1kvv - Revision history

OCA at 08:43, 22 May 2024

OCA — Wed, 22 May 2024 08:43:18 GMT

←Older revision		Revision as of 08:43, 22 May 2024
Line 19:		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=1kvv 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=1kvv ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Protein SRP19 is an essential RNA-binding component of the signal recognition particle (SRP) in Archaea and Eucarya. A three-dimensional solution structure of the 104 residue SRP19 from the hyperthermophilic archaeon Archaeoglobus fulgidus, designated as Af19, was determined by NMR spectroscopy. Af19 contains three beta-strands, two alpha-helical regions, arranged in a betaalphabetabetaalpha topology, a 3(10) helix, and a disordered C-terminal tail. This fold is similar to the betaalphabetabetaalphabeta RNP motif present in numerous other RNA-binding proteins, which engage their cognate RNAs using conserved sequence motifs present within beta-strands 1 and 3. Mutagenesis studies of human SRP19, however, reveal the major contact sites with SRP RNA reside within loops 1, 3, and 4. These contacts were verified by the crystal structure of human SRP19 complexed to SRP RNA helix 6 reported subsequent to the submission of the manuscript. The crystal structure also reveals that, unlike canonical RNP motifs, SRP19 does not engage specific RNA bases through conserved sequence motifs present within beta-strands 1 and 3. Instead, SRP19 uses residues both within and flanking beta-strand 1 to stabilize the complex through direct and indirect contacts to the phosphate backbone of the tetraloop, leaving the bases of the tetraloop exposed. This, coupled with the fact that SRP19 appears relatively rigid and undergoes only minor changes in structure upon RNA binding, may underlie the molecular basis by which SRP19 functions to initiate SRP assembly.
		+
		+	Solution structure of protein SRP19 of Archaeoglobus fulgidus signal recognition particle.,Pakhomova ON, Deep S, Huang Q, Zwieb C, Hinck AP J Mol Biol. 2002 Mar 15;317(1):145-58. PMID:11916385<ref>PMID:11916385</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 1kvv" style="background-color:#fffaf0;"></div>

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

OCA at 08:04, 3 April 2024

OCA — Wed, 03 Apr 2024 08:04:13 GMT

←Older revision		Revision as of 08:04, 3 April 2024
Line 1:		Line 1:

	==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==		==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==
-	<StructureSection load='1kvv' size='340' side='right'caption='[[1kvv~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='1kvv' size='340' side='right'caption='[[1kvv]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Arcfl Arcfl~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KVV 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;'>[[1kvn\|1kvn]]</div></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([https://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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [https://pdbe.org/1kvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [https://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv 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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [https://pdbe.org/1kvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [https://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SRP19_ARCFU SRP19_ARCFU]] Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds directly to 7S RNA and mediates binding of the 54 kDa subunit of the SRP.<ref>PMID:10684931</ref> <ref>PMID:11041851</ref>	+	[https://www.uniprot.org/uniprot/SRP19_ARCFU SRP19_ARCFU] Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds directly to 7S RNA and mediates binding of the 54 kDa subunit of the SRP.<ref>PMID:10684931</ref> <ref>PMID:11041851</ref>
	== 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=1kvv 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=1kvv ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Protein SRP19 is an essential RNA-binding component of the signal recognition particle (SRP) in Archaea and Eucarya. A three-dimensional solution structure of the 104 residue SRP19 from the hyperthermophilic archaeon Archaeoglobus fulgidus, designated as Af19, was determined by NMR spectroscopy. Af19 contains three beta-strands, two alpha-helical regions, arranged in a betaalphabetabetaalpha topology, a 3(10) helix, and a disordered C-terminal tail. This fold is similar to the betaalphabetabetaalphabeta RNP motif present in numerous other RNA-binding proteins, which engage their cognate RNAs using conserved sequence motifs present within beta-strands 1 and 3. Mutagenesis studies of human SRP19, however, reveal the major contact sites with SRP RNA reside within loops 1, 3, and 4. These contacts were verified by the crystal structure of human SRP19 complexed to SRP RNA helix 6 reported subsequent to the submission of the manuscript. The crystal structure also reveals that, unlike canonical RNP motifs, SRP19 does not engage specific RNA bases through conserved sequence motifs present within beta-strands 1 and 3. Instead, SRP19 uses residues both within and flanking beta-strand 1 to stabilize the complex through direct and indirect contacts to the phosphate backbone of the tetraloop, leaving the bases of the tetraloop exposed. This, coupled with the fact that SRP19 appears relatively rigid and undergoes only minor changes in structure upon RNA binding, may underlie the molecular basis by which SRP19 functions to initiate SRP assembly.
-
-	Solution structure of protein SRP19 of Archaeoglobus fulgidus signal recognition particle.,Pakhomova ON, Deep S, Huang Q, Zwieb C, Hinck AP J Mol Biol. 2002 Mar 15;317(1):145-58. PMID:11916385<ref>PMID:11916385</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1kvv" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[Signal recognition particle ~~protein~~\|Signal recognition particle ~~protein~~]]	+	*[[Signal recognition particle 3D structures\|Signal recognition particle 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arcfl~~]]	+	[[Category: Archaeoglobus fulgidus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Deep, S]]	+	[[Category: Deep S]]
-	[[Category: Hinck~~, A P~~]]	+	[[Category: Hinck AP]]
-	[[Category: Huang, Q]]	+	[[Category: Huang Q]]
-	[[Category: Pakhomova~~, O N~~]]	+	[[Category: Pakhomova ON]]
-	[[Category: Zwieb, C]]	+	[[Category: Zwieb C]]
-	~~[[Category: Rna binding protein~~]]	+

