1lli - Revision history

OCA at 07:34, 14 February 2024

OCA — Wed, 14 Feb 2024 07:34:04 GMT

←Older revision		Revision as of 07:34, 14 February 2024
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	<StructureSection load='1lli' size='340' side='right'caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1lli' size='340' side='right'caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bacteriophage_lambda Bacteriophage lambda~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_Lambda Escherichia virus Lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LLI 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [https://pdbe.org/1lli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [https://www.ebi.ac.uk/pdbsum/1lli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lli 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]] 2.1Å</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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [https://pdbe.org/1lli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [https://www.ebi.ac.uk/pdbsum/1lli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lli ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RPC1_LAMBD RPC1_LAMBD]] Repressor protein CI allows phage lambda to reside inactively in the chromosome of its host bacterium. This lysogenic state is maintained by binding of regulatory protein CI to the OR and OL operators, preventing transcription of proteins necessary for lytic development.	+	[https://www.uniprot.org/uniprot/RPC1_LAMBD RPC1_LAMBD] Repressor protein CI allows phage lambda to reside inactively in the chromosome of its host bacterium. This lysogenic state is maintained by binding of regulatory protein CI to the OR and OL operators, preventing transcription of proteins necessary for lytic development.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1lli 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=1lli ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The dense packing observed in protein interiors appears to be crucial for stabilizing the native structure--even subtle internal substitutions are usually destabilizing. Thus, steric complementarity of core residues is thought to be an important criterion for "inverse folding" predictive methods, which judge whether a newly determined sequence is consistent with any known folds. A major problem in the development of useful core packing evaluation algorithms, however, is that there are occasional mutations that are predicted to disrupt native packing but that yield an equally or more stable protein. We have solved the crystal structure of such a variant of lambda repressor, which, despite having three larger core substitutions, is more stable than the wild type. The structure reveals that the protein accommodates the potentially disruptive residues with shifts in its alpha-helical arrangement. The variant is apparently more stable because its packing is improved--the core has a higher packing density and little geometric strain. These rearrangements, however, cause repositioning of functional residues, which result in reduced DNA binding activity. By comparing these results with the predictions of two core packing algorithms, it is clear that the protein possesses a relatively high degree of main-chain flexibility that must be accounted for in order to predict the full spectrum of compatible core sequences. This study also shows how, in protein evolution, a particular set of core residue identities might be selected not because they provide optimal stability but because they provide sufficient stability in addition to the precise structure required for optimal activity.
-
-	The crystal structure of a mutant protein with altered but improved hydrophobic core packing.,Lim WA, Hodel A, Sauer RT, Richards FM Proc Natl Acad Sci U S A. 1994 Jan 4;91(1):423-7. PMID:8278404<ref>PMID:8278404</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacteriophage lambda~~]]	+	[[Category: Escherichia virus Lambda]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hodel, A]]	+	[[Category: Hodel A]]
-	[[Category: Lim~~, W A~~]]	+	[[Category: Lim WA]]
-	[[Category: Richards~~, F M~~]]	+	[[Category: Richards FM]]
-	[[Category: Sauer~~, R T]]~~	+	[[Category: Sauer RT]]
-	~~[[Category: Double helix]]~~	+
-	~~[[Category: Protein-dna complex]]~~	+
-	~~[[Category: Transcription-dna complex~~]]	+

OCA at 06:46, 18 August 2021

OCA — Wed, 18 Aug 2021 06:46:14 GMT

←Older revision		Revision as of 06:46, 18 August 2021
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	<StructureSection load='1lli' size='340' side='right'caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1lli' size='340' side='right'caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1LLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LLI 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [~~http~~://pdbe.org/1lli PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1lli PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1lli 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [https://pdbe.org/1lli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [https://www.ebi.ac.uk/pdbsum/1lli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lli ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RPC1_LAMBD RPC1_LAMBD]] Repressor protein CI allows phage lambda to reside inactively in the chromosome of its host bacterium. This lysogenic state is maintained by binding of regulatory protein CI to the OR and OL operators, preventing transcription of proteins necessary for lytic development.	+	[[https://www.uniprot.org/uniprot/RPC1_LAMBD RPC1_LAMBD]] Repressor protein CI allows phage lambda to reside inactively in the chromosome of its host bacterium. This lysogenic state is maintained by binding of regulatory protein CI to the OR and OL operators, preventing transcription of proteins necessary for lytic development.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</div>		</div>
	<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Bacteriophage repressor 3D structures\|Bacteriophage repressor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:20, 13 November 2019

OCA — Wed, 13 Nov 2019 12:20:52 GMT

←Older revision		Revision as of 12:20, 13 November 2019
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	==THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING==		==THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING==
-	<StructureSection load='1lli' size='340' side='right' caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='1lli' size='340' side='right'caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI FirstGlance]. <br>
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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/ll/1lli_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ll/1lli_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>
Line 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Bacteriophage repressor 3D structures\|Bacteriophage repressor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Bacteriophage lambda]]		[[Category: Bacteriophage lambda]]
		+	[[Category: Large Structures]]
	[[Category: Hodel, A]]		[[Category: Hodel, A]]
	[[Category: Lim, W A]]		[[Category: Lim, W A]]

