2oum - Revision history

OCA at 09:06, 21 February 2024

OCA — Wed, 21 Feb 2024 09:06:10 GMT

←Older revision		Revision as of 09:06, 21 February 2024
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	<StructureSection load='2oum' size='340' side='right'caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='2oum' size='340' side='right'caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OUM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OUM 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;'>[[1i2a\|1i2a]]~~, [[~~1mzp~~\|~~1mzp~~]]~~, [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</div>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.55Å</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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [https://pdbe.org/2oum PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [https://www.ebi.ac.uk/pdbsum/2oum PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oum 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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [https://pdbe.org/2oum PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [https://www.ebi.ac.uk/pdbsum/2oum PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oum ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~RL1_THETH RL1_THETH~~]~~] The~~ L1 stalk ~~is quite mobile in~~ the ribosome~~, and~~ is ~~involved~~ in E site tRNA ~~release (By similarity)~~. ~~Binds directly~~ to ~~23S rRNA~~.[HAMAP-Rule:~~MF_01318~~] Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA (By similarity).[HAMAP-Rule:~~MF_01318~~]	+	[https://www.uniprot.org/uniprot/RL1_THET8 RL1_THET8] Directly binds to 23S rRNA. Forms what is known as the L1 stalk, which protrudes beyond the 70S ribosome surface. The stalk is preferentially stabilized in 70S versus 50S crystals. Interacts with the E site tRNA, blocking the exit path. This blockage implies that this section of the ribosome must be able to move to release the deacetylated tRNA.[HAMAP-Rule:MF_01318_B] Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA (By similarity).[HAMAP-Rule:MF_01318_B]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=2oum 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=2oum ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Ribosomal protein L1 has a dual function as a ribosomal protein binding 23S rRNA and as a translational repressor binding its mRNA. L1 is a two-domain protein with N- and C-termini located in domain I. Earlier it was shown that L1 interacts with the same targets on both rRNA and mRNA mainly through domain I. We have suggested that domain I is necessary and sufficient for specific RNA-binding by L1. To test this hypothesis, a truncation mutant of L1 from Thermus thermophilus, representing domain I, was constructed by deletion of the central part of the L1 sequence, which corresponds to domain II. It was shown that the isolated domain I forms stable complexes with specific fragments of both rRNA and mRNA. The crystal structure of the isolated domain I was determined and compared with the structure of this domain within the intact protein L1. This comparison revealed a close similarity of both structures. Our results confirm our suggestion that in protein L1 its domain I alone is sufficient for specific RNA binding, whereas domain II stabilizes the L1-rRNA complex.
-
-	Domain I of ribosomal protein L1 is sufficient for specific RNA binding.,Tishchenko S, Nikonova E, Kljashtorny V, Kostareva O, Nevskaya N, Piendl W, Davydova N, Streltsov V, Garber M, Nikonov S Nucleic Acids Res. 2007;35(21):7389-95. Epub 2007 Oct 25. PMID:17962298<ref>PMID:17962298</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2oum" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Ribosomal protein L1\|Ribosomal protein L1]]		*[[Ribosomal protein L1\|Ribosomal protein L1]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Davydova, N]]
-	[[Category: Garber, M]]
-	[[Category: Kljashtorny, V]]
-	[[Category: Nevskaya, N]]
-	[[Category: Nikonov, S]]
-	[[Category: Tishchenko, S]]
-	[[Category: Ribosomal protein]]
-	[[Category: Ribosomal protein l1]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
		+	[[Category: Davydova N]]
		+	[[Category: Garber M]]
		+	[[Category: Kljashtorny V]]
		+	[[Category: Nevskaya N]]
		+	[[Category: Nikonov S]]
		+	[[Category: Tishchenko S]]

