2fvo - Revision history

OCA at 09:25, 14 February 2024

2024-02-14T09:25:30Z

←Older revision		Revision as of 09:25, 14 February 2024
Line 3:		Line 3:
	<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>		<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43589 Atcc 43589~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FVO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FVO 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;'>[[1rq0\|1rq0]]</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]] 12.8Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">prfA ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=2336 ATCC 43589])~~</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [https://pdbe.org/2fvo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [https://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo 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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [https://pdbe.org/2fvo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [https://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RF1_THEMA RF1_THEMA]] Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA (By similarity).	+	[https://www.uniprot.org/uniprot/RF1_THEMA RF1_THEMA] Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA (By similarity).
	== 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=2fvo 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=2fvo ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	In eubacteria, termination of translation is signaled by any one of the stop codons UAA, UAG, and UGA moving into the ribosomal A site. Two release factors, RF1 and RF2, recognize and bind to the stop codons with different affinities and trigger the hydrolysis of the ester bond that links the polypeptide with the P-site tRNA. Cryo-electron microscopy (cryo-EM) results obtained in this study show that ribosome-bound RF1 is in an open conformation, unlike the closed conformation observed in the crystal structure of the free factor, allowing its simultaneous access to both the decoding center and the peptidyl-transferase center. These results are similar to those obtained for RF2, but there is an important difference in how the factors bind to protein L11, which forms part of the GTPase-associated center of the large ribosomal subunit. The difference in the binding position, C-terminal domain for RF2 versus N-terminal domain for RF1, explains a body of L11 mutation studies that revealed differential effects on the activity of the two factors. Very recent data obtained with small-angle X-ray scattering now reveal that the solution structure of RF1 is open, as here seen on the ribosome by cryo-EM, and not closed, as seen in the crystal.
-
-	Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM.,Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J J Mol Biol. 2006 Apr 7;357(4):1144-53. Epub 2006 Jan 30. PMID:16476444<ref>PMID:16476444</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2fvo" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: Atcc 43589]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ehrenberg, M]]	+	[[Category: Thermotoga maritima]]
-	[[Category: Frank, J]]	+	[[Category: Ehrenberg M]]
-	[[Category: Gao, H]]	+	[[Category: Frank J]]
-	[[Category: Gursky, R]]	+	[[Category: Gao H]]
-	[[Category: Rawat, U]]	+	[[Category: Gursky R]]
-	[[Category: Zavialov, A]]	+	[[Category: Rawat U]]
-	~~[[Category: Rf1 ribosome cryo-em]]~~	+	[[Category: Zavialov A]]
-	~~[[Category: Translation~~]]	+

OCA at 10:22, 12 January 2022

2022-01-12T10:22:24Z

←Older revision		Revision as of 10:22, 12 January 2022
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	<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>		<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2FVO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FVO FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</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;'>[[1rq0\|1rq0]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [~~http~~://pdbe.org/2fvo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo 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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [https://pdbe.org/2fvo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [https://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RF1_THEMA RF1_THEMA]] Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA (By similarity).	+	[[https://www.uniprot.org/uniprot/RF1_THEMA RF1_THEMA]] Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 16:52, 10 April 2020

2020-04-10T16:52:03Z

←Older revision		Revision as of 16:52, 10 April 2020
Line 3:		Line 3:
	<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>		<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2FVO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2FVO FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://pdbe.org/2fvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo 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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://pdbe.org/2fvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 16:54, 6 March 2020

2020-03-06T16:54:04Z

←Older revision		Revision as of 16:54, 6 March 2020
Line 1:		Line 1:

	==Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1==		==Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1==
-	<~~StructureSection~~ load='2fvo' size='340' side='right' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>	+	<SX load='2fvo' size='340' side='right' viewer='molstar' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>
Line 32:		Line 32:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Atcc 43589]]		[[Category: Atcc 43589]]
		+	[[Category: Large Structures]]
	[[Category: Ehrenberg, M]]		[[Category: Ehrenberg, M]]
	[[Category: Frank, J]]		[[Category: Frank, J]]

OCA at 07:11, 20 June 2018

2018-06-20T07:11:04Z

←Older revision		Revision as of 07:11, 20 June 2018
Line 1:		Line 1:
		+
	==Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1==		==Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1==
	<StructureSection load='2fvo' size='340' side='right' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>		<StructureSection load='2fvo' size='340' side='right' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://pdbe.org/2fvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo 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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://pdbe.org/2fvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fvo 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/fv/2fvo_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fv/2fvo_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>
	</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=2fvo ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:50, 12 September 2015

2015-09-12T00:50:14Z

←Older revision		Revision as of 00:50, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='2fvo' size='340' side='right' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>		<StructureSection load='2fvo' size='340' side='right' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermotoga_maritima Thermotoga maritima~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ~~Thermotoga maritima~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo 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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://pdbe.org/2fvo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 2fvo" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thermotoga maritima~~]]	+	[[Category: Atcc 43589]]
	[[Category: Ehrenberg, M]]		[[Category: Ehrenberg, M]]
	[[Category: Frank, J]]		[[Category: Frank, J]]

