1cop - Revision history

OCA at 08:21, 22 May 2024

OCA — Wed, 22 May 2024 08:21:55 GMT

←Older revision		Revision as of 08:21, 22 May 2024
Line 19:		Line 19:
	</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=1cop 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=1cop ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The 1H, 15N and 13C magnetic resonances of the lambda-Cro repressor have been assigned almost completely, mainly through the use of heteronuclear multidimensional NMR methods. Inter-subunit NOEs were distinguished by means of heteronuclear spectral editing technique (13C double half filter technique). Based on the distance and dihedral angle constraints derived from the NMR data, the three-dimensional solution structure of the lambda-Cro repressor in the dimeric form has been calculated by the simulated annealing method. The input for the structure calculations consisted of 1H-1H distance constraints, of which 1536 were intra-subunit and 40 were inter-subunit, and dihedral angle, phi, constraints, which numbered 92. The average root-mean-square deviation (RMSD) for all backbone heavy- atoms of the 20 calculated structures for residues 3 to 59 of the total of 66 amino acid residues in both subunits was 1.57 Angstrum, while the average RMSD for each subunit in the same residue range was 0.66 Angstrum. The subunit is composed of three alpha-helices, residues 7 to 13, 16 to 23 and 27 to 36, and a three-stranded anti-parallel beta-sheet composed of residues 3 to 6, 40 to 44 and 50 to 55. The solution structure of the subunit is essentially the same as that in the crystalline form, but the structure of the dimer form in solution differs from that of the dimer unit in the crystalline form. It is suggested that the solution dimer structure is distorted to fit the recognition helices in the major grooves of DNA on complex formation.
		+
		+	Three-dimensional dimer structure of the lambda-Cro repressor in solution as determined by heteronuclear multidimensional NMR.,Matsuo H, Shirakawa M, Kyogoku Y J Mol Biol. 1995 Dec 8;254(4):668-80. PMID:7500341<ref>PMID:7500341</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 1cop" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 15:41, 13 March 2024

OCA — Wed, 13 Mar 2024 15:41:14 GMT

←Older revision		Revision as of 15:41, 13 March 2024
Line 1:		Line 1:

	==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==		==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==
-	<StructureSection load='1cop' size='340' side='right'caption='[[1cop~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='1cop' size='340' side='right'caption='[[1cop]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bacteriophage_lambda Bacteriophage lambda~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1COP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_Lambda Escherichia virus Lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1COP FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>CRO ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~10710 Bacteriophage lambda])~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [https://pdbe.org/1cop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [https://www.ebi.ac.uk/pdbsum/1cop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [https://pdbe.org/1cop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [https://www.ebi.ac.uk/pdbsum/1cop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RCRO_LAMBD RCRO_LAMBD]] Cro represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operators regions normally used by the repressor protein for lysogenic maintenance.	+	[https://www.uniprot.org/uniprot/RCRO_LAMBD RCRO_LAMBD] Cro represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operators regions normally used by the repressor protein for lysogenic maintenance.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 19:
	</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=1cop 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=1cop ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The 1H, 15N and 13C magnetic resonances of the lambda-Cro repressor have been assigned almost completely, mainly through the use of heteronuclear multidimensional NMR methods. Inter-subunit NOEs were distinguished by means of heteronuclear spectral editing technique (13C double half filter technique). Based on the distance and dihedral angle constraints derived from the NMR data, the three-dimensional solution structure of the lambda-Cro repressor in the dimeric form has been calculated by the simulated annealing method. The input for the structure calculations consisted of 1H-1H distance constraints, of which 1536 were intra-subunit and 40 were inter-subunit, and dihedral angle, phi, constraints, which numbered 92. The average root-mean-square deviation (RMSD) for all backbone heavy- atoms of the 20 calculated structures for residues 3 to 59 of the total of 66 amino acid residues in both subunits was 1.57 Angstrum, while the average RMSD for each subunit in the same residue range was 0.66 Angstrum. The subunit is composed of three alpha-helices, residues 7 to 13, 16 to 23 and 27 to 36, and a three-stranded anti-parallel beta-sheet composed of residues 3 to 6, 40 to 44 and 50 to 55. The solution structure of the subunit is essentially the same as that in the crystalline form, but the structure of the dimer form in solution differs from that of the dimer unit in the crystalline form. It is suggested that the solution dimer structure is distorted to fit the recognition helices in the major grooves of DNA on complex formation.
-
-	Three-dimensional dimer structure of the lambda-Cro repressor in solution as determined by heteronuclear multidimensional NMR.,Matsuo H, Shirakawa M, Kyogoku Y J Mol Biol. 1995 Dec 8;254(4):668-80. PMID:7500341<ref>PMID:7500341</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1cop" 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: Kyogoku, Y]]	+	[[Category: Kyogoku Y]]
-	[[Category: Matsuo, H]]	+	[[Category: Matsuo H]]
-	[[Category: Shirakawa, M]]	+	[[Category: Shirakawa M]]
-	~~[[Category: Gene regulating protein~~]]	+