OCA at 14:44, 27 October 2021

OCA — Wed, 27 Oct 2021 14:44:46 GMT

←Older revision		Revision as of 14:44, 27 October 2021
Line 3:		Line 3:
	<StructureSection load='1kvv' size='340' side='right'caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1kvv' size='340' side='right'caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Arcfl Arcfl]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1KVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arcfl Arcfl]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KVV 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;'>[[1kvn\|1kvn]]</div></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;'>[[1kvn\|1kvn]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([~~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">AF1258 ([https://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~~://proteopedia.org/fgij/fg.htm?mol=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [~~http~~://pdbe.org/1kvv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv 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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [https://pdbe.org/1kvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [https://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SRP19_ARCFU SRP19_ARCFU]] Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds directly to 7S RNA and mediates binding of the 54 kDa subunit of the SRP.<ref>PMID:10684931</ref> <ref>PMID:11041851</ref>	+	[[https://www.uniprot.org/uniprot/SRP19_ARCFU SRP19_ARCFU]] Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds directly to 7S RNA and mediates binding of the 54 kDa subunit of the SRP.<ref>PMID:10684931</ref> <ref>PMID:11041851</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:50, 25 November 2020

OCA — Wed, 25 Nov 2020 07:50:53 GMT

←Older revision		Revision as of 07:50, 25 November 2020
Line 1:		Line 1:

	==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==		==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==
-	<StructureSection load='1kvv' size='340' side='right' caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='1kvv' size='340' side='right'caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1KVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1KVV FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</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;'>[[1kvn\|1kvn]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([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">AF1258 ([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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://pdbe.org/1kvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv 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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://pdbe.org/1kvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kv/1kvv_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kv/1kvv_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 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1kvv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1kvv" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Signal recognition particle protein\|Signal recognition particle protein]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Arcfl]]		[[Category: Arcfl]]
		+	[[Category: Large Structures]]
	[[Category: Deep, S]]		[[Category: Deep, S]]
	[[Category: Hinck, A P]]		[[Category: Hinck, A P]]

OCA at 07:16, 11 October 2017

OCA — Wed, 11 Oct 2017 07:16:20 GMT

←Older revision		Revision as of 07:16, 11 October 2017
Line 1:		Line 1:
		+
	==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==		==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==
	<StructureSection load='1kvv' size='340' side='right' caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1kvv' size='340' side='right' caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([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">AF1258 ([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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://pdbe.org/1kvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv 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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://pdbe.org/1kvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kvv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	<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=1kvv ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1kvv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1kvv" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Signal recognition particle protein\|Signal recognition particle protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:18, 11 September 2015

OCA — Fri, 11 Sep 2015 12:18:53 GMT

←Older revision		Revision as of 12:18, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1kvv' size='340' side='right' caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1kvv' size='340' side='right' caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Archaeoglobus_fulgidus Archaeoglobus fulgidus~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KVV FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([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">AF1258 ([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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv 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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://pdbe.org/1kvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv 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 1kvv" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Archaeoglobus fulgidus~~]]	+	[[Category: Arcfl]]
	[[Category: Deep, S]]		[[Category: Deep, S]]
	[[Category: Hinck, A P]]		[[Category: Hinck, A P]]