OCA at 06:44, 29 November 2017

OCA — Wed, 29 Nov 2017 06:44:58 GMT

←Older revision		Revision as of 06:44, 29 November 2017
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		+
	==THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING==		==THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING==
	<StructureSection load='1lli' size='340' side='right' caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1lli' size='340' side='right' caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://pdbe.org/1lli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://pdbe.org/1lli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1lli ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Bacteriophage repressor\|Bacteriophage repressor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:13, 8 February 2016

OCA — Mon, 08 Feb 2016 20:13:11 GMT

←Older revision		Revision as of 20:13, 8 February 2016
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	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1lli ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:00, 10 September 2015

OCA — Thu, 10 Sep 2015 15:00:16 GMT

←Older revision		Revision as of 15:00, 10 September 2015
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	<StructureSection load='1lli' size='340' side='right' caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1lli' size='340' side='right' caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_lambda Enterobacteria phage~~ lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://pdbe.org/1lli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1lli" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage~~ lambda]]	+	[[Category: Bacteriophage lambda]]
	[[Category: Hodel, A]]		[[Category: Hodel, A]]
	[[Category: Lim, W A]]		[[Category: Lim, W A]]

OCA at 01:52, 25 December 2014

OCA — Thu, 25 Dec 2014 01:52:01 GMT

←Older revision		Revision as of 01:52, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RPC1_LAMBD RPC1_LAMBD]] Repressor protein CI allows phage lambda to reside inactively in the chromosome of its host bacterium. This lysogenic state is maintained by binding of regulatory protein CI to the OR and OL operators, preventing transcription of proteins necessary for lytic development.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
-	[[Category: Hodel, A.]]	+	[[Category: Hodel, A]]
-	[[Category: Lim, W A.]]	+	[[Category: Lim, W A]]
-	[[Category: Richards, F M.]]	+	[[Category: Richards, F M]]
-	[[Category: Sauer, R T.]]	+	[[Category: Sauer, R T]]
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
	[[Category: Transcription-dna complex]]		[[Category: Transcription-dna complex]]

OCA at 16:56, 28 September 2014

OCA — Sun, 28 Sep 2014 16:56:30 GMT

←Older revision		Revision as of 16:56, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1lli.~~png\|left~~\|200px]]	+	==THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING==
		+	<StructureSection load='1lli' size='340' side='right' caption='[[1lli]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1LLI 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=1lli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lli OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1lli RCSB], [http://www.ebi.ac.uk/pdbsum/1lli 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/ll/1lli_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 ==
		+	The dense packing observed in protein interiors appears to be crucial for stabilizing the native structure--even subtle internal substitutions are usually destabilizing. Thus, steric complementarity of core residues is thought to be an important criterion for "inverse folding" predictive methods, which judge whether a newly determined sequence is consistent with any known folds. A major problem in the development of useful core packing evaluation algorithms, however, is that there are occasional mutations that are predicted to disrupt native packing but that yield an equally or more stable protein. We have solved the crystal structure of such a variant of lambda repressor, which, despite having three larger core substitutions, is more stable than the wild type. The structure reveals that the protein accommodates the potentially disruptive residues with shifts in its alpha-helical arrangement. The variant is apparently more stable because its packing is improved--the core has a higher packing density and little geometric strain. These rearrangements, however, cause repositioning of functional residues, which result in reduced DNA binding activity. By comparing these results with the predictions of two core packing algorithms, it is clear that the protein possesses a relatively high degree of main-chain flexibility that must be accounted for in order to predict the full spectrum of compatible core sequences. This study also shows how, in protein evolution, a particular set of core residue identities might be selected not because they provide optimal stability but because they provide sufficient stability in addition to the precise structure required for optimal activity.

-	~~{{STRUCTURE_1lli\| PDB=1lli \| SCENE= }}~~	+	The crystal structure of a mutant protein with altered but improved hydrophobic core packing.,Lim WA, Hodel A, Sauer RT, Richards FM Proc Natl Acad Sci U S A. 1994 Jan 4;91(1):423-7. PMID:8278404<ref>PMID:8278404</ref>

-	~~===THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_8278404}}~~	+	==See Also==
-		+	*[[Bacteriophage repressor\|Bacteriophage repressor]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1lli~~]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:008278404<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
	[[Category: Hodel, A.]]		[[Category: Hodel, A.]]

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

OCA — Wed, 05 Dec 2012 20:01:12 GMT

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

←Older revision

Revision as of 20:01, 5 December 2012

OCA at 20:01, 5 December 2012

OCA — Wed, 05 Dec 2012 20:01:10 GMT

←Older revision		Revision as of 20:01, 5 December 2012
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-	{{Seed}}
	[[Image:1lli.png\|left\|200px]]		[[Image:1lli.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_1lli\| PDB=1lli \| SCENE= }}		{{STRUCTURE_1lli\| PDB=1lli \| SCENE= }}

	===THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING===		===THE CRYSTAL STRUCTURE OF A MUTANT PROTEIN WITH ALTERED BUT IMPROVED HYDROPHOBIC CORE PACKING===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_8278404}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 8278404 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_8278404}}		{{ABSTRACT_PUBMED_8278404}}

	==About this Structure==		==About this Structure==
-	~~1LLI~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA].	+	[[1lli]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LLI OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~8278404~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:008278404</ref><references group="xtra"/>
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
	[[Category: Hodel, A.]]		[[Category: Hodel, A.]]
Line 31:		Line 19:
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
-		+	[[Category: Transcription-dna complex]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 02:45:31 2009''~~	+