OCA at 10:33, 16 February 2022

OCA — Wed, 16 Feb 2022 10:33:57 GMT

←Older revision		Revision as of 10:33, 16 February 2022
Line 3:		Line 3:
	<StructureSection load='1cop' size='340' side='right'caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1cop' size='340' side='right'caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1COP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1COP 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [https://pdbe.org/1cop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [https://www.ebi.ac.uk/pdbsum/1cop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [https://pdbe.org/1cop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [https://www.ebi.ac.uk/pdbsum/1cop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 31:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacteriophage lambda]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Kyogoku, Y]]		[[Category: Kyogoku, Y]]

OCA at 15:18, 3 March 2021

OCA — Wed, 03 Mar 2021 15:18:00 GMT

←Older revision		Revision as of 15:18, 3 March 2021
Line 3:		Line 3:
	<StructureSection load='1cop' size='340' side='right'caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1cop' size='340' side='right'caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1COP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1COP 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [~~http~~://pdbe.org/1cop PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1cop PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [https://pdbe.org/1cop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [https://www.ebi.ac.uk/pdbsum/1cop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RCRO_LAMBD RCRO_LAMBD]] Cro represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operators regions normally used by the repressor protein for lysogenic maintenance.	+	[[https://www.uniprot.org/uniprot/RCRO_LAMBD RCRO_LAMBD]] Cro represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operators regions normally used by the repressor protein for lysogenic maintenance.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1cop" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1cop" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Bacteriophage repressor 3D structures\|Bacteriophage repressor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:45, 29 May 2019

OCA — Wed, 29 May 2019 07:45:22 GMT

←Older revision		Revision as of 07:45, 29 May 2019
Line 1:		Line 1:

	==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==		==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==
-	<StructureSection load='1cop' size='340' side='right' caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='1cop' size='340' side='right'caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/co/1cop_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/co/1cop_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 29:		Line 29:

	==See Also==		==See Also==
-	*[[Bacteriophage repressor\|Bacteriophage repressor]]	+	*[[Bacteriophage repressor 3D structures\|Bacteriophage repressor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Kyogoku, Y]]		[[Category: Kyogoku, Y]]
	[[Category: Matsuo, H]]		[[Category: Matsuo, H]]
	[[Category: Shirakawa, M]]		[[Category: Shirakawa, M]]
	[[Category: Gene regulating protein]]		[[Category: Gene regulating protein]]

OCA at 11:23, 24 August 2017

OCA — Thu, 24 Aug 2017 11:23:39 GMT

←Older revision		Revision as of 11:23, 24 August 2017
Line 1:		Line 1:
		+
	==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==		==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==
	<StructureSection load='1cop' size='340' side='right' caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1cop' size='340' side='right' caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]~~. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://pdbe.org/1cop PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1cop ProSAT]</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://pdbe.org/1cop PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop PDBsum]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 16:
	<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=1cop ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacteriophage lambda]]
	[[Category: Kyogoku, Y]]		[[Category: Kyogoku, Y]]
	[[Category: Matsuo, H]]		[[Category: Matsuo, H]]
	[[Category: Shirakawa, M]]		[[Category: Shirakawa, M]]
	[[Category: Gene regulating protein]]		[[Category: Gene regulating protein]]

