1i4k - Revision history

OCA at 07:32, 7 February 2024

OCA — Wed, 07 Feb 2024 07:32:28 GMT

←Older revision		Revision as of 07:32, 7 February 2024
Line 3:		Line 3:
	<StructureSection load='1i4k' size='340' side='right'caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1i4k' size='340' side='right'caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arcfl Arcfl~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1I4K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1I4K FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])~~</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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [https://pdbe.org/1i4k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [https://www.ebi.ac.uk/pdbsum/1i4k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1i4k 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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [~~http~~://pdbe.org/1i4k PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1i4k PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1i4k ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/RUXX_ARCFU RUXX_ARCFU]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 20:
	</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=1i4k 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=1i4k ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Eukaryotic Sm and Sm-like proteins associate with RNA to form the core domain of ribonucleoprotein particles involved in pre-mRNA splicing and other processes. Recently, putative Sm proteins of unknown function have been identified in ARCHAEA: We show by immunoprecipitation experiments that the two Sm proteins present in Archaeoglobus fulgidus (AF-Sm1 and AF-Sm2) associate with RNase P RNA in vivo, suggesting a role in tRNA processing. The AF-Sm1 protein also interacts specifically with oligouridylate in vitro. We have solved the crystal structures of this protein and a complex with RNA. AF-Sm1 forms a seven-membered ring, with the RNA interacting inside the central cavity on one face of the doughnut-shaped complex. The bases are bound via stacking and specific hydrogen bonding contacts in pockets lined by residues highly conserved in archaeal and eukaryotic Sm proteins, while the phosphates remain solvent accessible. A comparison with the structures of human Sm protein dimers reveals closely related monomer folds and intersubunit contacts, indicating that the architecture of the Sm core domain and RNA binding have been conserved during evolution.
-
-	RNA binding in an Sm core domain: X-ray structure and functional analysis of an archaeal Sm protein complex.,Toro I, Thore S, Mayer C, Basquin J, Seraphin B, Suck D EMBO J. 2001 May 1;20(9):2293-303. PMID:11331594<ref>PMID:11331594</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1i4k" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[AF-Sm1\|AF-Sm1]]		*[[AF-Sm1\|AF-Sm1]]
-	*[[Sm-like protein\|Sm-like protein]]	+	*[[Sm-like protein 3D structures\|Sm-like protein 3D structures]]
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arcfl~~]]	+	[[Category: Archaeoglobus fulgidus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Basquin, J]]	+	[[Category: Basquin J]]
-	[[Category: Mayer, C]]	+	[[Category: Mayer C]]
-	[[Category: Seraphin, B]]	+	[[Category: Seraphin B]]
-	[[Category: Suck, D]]	+	[[Category: Suck D]]
-	[[Category: Thore, S]]	+	[[Category: Thore S]]
-	[[Category: Toro, I]]	+	[[Category: Toro I]]
-	~~[[Category: Core snrnp domain]]~~	+
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: Sm]]~~	+
-	~~[[Category: Snrnp~~]]	+

OCA at 10:36, 18 November 2020

OCA — Wed, 18 Nov 2020 10:36:07 GMT

←Older revision		Revision as of 10:36, 18 November 2020
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION==		==CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION==
-	<StructureSection load='1i4k' size='340' side='right' caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='1i4k' size='340' side='right'caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1I4K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1I4K FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://pdbe.org/1i4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1i4k 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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://pdbe.org/1i4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1i4k ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1i4k" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1i4k" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[AF-Sm1\|AF-Sm1]]
		+	*[[Sm-like protein\|Sm-like protein]]
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Arcfl]]		[[Category: Arcfl]]
		+	[[Category: Large Structures]]
	[[Category: Basquin, J]]		[[Category: Basquin, J]]
	[[Category: Mayer, C]]		[[Category: Mayer, C]]

OCA at 09:15, 10 January 2018

OCA — Wed, 10 Jan 2018 09:15:23 GMT

←Older revision		Revision as of 09:15, 10 January 2018
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION==		==CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION==
	<StructureSection load='1i4k' size='340' side='right' caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1i4k' size='340' side='right' caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://pdbe.org/1i4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k 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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://pdbe.org/1i4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1i4k ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i4/1i4k_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i4/1i4k_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 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1i4k" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1i4k" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[AF-Sm1\|AF-Sm1]]
-	*[[Sm-like protein\|Sm-like protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:57, 8 February 2016

OCA — Mon, 08 Feb 2016 21:57:43 GMT

←Older revision		Revision as of 21:57, 8 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=1i4k ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:45, 10 September 2015

OCA — Thu, 10 Sep 2015 15:45:28 GMT

←Older revision		Revision as of 15:45, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1i4k' size='340' side='right' caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1i4k' size='340' side='right' caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Archaeoglobus_fulgidus Archaeoglobus fulgidus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1I4K FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1I4K FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ~~Archaeoglobus fulgidus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k 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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://pdbe.org/1i4k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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 1i4k" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Archaeoglobus fulgidus~~]]	+	[[Category: Arcfl]]
	[[Category: Basquin, J]]		[[Category: Basquin, J]]
	[[Category: Mayer, C]]		[[Category: Mayer, C]]

