3fyx - Revision history

OCA at 06:54, 6 September 2023

OCA — Wed, 06 Sep 2023 06:54:16 GMT

←Older revision		Revision as of 06:54, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='3fyx' size='340' side='right'caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>		<StructureSection load='3fyx' size='340' side='right'caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FYX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FYX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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]] 3.4Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [https://pdbe.org/3fyx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [https://www.ebi.ac.uk/pdbsum/3fyx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fyx 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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [https://pdbe.org/3fyx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [https://www.ebi.ac.uk/pdbsum/3fyx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fyx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/OMPF_ECOLI OMPF_ECOLI]] Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2.<ref>PMID:19721064</ref>	+	[https://www.uniprot.org/uniprot/OMPF_ECOLI OMPF_ECOLI] Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2.<ref>PMID:19721064</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cebi, M]]	+	[[Category: Cebi M]]
-	[[Category: Essen~~, L O~~]]	+	[[Category: Essen LO]]
-	[[Category: Koert, U]]	+	[[Category: Koert U]]
-	[[Category: Reitz, S]]	+	[[Category: Reitz S]]
-	~~[[Category: Beta-barrel]]~~	+
-	~~[[Category: Cell membrane]]~~	+
-	~~[[Category: Cell outer membrane]]~~	+
-	~~[[Category: Crown ether]]~~	+
-	~~[[Category: Ion transport]]~~	+
-	~~[[Category: Ion-channel engineering]]~~	+
-	~~[[Category: Membrane]]~~	+
-	~~[[Category: Phage recognition]]~~	+
-	~~[[Category: Porin]]~~	+
-	~~[[Category: Porin structure]]~~	+
-	~~[[Category: Synthetic ion-current modulator]]~~	+
-	~~[[Category: Transmembrane]]~~	+
-	~~[[Category: Transport]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 19:59, 20 October 2021

OCA — Wed, 20 Oct 2021 19:59:58 GMT

←Older revision		Revision as of 19:59, 20 October 2021
Line 1:		Line 1:

	==The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator==		==The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator==
-	<StructureSection load='3fyx' size='340' side='right' caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>	+	<StructureSection load='3fyx' size='340' side='right'caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3FYX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FYX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [~~http~~://pdbe.org/3fyx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3fyx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3fyx 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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [https://pdbe.org/3fyx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [https://www.ebi.ac.uk/pdbsum/3fyx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fyx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/OMPF_ECOLI OMPF_ECOLI]] Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2.<ref>PMID:19721064</ref>	+	[[https://www.uniprot.org/uniprot/OMPF_ECOLI OMPF_ECOLI]] Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2.<ref>PMID:19721064</ref>
	== 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==
-	*[[Porin\|Porin]]	+	*[[Porin 3D structures\|Porin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Ecoli]]		[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Cebi, M]]		[[Category: Cebi, M]]
	[[Category: Essen, L O]]		[[Category: Essen, L O]]

OCA at 08:05, 5 December 2018

OCA — Wed, 05 Dec 2018 08:05:05 GMT

←Older revision		Revision as of 08:05, 5 December 2018
Line 1:		Line 1:
		+
	==The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator==		==The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator==
	<StructureSection load='3fyx' size='340' side='right' caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>		<StructureSection load='3fyx' size='340' side='right' caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://pdbe.org/3fyx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx 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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://pdbe.org/3fyx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3fyx 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/fy/3fyx_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fy/3fyx_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 00:13, 9 February 2016

OCA — Tue, 09 Feb 2016 00:13:20 GMT

←Older revision		Revision as of 00:13, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3fyx' size='340' side='right' caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>		<StructureSection load='3fyx' size='340' side='right' caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli_k-12 Escherichia coli k-12~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FYX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FYX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ~~Escherichia coli K-12~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx 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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://pdbe.org/3fyx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx 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=3fyx 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 3fyx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia coli k-12~~]]	+	[[Category: Ecoli]]
	[[Category: Cebi, M]]		[[Category: Cebi, M]]
	[[Category: Essen, L O]]		[[Category: Essen, L O]]

OCA at 03:07, 25 December 2014

OCA — Thu, 25 Dec 2014 03:07:33 GMT

←Older revision		Revision as of 03:07, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FYX FirstGlance]. <br>		<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FYX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 Escherichia coli K-12])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 Escherichia coli K-12])</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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx 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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/OMPF_ECOLI OMPF_ECOLI]] Forms pores that allow passive diffusion of small molecules across the outer membrane. It is also a receptor for the bacteriophage T2.<ref>PMID:19721064</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli k-12]]		[[Category: Escherichia coli k-12]]
-	[[Category: Cebi, M.]]	+	[[Category: Cebi, M]]
-	[[Category: Essen, L O.]]	+	[[Category: Essen, L O]]
-	[[Category: Koert, U.]]	+	[[Category: Koert, U]]
-	[[Category: Reitz, S.]]	+	[[Category: Reitz, S]]
	[[Category: Beta-barrel]]		[[Category: Beta-barrel]]
	[[Category: Cell membrane]]		[[Category: Cell membrane]]