OCA at 16:21, 25 December 2014

OCA — Thu, 25 Dec 2014 16:21:19 GMT

←Older revision		Revision as of 16:21, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KVV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KVV FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([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">AF1258 ([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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv 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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SRP19_ARCFU SRP19_ARCFU]] Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds directly to 7S RNA and mediates binding of the 54 kDa subunit of the SRP.<ref>PMID:10684931</ref> <ref>PMID:11041851</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
-	[[Category: Deep, S.]]	+	[[Category: Deep, S]]
-	[[Category: Hinck, A P.]]	+	[[Category: Hinck, A P]]
-	[[Category: Huang, Q.]]	+	[[Category: Huang, Q]]
-	[[Category: Pakhomova, O N.]]	+	[[Category: Pakhomova, O N]]
-	[[Category: Zwieb, C.]]	+	[[Category: Zwieb, C]]
	[[Category: Rna binding protein]]		[[Category: Rna binding protein]]

OCA at 14:33, 28 September 2014

OCA — Sun, 28 Sep 2014 14:33:44 GMT

←Older revision		Revision as of 14:33, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1kvv.~~png~~\|~~left~~\|200px]]	+	==Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle, Minimized Average Structure==
		+	<StructureSection load='1kvv' size='340' side='right' caption='[[1kvv]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KVV FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kvn\|1kvn]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF1258 ([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=1kvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kvv RCSB], [http://www.ebi.ac.uk/pdbsum/1kvv 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/kv/1kvv_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 ==
		+	Protein SRP19 is an essential RNA-binding component of the signal recognition particle (SRP) in Archaea and Eucarya. A three-dimensional solution structure of the 104 residue SRP19 from the hyperthermophilic archaeon Archaeoglobus fulgidus, designated as Af19, was determined by NMR spectroscopy. Af19 contains three beta-strands, two alpha-helical regions, arranged in a betaalphabetabetaalpha topology, a 3(10) helix, and a disordered C-terminal tail. This fold is similar to the betaalphabetabetaalphabeta RNP motif present in numerous other RNA-binding proteins, which engage their cognate RNAs using conserved sequence motifs present within beta-strands 1 and 3. Mutagenesis studies of human SRP19, however, reveal the major contact sites with SRP RNA reside within loops 1, 3, and 4. These contacts were verified by the crystal structure of human SRP19 complexed to SRP RNA helix 6 reported subsequent to the submission of the manuscript. The crystal structure also reveals that, unlike canonical RNP motifs, SRP19 does not engage specific RNA bases through conserved sequence motifs present within beta-strands 1 and 3. Instead, SRP19 uses residues both within and flanking beta-strand 1 to stabilize the complex through direct and indirect contacts to the phosphate backbone of the tetraloop, leaving the bases of the tetraloop exposed. This, coupled with the fact that SRP19 appears relatively rigid and undergoes only minor changes in structure upon RNA binding, may underlie the molecular basis by which SRP19 functions to initiate SRP assembly.

-	~~{{STRUCTURE_1kvv\| PDB=1kvv \| SCENE= }}~~	+	Solution structure of protein SRP19 of Archaeoglobus fulgidus signal recognition particle.,Pakhomova ON, Deep S, Huang Q, Zwieb C, Hinck AP J Mol Biol. 2002 Mar 15;317(1):145-58. PMID:11916385<ref>PMID:11916385</ref>

-	~~===Solution Structure Of Protein SRP19 Of The Archaeoglobus fulgidus Signal Recognition Particle~~, ~~Minimized Average Structure===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11916385}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1kvv]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA].~~	+

	==See Also==		==See Also==
	*[[Signal recognition particle protein\|Signal recognition particle protein]]		*[[Signal recognition particle protein\|Signal recognition particle protein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:011916385<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Deep, S.]]		[[Category: Deep, S.]]

OCA at 18:50, 20 October 2012

OCA — Sat, 20 Oct 2012 18:50:31 GMT

←Older revision		Revision as of 18:50, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1kvv]] is a 1 chain structure ~~of [[Signal recognition particle protein]]~~ with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA].	+	[[1kvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KVV OCA].

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

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

OCA — Fri, 27 Jul 2012 05:24:02 GMT

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

←Older revision

Revision as of 05:24, 27 July 2012