3gjn - Revision history

OCA at 15:41, 1 November 2023

OCA — Wed, 01 Nov 2023 15:41:05 GMT

←Older revision		Revision as of 15:41, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3gjn' size='340' side='right'caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>		<StructureSection load='3gjn' size='340' side='right'caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GJN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GJN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.48Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>imm, ceiE9 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~562~~ "~~Bacillus coli~~" ~~Migula 1895]), colE7, cea ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [https://pdbe.org/3gjn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [https://www.ebi.ac.uk/pdbsum/3gjn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gjn 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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [https://pdbe.org/3gjn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [https://www.ebi.ac.uk/pdbsum/3gjn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gjn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX]] This protein is able to protect a cell, which harbors the plasmid ColE9 encoding colicin E9, against colicin E9, it binds specifically to the DNase-type colicin and inhibits its bactericidal activity. [[https://www.uniprot.org/uniprot/CEA7_ECOLX CEA7_ECOLX]] This plasmid-coded bactericidal protein is an endonuclease active on both single- and double-stranded DNA but with undefined specificity. Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria.	+	[https://www.uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX] This protein is able to protect a cell, which harbors the plasmid ColE9 encoding colicin E9, against colicin E9, it binds specifically to the DNase-type colicin and inhibits its bactericidal activity.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Dym, O]]	+	[[Category: Dym O]]
-	[[Category: Tawfik~~, D S]]~~	+	[[Category: Tawfik DS]]
-	~~[[Category: Antibiotic]]~~	+
-	~~[[Category: Antimicrobial]]~~	+
-	~~[[Category: Bacteriocin]]~~	+
-	~~[[Category: Bacteriocin immunity]]~~	+
-	~~[[Category: Endonuclease]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Nuclease]]~~	+
-	~~[[Category: Protein-protein complex~~]]	+

OCA at 07:41, 10 November 2021

OCA — Wed, 10 Nov 2021 07:41:56 GMT

←Older revision		Revision as of 07:41, 10 November 2021
Line 1:		Line 1:

	==Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins==		==Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins==
-	<StructureSection load='3gjn' size='340' side='right' caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>	+	<StructureSection load='3gjn' size='340' side='right'caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3GJN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GJN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), colE7, cea ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), colE7, cea ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [~~http~~://pdbe.org/3gjn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3gjn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3gjn 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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [https://pdbe.org/3gjn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [https://www.ebi.ac.uk/pdbsum/3gjn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gjn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX]] This protein is able to protect a cell, which harbors the plasmid ColE9 encoding colicin E9, against colicin E9, it binds specifically to the DNase-type colicin and inhibits its bactericidal activity. [[~~http~~://www.uniprot.org/uniprot/CEA7_ECOLX CEA7_ECOLX]] This plasmid-coded bactericidal protein is an endonuclease active on both single- and double-stranded DNA but with undefined specificity. Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria.	+	[[https://www.uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX]] This protein is able to protect a cell, which harbors the plasmid ColE9 encoding colicin E9, against colicin E9, it binds specifically to the DNase-type colicin and inhibits its bactericidal activity. [[https://www.uniprot.org/uniprot/CEA7_ECOLX CEA7_ECOLX]] This plasmid-coded bactericidal protein is an endonuclease active on both single- and double-stranded DNA but with undefined specificity. Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Colicin\|Colicin]]	+	*[[Colicin 3D structures\|Colicin 3D structures]]
	*[[Colicin Immunity Protein\|Colicin Immunity Protein]]		*[[Colicin Immunity Protein\|Colicin Immunity Protein]]
-	*[[~~Directed evolution\|Directed evolution]]~~	+	*[[Colicin immunity protein 3D structures\|Colicin immunity protein 3D structures]]
-	*[[Mutant immunity protein 9 (variant R12-13)\|Mutant immunity protein 9 (variant R12-13)]]	+
-	*[[Mutant immunity protein ~~9 (variant R12-2)~~\|~~Mutant~~ immunity protein ~~9 (variant R12-2)~~]]	+
	== References ==		== References ==
	<references/>		<references/>
Line 41:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Dym, O]]		[[Category: Dym, O]]
	[[Category: Tawfik, D S]]		[[Category: Tawfik, D S]]

