3c9v - Revision history

OCA at 09:33, 21 February 2024

OCA — Wed, 21 Feb 2024 09:33:58 GMT

←Older revision		Revision as of 09:33, 21 February 2024
Line 3:		Line 3:
	<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>		<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[3cau\|3cau]]</div></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 4.7Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">groL, groEL, mopA ([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'>[https://proteopedia.org/fgij/fg.htm?mol=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [https://pdbe.org/3c9v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [https://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v 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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [https://pdbe.org/3c9v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [https://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CH60_ECOLI CH60_ECOLI]] Prevents misfolding and promotes the refolding and proper assembly of unfolded polypeptides generated under stress conditions.[HAMAP-Rule:MF_00600] Essential for the growth of the bacteria and the assembly of several bacteriophages. Also plays a role in coupling between replication of the F plasmid and cell division of the cell.[HAMAP-Rule:MF_00600]	+	[https://www.uniprot.org/uniprot/CH60_ECOLI CH60_ECOLI] Prevents misfolding and promotes the refolding and proper assembly of unfolded polypeptides generated under stress conditions.[HAMAP-Rule:MF_00600] Essential for the growth of the bacteria and the assembly of several bacteriophages. Also plays a role in coupling between replication of the F plasmid and cell division of the cell.[HAMAP-Rule:MF_00600]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		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=3c9v 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=3c9v ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	In this work, we employ single-particle electron cryo-microscopy (cryo-EM) to reconstruct GroEL to approximately 4 A resolution with both D7 and C7 symmetry. Using a newly developed skeletonization algorithm and secondary structure element identification in combination with sequence-based secondary structure prediction, we demonstrate that it is possible to achieve a de novo Calpha trace directly from a cryo-EM reconstruction. The topology of our backbone trace is completely accurate, though subtle alterations illustrate significant differences from existing crystal structures. In the map with C7 symmetry, the seven monomers in each ring are identical; however, the subunits have a subtly different structure in each ring, particularly in the equatorial domain. These differences include an asymmetric salt bridge, density in the nucleotide-binding pocket of only one ring, and small shifts in alpha helix positions. This asymmetric conformation is different from previous asymmetric structures, including GroES-bound GroEL, and may represent a "primed state" in the chaperonin pathway.
-
-	De novo backbone trace of GroEL from single particle electron cryomicroscopy.,Ludtke SJ, Baker ML, Chen DH, Song JL, Chuang DT, Chiu W Structure. 2008 Mar;16(3):441-8. PMID:18334219<ref>PMID:18334219</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3c9v" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Chaperonin 3D structures\|Chaperonin 3D structures]]		*[[Chaperonin 3D structures\|Chaperonin 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Baker~~, M L~~]]	+	[[Category: Baker ML]]
-	[[Category: Chen~~, D H~~]]	+	[[Category: Chen DH]]
-	[[Category: Chiu, W]]	+	[[Category: Chiu W]]
-	[[Category: Chuang, D]]	+	[[Category: Chuang D]]
-	[[Category: Ludtke~~, S J~~]]	+	[[Category: Ludtke SJ]]
-	[[Category: Song~~, J L]]~~	+	[[Category: Song JL]]
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Cell cycle]]~~	+
-	~~[[Category: Cell division]]~~	+
-	~~[[Category: Chaperone]]~~	+
-	~~[[Category: Groel]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Phosphoprotein~~]]	+

OCA at 07:48, 27 January 2022

OCA — Thu, 27 Jan 2022 07:48:25 GMT

←Older revision		Revision as of 07:48, 27 January 2022
Line 3:		Line 3:
	<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>		<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3C9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3cau\|3cau]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">groL, groEL, mopA ([~~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">groL, groEL, mopA ([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~~://proteopedia.org/fgij/fg.htm?mol=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [~~http~~://pdbe.org/3c9v PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v 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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [https://pdbe.org/3c9v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [https://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CH60_ECOLI CH60_ECOLI]] Prevents misfolding and promotes the refolding and proper assembly of unfolded polypeptides generated under stress conditions.[HAMAP-Rule:MF_00600] Essential for the growth of the bacteria and the assembly of several bacteriophages. Also plays a role in coupling between replication of the F plasmid and cell division of the cell.[HAMAP-Rule:MF_00600]	+	[[https://www.uniprot.org/uniprot/CH60_ECOLI CH60_ECOLI]] Prevents misfolding and promotes the refolding and proper assembly of unfolded polypeptides generated under stress conditions.[HAMAP-Rule:MF_00600] Essential for the growth of the bacteria and the assembly of several bacteriophages. Also plays a role in coupling between replication of the F plasmid and cell division of the cell.[HAMAP-Rule:MF_00600]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 17:15, 10 April 2020

OCA — Fri, 10 Apr 2020 17:15:11 GMT

←Older revision		Revision as of 17:15, 10 April 2020
Line 3:		Line 3:
	<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>		<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3C9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">groL, groEL, mopA ([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">groL, groEL, mopA ([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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://pdbe.org/3c9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://pdbe.org/3c9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 17:05, 6 March 2020

OCA — Fri, 06 Mar 2020 17:05:37 GMT

←Older revision		Revision as of 17:05, 6 March 2020
Line 1:		Line 1:

	==C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM==		==C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM==
-	<~~StructureSection~~ load='3c9v' size='340' side='right' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>	+	<SX load='3c9v' size='340' side='right' viewer='molstar' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>		<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Chaperonin\|Chaperonin]]	+	*[[Chaperonin 3D structures\|Chaperonin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Baker, M L]]		[[Category: Baker, M L]]
	[[Category: Chen, D H]]		[[Category: Chen, D H]]