OCA at 13:06, 9 June 2021

OCA — Wed, 09 Jun 2021 13:06:18 GMT

←Older revision		Revision as of 13:06, 9 June 2021
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	<StructureSection load='2oum' size='340' side='right'caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='2oum' size='340' side='right'caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2OUM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OUM FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</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;'>[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</div></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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [~~http~~://pdbe.org/2oum PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2oum PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2oum 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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [https://pdbe.org/2oum PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [https://www.ebi.ac.uk/pdbsum/2oum PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oum ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RL1_THETH RL1_THETH]] The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release (By similarity). Binds directly to 23S rRNA.[HAMAP-Rule:MF_01318] Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA (By similarity).[HAMAP-Rule:MF_01318]	+	[[https://www.uniprot.org/uniprot/RL1_THETH RL1_THETH]] The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release (By similarity). Binds directly to 23S rRNA.[HAMAP-Rule:MF_01318] Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA (By similarity).[HAMAP-Rule:MF_01318]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:41, 21 August 2019

OCA — Wed, 21 Aug 2019 07:41:19 GMT

←Older revision		Revision as of 07:41, 21 August 2019
Line 1:		Line 1:

	==The first domain of L1 from Thermus thermophilus==		==The first domain of L1 from Thermus thermophilus==
-	<StructureSection load='2oum' size='340' side='right' caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>	+	<StructureSection load='2oum' size='340' side='right'caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ou/2oum_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ou/2oum_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 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 2oum" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2oum" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ribosomal protein L1\|Ribosomal protein L1]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]		[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
		+	[[Category: Large Structures]]
	[[Category: Davydova, N]]		[[Category: Davydova, N]]
	[[Category: Garber, M]]		[[Category: Garber, M]]

OCA at 02:11, 16 November 2017

OCA — Thu, 16 Nov 2017 02:11:31 GMT

←Older revision		Revision as of 02:11, 16 November 2017
Line 1:		Line 1:
		+
	==The first domain of L1 from Thermus thermophilus==		==The first domain of L1 from Thermus thermophilus==
	<StructureSection load='2oum' size='340' side='right' caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='2oum' size='340' side='right' caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://pdbe.org/2oum PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum 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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://pdbe.org/2oum PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2oum ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 2oum" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2oum" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Ribosomal protein L1\|Ribosomal protein L1]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:54, 9 February 2016

OCA — Tue, 09 Feb 2016 13:54:20 GMT

←Older revision		Revision as of 13:54, 9 February 2016
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=2oum ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:52, 10 September 2015

OCA — Thu, 10 Sep 2015 22:52:44 GMT

←Older revision		Revision as of 22:52, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2oum' size='340' side='right' caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='2oum' size='340' side='right' caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum 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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://pdbe.org/2oum PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2oum" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thermus thermophilus~~]]	+	[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
	[[Category: Davydova, N]]		[[Category: Davydova, N]]
	[[Category: Garber, M]]		[[Category: Garber, M]]
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	[[Category: Ribosomal protein]]		[[Category: Ribosomal protein]]
	[[Category: Ribosomal protein l1]]		[[Category: Ribosomal protein l1]]
		+	[[Category: Thermus thermophilus]]

OCA at 07:13, 25 December 2014

OCA — Thu, 25 Dec 2014 07:13:13 GMT

←Older revision		Revision as of 07:13, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum 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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RL1_THETH RL1_THETH]] The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release (By similarity). Binds directly to 23S rRNA.[HAMAP-Rule:MF_01318] Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA (By similarity).[HAMAP-Rule:MF_01318]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
-	[[Category: Davydova, N.]]	+	[[Category: Davydova, N]]
-	[[Category: Garber, M.]]	+	[[Category: Garber, M]]
-	[[Category: Kljashtorny, V.]]	+	[[Category: Kljashtorny, V]]
-	[[Category: Nevskaya, N.]]	+	[[Category: Nevskaya, N]]
-	[[Category: Nikonov, S.]]	+	[[Category: Nikonov, S]]
-	[[Category: Tishchenko, S.]]	+	[[Category: Tishchenko, S]]
	[[Category: Ribosomal protein]]		[[Category: Ribosomal protein]]
	[[Category: Ribosomal protein l1]]		[[Category: Ribosomal protein l1]]
-	[[Category: Thermus thermophilus]]