OCA at 21:37, 25 December 2014

2014-12-25T21:37:44Z

←Older revision		Revision as of 21:37, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima])</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo 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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RF1_THEMA RF1_THEMA]] Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Thermotoga maritima]]		[[Category: Thermotoga maritima]]
-	[[Category: Ehrenberg, M.]]	+	[[Category: Ehrenberg, M]]
-	[[Category: Frank, J.]]	+	[[Category: Frank, J]]
-	[[Category: Gao, H.]]	+	[[Category: Gao, H]]
-	[[Category: Gursky, R.]]	+	[[Category: Gursky, R]]
-	[[Category: Rawat, U.]]	+	[[Category: Rawat, U]]
-	[[Category: Zavialov, A.]]	+	[[Category: Zavialov, A]]
	[[Category: Rf1 ribosome cryo-em]]		[[Category: Rf1 ribosome cryo-em]]
	[[Category: Translation]]		[[Category: Translation]]

OCA at 08:51, 30 September 2014

2014-09-30T08:51:28Z

←Older revision		Revision as of 08:51, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2fvo.~~png~~\|~~left~~\|200px]]	+	==Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1==
		+	<StructureSection load='2fvo' size='340' side='right' caption='[[2fvo]], [[Resolution\|resolution]] 12.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2fvo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FVO FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1rq0\|1rq0]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">prfA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima])</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=2fvo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fvo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fvo RCSB], [http://www.ebi.ac.uk/pdbsum/2fvo 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/fv/2fvo_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 eubacteria, termination of translation is signaled by any one of the stop codons UAA, UAG, and UGA moving into the ribosomal A site. Two release factors, RF1 and RF2, recognize and bind to the stop codons with different affinities and trigger the hydrolysis of the ester bond that links the polypeptide with the P-site tRNA. Cryo-electron microscopy (cryo-EM) results obtained in this study show that ribosome-bound RF1 is in an open conformation, unlike the closed conformation observed in the crystal structure of the free factor, allowing its simultaneous access to both the decoding center and the peptidyl-transferase center. These results are similar to those obtained for RF2, but there is an important difference in how the factors bind to protein L11, which forms part of the GTPase-associated center of the large ribosomal subunit. The difference in the binding position, C-terminal domain for RF2 versus N-terminal domain for RF1, explains a body of L11 mutation studies that revealed differential effects on the activity of the two factors. Very recent data obtained with small-angle X-ray scattering now reveal that the solution structure of RF1 is open, as here seen on the ribosome by cryo-EM, and not closed, as seen in the crystal.

-	~~{{STRUCTURE_2fvo\| PDB=2fvo \| SCENE= }}~~	+	Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM.,Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J J Mol Biol. 2006 Apr 7;357(4):1144-53. Epub 2006 Jan 30. PMID:16476444<ref>PMID:16476444</ref>

-	~~===Docking~~ of the ~~modified RF1 X-ray structure into the Low Resolution Cryo-EM map~~ of E.~~coli 70S Ribosome bound with RF1===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16476444}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2fvo]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FVO OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016476444<~~/~~ref~~><~~ref group="xtra">PMID:015312775</ref><references group="xtra"~~/>	+
	[[Category: Thermotoga maritima]]		[[Category: Thermotoga maritima]]
	[[Category: Ehrenberg, M.]]		[[Category: Ehrenberg, M.]]

OCA at 12:16, 23 January 2013

2013-01-23T12:16:24Z

←Older revision		Revision as of 12:16, 23 January 2013
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	[[Image:2fvo.png\|left\|200px]]		[[Image:2fvo.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),
-	or leave the SCENE parameter empty for the default display.
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	{{STRUCTURE_2fvo\| PDB=2fvo \| SCENE= }}		{{STRUCTURE_2fvo\| PDB=2fvo \| SCENE= }}

	===Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1===		===Docking of the modified RF1 X-ray structure into the Low Resolution Cryo-EM map of E.coli 70S Ribosome bound with RF1===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16476444}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16476444 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16476444}}		{{ABSTRACT_PUBMED_16476444}}

Line 22:		Line 11:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16476444~~</ref><ref group="xtra">PMID:~~15312775~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016476444</ref><ref group="xtra">PMID:015312775</ref><references group="xtra"/>
	[[Category: Thermotoga maritima]]		[[Category: Thermotoga maritima]]
	[[Category: Ehrenberg, M.]]		[[Category: Ehrenberg, M.]]

OCA: Protected "2fvo" [edit=sysop:move=sysop]

2011-03-14T20:34:19Z

Protected "2fvo" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:34, 14 March 2011