OCA at 13:22, 7 November 2018

OCA — Wed, 07 Nov 2018 13:22:07 GMT

←Older revision		Revision as of 13:22, 7 November 2018
Line 1:		Line 1:
		+
	==C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM==		==C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM==
	<StructureSection load='3c9v' size='340' side='right' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>		<StructureSection load='3c9v' size='340' side='right' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c9v]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://pdbe.org/3c9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">groL, groEL, mopA ([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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://pdbe.org/3c9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3c9v ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c9/3c9v_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c9/3c9v_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 34:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
	[[Category: Baker, M L]]		[[Category: Baker, M L]]
	[[Category: Chen, D H]]		[[Category: Chen, D H]]

OCA at 21:51, 9 February 2016

OCA — Tue, 09 Feb 2016 21:51:52 GMT

←Older revision		Revision as of 21:51, 9 February 2016
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[3c9v]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>		<table><tr><td colspan='2'>[[3c9v]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v 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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://pdbe.org/3c9v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v 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=3c9v ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 3c9v" style="background-color:#fffaf0;"></div>

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

OCA at 12:33, 1 July 2015

OCA — Wed, 01 Jul 2015 12:33:18 GMT

←Older revision		Revision as of 12:33, 1 July 2015
Line 2:		Line 2:
	<StructureSection load='3c9v' size='340' side='right' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>		<StructureSection load='3c9v' size='340' side='right' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3c9v]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">groL, groEL, mopA ([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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v 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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v PDBsum]</span></td></tr>
	</table>		</table>
Line 34:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Escherichia coli]]
	[[Category: Baker, M L]]		[[Category: Baker, M L]]
	[[Category: Chen, D H]]		[[Category: Chen, D H]]

OCA at 09:46, 25 December 2014

OCA — Thu, 25 Dec 2014 09:46:34 GMT

←Older revision		Revision as of 09:46, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>		<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">groL, groEL, mopA ([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">groL, groEL, mopA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v 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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CH60_ECOLI CH60_ECOLI]] Prevents misfolding and promotes the refolding and proper assembly of unfolded polypeptides generated under stress conditions.[HAMAP-Rule:MF_00600] Essential for the growth of the bacteria and the assembly of several bacteriophages. Also plays a role in coupling between replication of the F plasmid and cell division of the cell.[HAMAP-Rule:MF_00600]
	== 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]]		[[Category: Escherichia coli]]
-	[[Category: Baker, M L.]]	+	[[Category: Baker, M L]]
-	[[Category: Chen, D H.]]	+	[[Category: Chen, D H]]
-	[[Category: Chiu, W.]]	+	[[Category: Chiu, W]]
-	[[Category: Chuang, D.]]	+	[[Category: Chuang, D]]
-	[[Category: Ludtke, S J.]]	+	[[Category: Ludtke, S J]]
-	[[Category: Song, J L.]]	+	[[Category: Song, J L]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Cell cycle]]		[[Category: Cell cycle]]

OCA at 07:29, 29 September 2014

OCA — Mon, 29 Sep 2014 07:29:31 GMT

←Older revision		Revision as of 07:29, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3c9v.~~png~~\|~~left~~\|200px]]	+	==C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM==
		+	<StructureSection load='3c9v' size='340' side='right' caption='[[3c9v]], [[Resolution\|resolution]] 4.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3c9v]] is a 14 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=3C9V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3C9V FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3cau\|3cau]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">groL, groEL, mopA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=3c9v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c9v OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3c9v RCSB], [http://www.ebi.ac.uk/pdbsum/3c9v 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/c9/3c9v_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 ==
		+	In this work, we employ single-particle electron cryo-microscopy (cryo-EM) to reconstruct GroEL to approximately 4 A resolution with both D7 and C7 symmetry. Using a newly developed skeletonization algorithm and secondary structure element identification in combination with sequence-based secondary structure prediction, we demonstrate that it is possible to achieve a de novo Calpha trace directly from a cryo-EM reconstruction. The topology of our backbone trace is completely accurate, though subtle alterations illustrate significant differences from existing crystal structures. In the map with C7 symmetry, the seven monomers in each ring are identical; however, the subunits have a subtly different structure in each ring, particularly in the equatorial domain. These differences include an asymmetric salt bridge, density in the nucleotide-binding pocket of only one ring, and small shifts in alpha helix positions. This asymmetric conformation is different from previous asymmetric structures, including GroES-bound GroEL, and may represent a "primed state" in the chaperonin pathway.

-	~~{{STRUCTURE_3c9v\| PDB=3c9v \| SCENE= }}~~	+	De novo backbone trace of GroEL from single particle electron cryomicroscopy.,Ludtke SJ, Baker ML, Chen DH, Song JL, Chuang DT, Chiu W Structure. 2008 Mar;16(3):441-8. PMID:18334219<ref>PMID:18334219</ref>

-	~~===C7 Symmetrized Structure~~ of ~~Unliganded GroEL at 4~~.~~7 Angstrom Resolution from CryoEM===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18334219}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3c9v]] is a 14 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=3C9V OCA].~~	+

	==See Also==		==See Also==
	*[[Chaperonin\|Chaperonin]]		*[[Chaperonin\|Chaperonin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018334219<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Baker, M L.]]		[[Category: Baker, M L.]]

OCA at 15:15, 20 October 2012

OCA — Sat, 20 Oct 2012 15:15:55 GMT

←Older revision		Revision as of 15:15, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3c9v]] is a 14 chain structure ~~of [[Chaperonin]]~~ 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=3C9V OCA].	+	[[3c9v]] is a 14 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=3C9V OCA].

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