OCA at 05:54, 7 December 2018

OCA — Fri, 07 Dec 2018 05:54:06 GMT

←Older revision		Revision as of 05:54, 7 December 2018
Line 1:		Line 1:
		+
	==Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins==		==Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins==
	<StructureSection load='3gjn' size='340' side='right' caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>		<StructureSection load='3gjn' size='340' side='right' caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), colE7, cea ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), colE7, cea ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://pdbe.org/3gjn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn 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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://pdbe.org/3gjn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gjn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gj/3gjn_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gj/3gjn_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>

OCA at 01:23, 8 February 2016

OCA — Mon, 08 Feb 2016 01:23:14 GMT

←Older revision		Revision as of 01:23, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3gjn' size='340' side='right' caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>		<StructureSection load='3gjn' size='340' side='right' caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GJN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GJN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli]), colE7, cea ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), colE7, cea ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn 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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://pdbe.org/3gjn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<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=3gjn ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3gjn" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 38:		Line 39:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Dym, O]]		[[Category: Dym, O]]
	[[Category: Tawfik, D S]]		[[Category: Tawfik, D S]]

OCA at 19:32, 24 December 2014

OCA — Wed, 24 Dec 2014 19:32:24 GMT

←Older revision		Revision as of 19:32, 24 December 2014
Line 7:		Line 7:
	<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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn 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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX]] This protein is able to protect a cell, which harbors the plasmid ColE9 encoding colicin E9, against colicin E9, it binds specifically to the DNase-type colicin and inhibits its bactericidal activity. [[http://www.uniprot.org/uniprot/CEA7_ECOLX CEA7_ECOLX]] This plasmid-coded bactericidal protein is an endonuclease active on both single- and double-stranded DNA but with undefined specificity. Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 04:34, 24 November 2014

OCA — Mon, 24 Nov 2014 04:34:51 GMT

←Older revision		Revision as of 04:34, 24 November 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3gjn\| PDB=3gjn \| SCENE= }}~~	+	==Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins==
-	===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===	+	<StructureSection load='3gjn' size='340' side='right' caption='[[3gjn]], [[Resolution\|resolution]] 2.48Å' scene=''>
-	~~{{ABSTRACT_PUBMED_19749752}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3gjn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GJN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">imm, ceiE9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]), colE7, cea ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=3gjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gjn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gjn RCSB], [http://www.ebi.ac.uk/pdbsum/3gjn 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/gj/3gjn_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 ==
		+	How do intricate multi-residue features such as protein-protein interfaces evolve? To address this question, we evolved a new colicin-immunity binding interaction. We started with Im9, which inhibits its cognate DNase ColE9 at 10(-14) M affinity, and evolved it toward ColE7, which it inhibits promiscuously (Kd > 10(-8) M). Iterative rounds of random mutagenesis and selection toward higher affinity for ColE7, and selectivity (against ColE9 inhibition), led to an approximately 10(5)-fold increase in affinity and a 10(8)-fold increase in selectivity. Analysis of intermediates along the evolved variants revealed that changes in the binding configuration of the Im protein uncovered a latent set of interactions, thus providing the key to the rapid divergence of new Im7 variants. Overall, protein-protein interfaces seem to share the evolvability features of enzymes, that is, the exploitation of promiscuous interactions and alternative binding configurations via 'generalist' intermediates, and the key role of compensatory stabilizing mutations in facilitating the divergence of new functions.

-	~~==Function==~~	+	Following evolutionary paths to protein-protein interactions with high affinity and selectivity.,Levin KB, Dym O, Albeck S, Magdassi S, Keeble AH, Kleanthous C, Tawfik DS Nat Struct Mol Biol. 2009 Oct;16(10):1049-55. Epub 2009 Sep 13. PMID:19749752<ref>PMID:19749752</ref>
-	~~[[http://www~~.~~uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX]] This protein is able to protect a cell~~, ~~which harbors the plasmid ColE9 encoding colicin E9~~, ~~against colicin E9~~, ~~it binds specifically to the DNase-type colicin and inhibits its bactericidal activity~~. ~~[[http~~:~~//www~~.~~uniprot~~.~~org~~/uniprot/CEA7_ECOLX CEA7_ECOLX]] This plasmid-coded bactericidal protein is an endonuclease active on both single- and double-stranded DNA but with undefined specificity. Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria.	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3gjn]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA].~~	+	</div>

