction of the N-terminal operator binding domain 1-72 with the operator was available. We have modelled residues 106-202 of LexA on the basis of the crystal structure of a homologous protein, UmuD'. Residues 70-105 have been modelled by us, residues 70-77 comprising the real hinge, followed by a beta-strand and an alpha-helix, both interacting with the rest of the C-domain. The preexponential Arrhenius factor for the LexA autocleavage is shown to be approximately 10(9) s(-1) at 298K whereas the exponential factor is approximately 2 x 10(-12), demanding that the autocleavage site is quite close to the catalytic site but reaction is slow due to an activation energy barrier. We propose that in the operator bound form, Ala 84- Gly 85 is about 7-10A from the catalytic groups, but the reaction does not occur as the geometry is not suitable for a nucleophilic attack from Ser 119 Ogamma, since Pro 87 is held in the cis conformation. When pH is elevated or under the action of activated RecA, cleavage may occur following a cis --> trans isomerization at Pro 87 and/or a rotation of the region beta9-beta10 about beta7-beta8 following the disruption of two hydrogen bonds. We show that the C-C interaction comprises the approach of two negatively charged surfaces neutralized by sodium ions, the C-domains of the monomers making a new beta barrel at the interface burying 710A2 of total surface area of each monomer.

	~~[[Image~~:~~1qaa~~.~~png\|left\|200px]]~~		Model of a LexA repressor dimer bound to recA operator.,Chattopadhyaya R, Ghosh K, Namboodiri VM J Biomol Struct Dyn. 2000 Oct;18(2):181-97. PMID:11089640<ref>PMID:11089640</ref>

	~~{{STRUCTURE_1qaa\| PDB=1qaa \| SCENE= }}~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~===KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR===~~		== References ==
			<references/>
	~~{{ABSTRACT_PUBMED_11089640}}~~		__TOC__
			</StructureSection>
	==~~Reference~~==
	<~~ref group="xtra">PMID:011089640<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Chattopadhyaya, R]]		[[Category: Chattopadhyaya, R]]
	[[Category: Ghosh, K]]		[[Category: Ghosh, K]]

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

2012-10-21T08:54:56Z

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

← Older revision	Revision as of 08:54, 21 October 2012
(No difference)

OCA at 08:54, 21 October 2012

2012-10-21T08:54:53Z

← Older revision		Revision as of 08:54, 21 October 2012
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	{{Theoretical_model}}		{{Theoretical_model}}
	~~{{Seed}}~~
	[[Image:1qaa.png\|left\|200px]]		[[Image:1qaa.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_1qaa", creates the "Structure Box" on the page.~~
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	{{STRUCTURE_1qaa\| PDB=1qaa \| SCENE= }}		{{STRUCTURE_1qaa\| PDB=1qaa \| SCENE= }}

	===KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR===		===KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_11089640}}, adds the Publication Abstract to the page~~
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	{{ABSTRACT_PUBMED_11089640}}		{{ABSTRACT_PUBMED_11089640}}

	~~==About this Structure==~~
	~~Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QAA OCA].~~

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~11089640~~</ref><references group="xtra"/>		<ref group="xtra">PMID:011089640</ref><references group="xtra"/>
	[[Category: Chattopadhyaya, R]]		[[Category: Chattopadhyaya, R]]
	[[Category: Ghosh, K]]		[[Category: Ghosh, K]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 07:14:55 2010''~~

OCA at 04:14, 8 April 2010

2010-04-08T04:14:56Z

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-'''Theoretical Model'''
+{{Theoretical_model}}
-The entry 1QAA is a Theoretical Model titled 'KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR'.
+<!--
-[[Category:Theoretical Model]]
+===KNOWLEDGE BASED MODEL OF A LEXA REPRESSOR DIMER (THEORETICAL MODEL) BOUND TO RECA OPERATOR===
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 30 09:52:50 2008''
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