OCA at 11:20, 29 September 2014

OCA — Mon, 29 Sep 2014 11:20:29 GMT

←Older revision		Revision as of 11:20, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3fyx.~~png~~\|~~left~~\|200px]]	+	==The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator==
		+	<StructureSection load='3fyx' size='340' side='right' caption='[[3fyx]], [[Resolution\|resolution]] 3.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3fyx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FYX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=451:N-(6,7,9,10,17,18,20,21-OCTAHYDRODIBENZO[B,K][1,4,7,10,13,16]HEXAOXACYCLOOCTADECIN-2-YL)ACETAMIDE'>451</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0929, cmlB, coa, cry, JW0912, ompF, tolF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 Escherichia coli K-12])</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=3fyx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fyx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fyx RCSB], [http://www.ebi.ac.uk/pdbsum/3fyx 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/fy/3fyx_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 attachment of modulators to a trimeric porin ion channel was investigated (see picture of the trimer with a crown ether modulator (orange)). The interplay of modulator and protein is essential for the conformational heterogeneity of the hybrid channel. Single-site attachment in large pores is not sufficient to change the electrophysiological characteristics of the pores-such change requires additional noncovalent interactions or second-site attachments.

-	~~{{STRUCTURE_3fyx\| PDB=3fyx \| SCENE= }}~~	+	On the function and structure of synthetically modified porins.,Reitz S, Cebi M, Reiss P, Studnik G, Linne U, Koert U, Essen LO Angew Chem Int Ed Engl. 2009;48(26):4853-7. PMID:19322865<ref>PMID:19322865</ref>

-	~~===The Structure~~ of ~~OmpF porin with a synthetic dibenzo-18-crown-6 as modulator===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19322865}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3fyx]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA].~~	+

	==See Also==		==See Also==
	*[[Porin\|Porin]]		*[[Porin\|Porin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019322865<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli k-12]]		[[Category: Escherichia coli k-12]]
	[[Category: Cebi, M.]]		[[Category: Cebi, M.]]

OCA at 11:57, 20 October 2012

OCA — Sat, 20 Oct 2012 11:57:40 GMT

←Older revision		Revision as of 11:57, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3fyx]] is a 1 chain structure ~~of [[Porin]]~~ with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli_k12~~ Escherichia coli ~~k12~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA].	+	[[3fyx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA].

	==See Also==		==See Also==
Line 15:		Line 15:
	==Reference==		==Reference==
	<ref group="xtra">PMID:019322865</ref><references group="xtra"/>		<ref group="xtra">PMID:019322865</ref><references group="xtra"/>
-	[[Category: Escherichia coli ~~k12~~]]	+	[[Category: Escherichia coli k-12]]
	[[Category: Cebi, M.]]		[[Category: Cebi, M.]]
	[[Category: Essen, L O.]]		[[Category: Essen, L O.]]

OCA at 07:10, 26 July 2012

OCA — Thu, 26 Jul 2012 07:10:20 GMT

←Older revision		Revision as of 07:10, 26 July 2012
Line 1:		Line 1:
	[[Image:3fyx.png\|left\|200px]]		[[Image:3fyx.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3fyx", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3fyx\| PDB=3fyx \| SCENE= }}		{{STRUCTURE_3fyx\| PDB=3fyx \| SCENE= }}

	===The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator===		===The Structure of OmpF porin with a synthetic dibenzo-18-crown-6 as modulator===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19322865}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19322865 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19322865}}		{{ABSTRACT_PUBMED_19322865}}

Line 22:		Line 11:

	==See Also==		==See Also==
-	*[[Porin]]	+	*[[Porin\|Porin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19322865~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019322865</ref><references group="xtra"/>
	[[Category: Escherichia coli k12]]		[[Category: Escherichia coli k12]]
	[[Category: Cebi, M.]]		[[Category: Cebi, M.]]

OCA: Protected "3fyx" [edit=sysop:move=sysop]

OCA — Sun, 26 Dec 2010 09:27:15 GMT

Protected "3fyx" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:27, 26 December 2010

OCA at 09:27, 26 December 2010

OCA — Sun, 26 Dec 2010 09:27:14 GMT

←Older revision		Revision as of 09:27, 26 December 2010
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3fyx.png\|left\|200px]]
-	[[Image:3fyx.~~jpg~~\|left\|200px]]	+

	<!--		<!--
Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~3FYX~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k12 Escherichia coli k12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA].	+	[[3fyx]] is a 1 chain structure of [[Porin]] with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k12 Escherichia coli k12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FYX OCA].
		+
		+	==See Also==
		+	*[[Porin]]

	==Reference==		==Reference==
Line 43:		Line 45:
	[[Category: Transport]]		[[Category: Transport]]
	[[Category: Transport protein]]		[[Category: Transport protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 1 09:14:49 2009''