OCA at 13:27, 11 September 2015

OCA — Fri, 11 Sep 2015 13:27:24 GMT

←Older revision		Revision as of 13:27, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1cop' size='340' side='right' caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1cop' size='340' side='right' caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_lambda Enterobacteria phage~~ lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 ~~Enterobacteria phage~~ lambda])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://pdbe.org/1cop PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	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 1cop" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage~~ lambda]]	+	[[Category: Bacteriophage lambda]]
	[[Category: Kyogoku, Y]]		[[Category: Kyogoku, Y]]
	[[Category: Matsuo, H]]		[[Category: Matsuo, H]]
	[[Category: Shirakawa, M]]		[[Category: Shirakawa, M]]
	[[Category: Gene regulating protein]]		[[Category: Gene regulating protein]]

OCA at 17:03, 25 December 2014

OCA — Thu, 25 Dec 2014 17:03:48 GMT

←Older revision		Revision as of 17:03, 25 December 2014
Line 6:		Line 6:
	<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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RCRO_LAMBD RCRO_LAMBD]] Cro represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operators regions normally used by the repressor protein for lysogenic maintenance.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 21:44, 22 December 2014

OCA — Mon, 22 Dec 2014 21:44:20 GMT

←Older revision		Revision as of 21:44, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Enterobacteria phage lambda])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Enterobacteria phage lambda])</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop 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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
-	[[Category: Kyogoku, Y.]]	+	[[Category: Kyogoku, Y]]
-	[[Category: Matsuo, H.]]	+	[[Category: Matsuo, H]]
-	[[Category: Shirakawa, M.]]	+	[[Category: Shirakawa, M]]
	[[Category: Gene regulating protein]]		[[Category: Gene regulating protein]]

OCA at 09:28, 27 August 2014

OCA — Wed, 27 Aug 2014 09:28:35 GMT

←Older revision		Revision as of 09:28, 27 August 2014
Line 1:		Line 1:
-	[[~~Image~~:1cop.~~png\|left~~\|200px]]	+	==THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR==
		+	<StructureSection load='1cop' size='340' side='right' caption='[[1cop]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1cop]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1COP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CRO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Enterobacteria phage lambda])</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=1cop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cop OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cop RCSB], [http://www.ebi.ac.uk/pdbsum/1cop 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/co/1cop_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 1H, 15N and 13C magnetic resonances of the lambda-Cro repressor have been assigned almost completely, mainly through the use of heteronuclear multidimensional NMR methods. Inter-subunit NOEs were distinguished by means of heteronuclear spectral editing technique (13C double half filter technique). Based on the distance and dihedral angle constraints derived from the NMR data, the three-dimensional solution structure of the lambda-Cro repressor in the dimeric form has been calculated by the simulated annealing method. The input for the structure calculations consisted of 1H-1H distance constraints, of which 1536 were intra-subunit and 40 were inter-subunit, and dihedral angle, phi, constraints, which numbered 92. The average root-mean-square deviation (RMSD) for all backbone heavy- atoms of the 20 calculated structures for residues 3 to 59 of the total of 66 amino acid residues in both subunits was 1.57 Angstrum, while the average RMSD for each subunit in the same residue range was 0.66 Angstrum. The subunit is composed of three alpha-helices, residues 7 to 13, 16 to 23 and 27 to 36, and a three-stranded anti-parallel beta-sheet composed of residues 3 to 6, 40 to 44 and 50 to 55. The solution structure of the subunit is essentially the same as that in the crystalline form, but the structure of the dimer form in solution differs from that of the dimer unit in the crystalline form. It is suggested that the solution dimer structure is distorted to fit the recognition helices in the major grooves of DNA on complex formation.

-	~~{{STRUCTURE_1cop\| PDB=1cop \| SCENE= }}~~	+	Three-dimensional dimer structure of the lambda-Cro repressor in solution as determined by heteronuclear multidimensional NMR.,Matsuo H, Shirakawa M, Kyogoku Y J Mol Biol. 1995 Dec 8;254(4):668-80. PMID:7500341<ref>PMID:7500341</ref>

-	~~===THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_7500341}}~~	+	==See Also==
-		+	*[[Bacteriophage repressor\|Bacteriophage repressor]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1cop~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_lambda Enterobacteria phage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1COP OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:007500341<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Enterobacteria phage lambda]]		[[Category: Enterobacteria phage lambda]]
	[[Category: Kyogoku, Y.]]		[[Category: Kyogoku, Y.]]