OCA at 09:26, 2 January 2015

OCA — Fri, 02 Jan 2015 09:26:59 GMT

←Older revision		Revision as of 09:26, 2 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1I4K FirstGlance]. <br>		<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1I4K FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k 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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
-	[[Category: Basquin, J.]]	+	[[Category: Basquin, J]]
-	[[Category: Mayer, C.]]	+	[[Category: Mayer, C]]
-	[[Category: Seraphin, B.]]	+	[[Category: Seraphin, B]]
-	[[Category: Suck, D.]]	+	[[Category: Suck, D]]
-	[[Category: Thore, S.]]	+	[[Category: Thore, S]]
-	[[Category: Toro, I.]]	+	[[Category: Toro, I]]
	[[Category: Core snrnp domain]]		[[Category: Core snrnp domain]]
	[[Category: Rna binding protein]]		[[Category: Rna binding protein]]
	[[Category: Sm]]		[[Category: Sm]]
	[[Category: Snrnp]]		[[Category: Snrnp]]

OCA at 14:16, 28 September 2014

OCA — Sun, 28 Sep 2014 14:16:17 GMT

←Older revision		Revision as of 14:16, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1i4k.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION==
		+	<StructureSection load='1i4k' size='340' side='right' caption='[[1i4k]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1I4K FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1d3b\|1d3b]], [[1b34\|1b34]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF0875 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</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=1i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i4k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1i4k RCSB], [http://www.ebi.ac.uk/pdbsum/1i4k 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/i4/1i4k_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 ==
		+	Eukaryotic Sm and Sm-like proteins associate with RNA to form the core domain of ribonucleoprotein particles involved in pre-mRNA splicing and other processes. Recently, putative Sm proteins of unknown function have been identified in ARCHAEA: We show by immunoprecipitation experiments that the two Sm proteins present in Archaeoglobus fulgidus (AF-Sm1 and AF-Sm2) associate with RNase P RNA in vivo, suggesting a role in tRNA processing. The AF-Sm1 protein also interacts specifically with oligouridylate in vitro. We have solved the crystal structures of this protein and a complex with RNA. AF-Sm1 forms a seven-membered ring, with the RNA interacting inside the central cavity on one face of the doughnut-shaped complex. The bases are bound via stacking and specific hydrogen bonding contacts in pockets lined by residues highly conserved in archaeal and eukaryotic Sm proteins, while the phosphates remain solvent accessible. A comparison with the structures of human Sm protein dimers reveals closely related monomer folds and intersubunit contacts, indicating that the architecture of the Sm core domain and RNA binding have been conserved during evolution.

-	~~{{STRUCTURE_1i4k\| PDB=1i4k \| SCENE= }}~~	+	RNA binding in an Sm core domain: X-ray structure and functional analysis of an archaeal Sm protein complex.,Toro I, Thore S, Mayer C, Basquin J, Seraphin B, Suck D EMBO J. 2001 May 1;20(9):2293-303. PMID:11331594<ref>PMID:11331594</ref>

-	~~===CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11331594}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1i4k]] is~~ a ~~28 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA].~~	+

	==See Also==		==See Also==
	*[[AF-Sm1\|AF-Sm1]]		*[[AF-Sm1\|AF-Sm1]]
-		+	*[[Sm-like protein\|Sm-like protein]]
-	==~~Reference~~==	+	== References ==
-	<~~ref group="xtra">PMID:011331594<~~/~~ref~~><~~ref group="xtra">PMID:012079339</ref><references group="xtra"~~/>	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Basquin, J.]]		[[Category: Basquin, J.]]

OCA at 11:36, 20 October 2012

OCA — Sat, 20 Oct 2012 11:36:39 GMT

←Older revision		Revision as of 11:36, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1i4k]] is a 28 chain structure ~~of [[AF-Sm1]]~~ with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA].	+	[[1i4k]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA].

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

OCA: Protected "1i4k" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 05:57:32 GMT

Protected "1i4k" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:57, 26 July 2012

OCA at 05:57, 26 July 2012

OCA — Thu, 26 Jul 2012 05:57:31 GMT

←Older revision		Revision as of 05:57, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1i4k.png\|left\|200px]]		[[Image:1i4k.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1i4k", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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	{{STRUCTURE_1i4k\| PDB=1i4k \| SCENE= }}		{{STRUCTURE_1i4k\| PDB=1i4k \| SCENE= }}

	===CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION===		===CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS AT 2.5A RESOLUTION===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11331594}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 11331594 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_11331594}}		{{ABSTRACT_PUBMED_11331594}}

	==About this Structure==		==About this Structure==
-	~~1I4K~~ is a 28 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA].	+	[[1i4k]] is a 28 chain structure of [[AF-Sm1]] with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I4K OCA].
		+
		+	==See Also==
		+	*[[AF-Sm1\|AF-Sm1]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~11331594~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:011331594</ref><ref group="xtra">PMID:012079339</ref><references group="xtra"/>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Basquin, J.]]		[[Category: Basquin, J.]]
Line 35:		Line 26:
	[[Category: Sm]]		[[Category: Sm]]
	[[Category: Snrnp]]		[[Category: Snrnp]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 03:48:33 2009''