OCA at 07:03, 29 September 2014

OCA — Mon, 29 Sep 2014 07:03:24 GMT

←Older revision		Revision as of 07:03, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2oum.~~png~~\|~~left~~\|200px]]	+	==The first domain of L1 from Thermus thermophilus==
		+	<StructureSection load='2oum' size='340' side='right' caption='[[2oum]], [[Resolution\|resolution]] 2.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OUM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1i2a\|1i2a]], [[1mzp\|1mzp]], [[1u63\|1u63]], [[1ad2\|1ad2]], [[1zho\|1zho]], [[2hw8\|2hw8]], [[2ov7\|2ov7]]</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=2oum FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oum OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oum RCSB], [http://www.ebi.ac.uk/pdbsum/2oum 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/ou/2oum_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 ==
		+	Ribosomal protein L1 has a dual function as a ribosomal protein binding 23S rRNA and as a translational repressor binding its mRNA. L1 is a two-domain protein with N- and C-termini located in domain I. Earlier it was shown that L1 interacts with the same targets on both rRNA and mRNA mainly through domain I. We have suggested that domain I is necessary and sufficient for specific RNA-binding by L1. To test this hypothesis, a truncation mutant of L1 from Thermus thermophilus, representing domain I, was constructed by deletion of the central part of the L1 sequence, which corresponds to domain II. It was shown that the isolated domain I forms stable complexes with specific fragments of both rRNA and mRNA. The crystal structure of the isolated domain I was determined and compared with the structure of this domain within the intact protein L1. This comparison revealed a close similarity of both structures. Our results confirm our suggestion that in protein L1 its domain I alone is sufficient for specific RNA binding, whereas domain II stabilizes the L1-rRNA complex.

-	~~{{STRUCTURE_2oum\| PDB=2oum \| SCENE= }}~~	+	Domain I of ribosomal protein L1 is sufficient for specific RNA binding.,Tishchenko S, Nikonova E, Kljashtorny V, Kostareva O, Nevskaya N, Piendl W, Davydova N, Streltsov V, Garber M, Nikonov S Nucleic Acids Res. 2007;35(21):7389-95. Epub 2007 Oct 25. PMID:17962298<ref>PMID:17962298</ref>

-	~~===The first domain~~ of ~~L1 from Thermus thermophilus===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17962298}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2oum]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermus_thermophilus Thermus thermophilus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA].~~	+

	==See Also==		==See Also==
	*[[Ribosomal protein L1\|Ribosomal protein L1]]		*[[Ribosomal protein L1\|Ribosomal protein L1]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017962298<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Davydova, N.]]		[[Category: Davydova, N.]]

OCA at 14:03, 20 October 2012

OCA — Sat, 20 Oct 2012 14:03:28 GMT

←Older revision		Revision as of 14:03, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2oum]] is a 1 chain structure ~~of [[Ribosomal protein L1]]~~ with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA].	+	[[2oum]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OUM OCA].

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

OCA at 13:54, 26 July 2012

OCA — Thu, 26 Jul 2012 13:54:36 GMT

←Older revision		Revision as of 13:54, 26 July 2012
Line 1:		Line 1:
	[[Image:2oum.png\|left\|200px]]		[[Image:2oum.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_2oum\| PDB=2oum \| SCENE= }}		{{STRUCTURE_2oum\| PDB=2oum \| SCENE= }}

	===The first domain of L1 from Thermus thermophilus===		===The first domain of L1 from Thermus thermophilus===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17962298}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17962298 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_17962298}}		{{ABSTRACT_PUBMED_17962298}}

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	==See Also==		==See Also==
-	*[[Ribosomal protein L1]]	+	*[[Ribosomal protein L1\|Ribosomal protein L1]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17962298~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017962298</ref><references group="xtra"/>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Davydova, N.]]		[[Category: Davydova, N.]]
Line 33:		Line 22:
	[[Category: Nikonov, S.]]		[[Category: Nikonov, S.]]
	[[Category: Tishchenko, S.]]		[[Category: Tishchenko, S.]]
		+	[[Category: Ribosomal protein]]
	[[Category: Ribosomal protein l1]]		[[Category: Ribosomal protein l1]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]