	==See Also==		==See Also==
Line 15:		Line 32:
	*[[Mutant immunity protein 9 (variant R12-13)\|Mutant immunity protein 9 (variant R12-13)]]		*[[Mutant immunity protein 9 (variant R12-13)\|Mutant immunity protein 9 (variant R12-13)]]
	*[[Mutant immunity protein 9 (variant R12-2)\|Mutant immunity protein 9 (variant R12-2)]]		*[[Mutant immunity protein 9 (variant R12-2)\|Mutant immunity protein 9 (variant R12-2)]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:019749752</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Dym, O.]]	+	[[Category: Dym, O]]
-	[[Category: Tawfik, D S.]]	+	[[Category: Tawfik, D S]]
	[[Category: Antibiotic]]		[[Category: Antibiotic]]
	[[Category: Antimicrobial]]		[[Category: Antimicrobial]]

OCA at 07:29, 27 March 2013

OCA — Wed, 27 Mar 2013 07:29:16 GMT

←Older revision		Revision as of 07:29, 27 March 2013
Line 2:		Line 2:
	===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===		===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===
	{{ABSTRACT_PUBMED_19749752}}		{{ABSTRACT_PUBMED_19749752}}
		+
		+	==Function==
		+	[[http://www.uniprot.org/uniprot/IMM9_ECOLX IMM9_ECOLX]] This protein is able to protect a cell, which harbors the plasmid ColE9 encoding colicin E9, against colicin E9, it binds specifically to the DNase-type colicin and inhibits its bactericidal activity. [[http://www.uniprot.org/uniprot/CEA7_ECOLX CEA7_ECOLX]] This plasmid-coded bactericidal protein is an endonuclease active on both single- and double-stranded DNA but with undefined specificity. Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria.

	==About this Structure==		==About this Structure==
Line 14:		Line 17:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:019749752</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019749752</ref><references group="xtra"/><references/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Dym, O.]]		[[Category: Dym, O.]]

OCA at 11:09, 11 March 2013

OCA — Mon, 11 Mar 2013 11:09:10 GMT

←Older revision		Revision as of 11:09, 11 March 2013
Line 1:		Line 1:
-	[[Image:3gjn.png\|left\|200px]]
-
	{{STRUCTURE_3gjn\| PDB=3gjn \| SCENE= }}		{{STRUCTURE_3gjn\| PDB=3gjn \| SCENE= }}
-
	===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===		===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===
-
	{{ABSTRACT_PUBMED_19749752}}		{{ABSTRACT_PUBMED_19749752}}

OCA at 08:26, 20 October 2012

OCA — Sat, 20 Oct 2012 08:26:18 GMT

←Older revision		Revision as of 08:26, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3gjn]] is a 4 chain structure ~~of [[Colicin]] and [[Colicin Immunity Protein]]~~ with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA].	+	[[3gjn]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GJN OCA].

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

OCA at 19:31, 25 July 2012

OCA — Wed, 25 Jul 2012 19:31:37 GMT

←Older revision		Revision as of 19:31, 25 July 2012
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	[[Image:3gjn.png\|left\|200px]]		[[Image:3gjn.png\|left\|200px]]

-	<!--
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-	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),
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	{{STRUCTURE_3gjn\| PDB=3gjn \| SCENE= }}		{{STRUCTURE_3gjn\| PDB=3gjn \| SCENE= }}

	===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===		===Following evolutionary paths to high affinity and selectivity protein-protein interactions using Colicin7 and Immunity proteins===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19749752}}, adds the Publication Abstract to the page
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	{{ABSTRACT_PUBMED_19749752}}		{{ABSTRACT_PUBMED_19749752}}

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	*[[Colicin Immunity Protein\|Colicin Immunity Protein]]		*[[Colicin Immunity Protein\|Colicin Immunity Protein]]
	*[[Directed evolution\|Directed evolution]]		*[[Directed evolution\|Directed evolution]]
		+	*[[Mutant immunity protein 9 (variant R12-13)\|Mutant immunity protein 9 (variant R12-13)]]
		+	*[[Mutant immunity protein 9 (variant R12-2)\|Mutant immunity protein 9 (variant R12-2)]]

	==Reference==		==Reference==