1aud - Revision history

OCA at 08:15, 22 May 2024

2024-05-22T08:15:44Z

←Older revision		Revision as of 08:15, 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=1aud 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=1aud ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The RNP domain is a very common eukaryotic protein domain involved in recognition of a wide range of RNA structures and sequences. Two structures of human U1A in complex with distinct RNA substrates have revealed important aspects of RNP-RNA recognition, but have also raised intriguing questions concerning the origin of binding specificity. The beta-sheet of the domain provides an extensive RNA-binding platform for packing aromatic RNA bases and hydrophobic protein side chains. However, many interactions between functional groups on the single-stranded nucleotides and residues on the beta-sheet surface are potentially common to RNP proteins with diverse specificity and therefore make only limited contribution to molecular discrimination. The refined structure of the U1A complex with the RNA polyadenylation inhibition element reported here clarifies the role of the RNP domain principal specificity determinants (the variable loops) in molecular recognition. The most variable region of RNP proteins, loop 3, plays a crucial role in defining the global geometry of the intermolecular interface. Electrostatic interactions with the RNA phosphodiester backbone involve protein side chains that are unique to U1A and are likely to be important for discrimination. This analysis provides a novel picture of RNA-protein recognition, much closer to our current understanding of protein-protein recognition than that of DNA-protein recognition.
		+
		+	Structural basis of the RNA-binding specificity of human U1A protein.,Allain FH, Howe PW, Neuhaus D, Varani G EMBO J. 1997 Sep 15;16(18):5764-72. PMID:9312034<ref>PMID:9312034</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 1aud" style="background-color:#fffaf0;"></div>

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

OCA at 15:28, 13 March 2024

2024-03-13T15:28:24Z

←Older revision		Revision as of 15:28, 13 March 2024
Line 1:		Line 1:

	==U1A-UTRRNA, NMR, 31 STRUCTURES==		==U1A-UTRRNA, NMR, 31 STRUCTURES==
-	<StructureSection load='1aud' size='340' side='right'caption='[[1aud~~]], [[NMR_Ensembles_of_Models \| 31 NMR models~~]]' scene=''>	+	<StructureSection load='1aud' size='340' side='right'caption='[[1aud]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1AUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>U1A 1-102 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~9606 HUMAN])~~</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [https://pdbe.org/1aud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [https://www.ebi.ac.uk/pdbsum/1aud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [https://pdbe.org/1aud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [https://www.ebi.ac.uk/pdbsum/1aud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SNRPA_HUMAN SNRPA_HUMAN]] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.<ref>PMID:9848648</ref>	+	[https://www.uniprot.org/uniprot/SNRPA_HUMAN SNRPA_HUMAN] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.<ref>PMID:9848648</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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=1aud 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=1aud ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The RNP domain is a very common eukaryotic protein domain involved in recognition of a wide range of RNA structures and sequences. Two structures of human U1A in complex with distinct RNA substrates have revealed important aspects of RNP-RNA recognition, but have also raised intriguing questions concerning the origin of binding specificity. The beta-sheet of the domain provides an extensive RNA-binding platform for packing aromatic RNA bases and hydrophobic protein side chains. However, many interactions between functional groups on the single-stranded nucleotides and residues on the beta-sheet surface are potentially common to RNP proteins with diverse specificity and therefore make only limited contribution to molecular discrimination. The refined structure of the U1A complex with the RNA polyadenylation inhibition element reported here clarifies the role of the RNP domain principal specificity determinants (the variable loops) in molecular recognition. The most variable region of RNP proteins, loop 3, plays a crucial role in defining the global geometry of the intermolecular interface. Electrostatic interactions with the RNA phosphodiester backbone involve protein side chains that are unique to U1A and are likely to be important for discrimination. This analysis provides a novel picture of RNA-protein recognition, much closer to our current understanding of protein-protein recognition than that of DNA-protein recognition.
-
-	Structural basis of the RNA-binding specificity of human U1A protein.,Allain FH, Howe PW, Neuhaus D, Varani G EMBO J. 1997 Sep 15;16(18):5764-72. PMID:9312034<ref>PMID:9312034</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1aud" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Allain~~, F H.~~T]]	+	[[Category: Allain FH-T]]
-	[[Category: Gubser~~, C C~~]]	+	[[Category: Gubser CC]]
-	[[Category: Howe~~, P W.A~~]]	+	[[Category: Howe PWA]]
-	[[Category: Nagai, K]]	+	[[Category: Nagai K]]
-	[[Category: Neuhaus, D]]	+	[[Category: Neuhaus D]]
-	[[Category: Varani, G]]	+	[[Category: Varani G]]
-	~~[[Category: Rna binding protein-rna complex]]~~	+
-	~~[[Category: Rnp domain~~]]	+

OCA at 14:41, 3 November 2021

2021-11-03T14:41:39Z

←Older revision		Revision as of 14:41, 3 November 2021
Line 3:		Line 3:
	<StructureSection load='1aud' size='340' side='right'caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>		<StructureSection load='1aud' size='340' side='right'caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1AUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [~~http~~://pdbe.org/1aud PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1aud PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [https://pdbe.org/1aud PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [https://www.ebi.ac.uk/pdbsum/1aud PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SNRPA_HUMAN SNRPA_HUMAN]] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.<ref>PMID:9848648</ref>	+	[[https://www.uniprot.org/uniprot/SNRPA_HUMAN SNRPA_HUMAN]] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.<ref>PMID:9848648</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:11, 18 November 2020

2020-11-18T10:11:04Z

←Older revision		Revision as of 10:11, 18 November 2020
Line 1:		Line 1:

	==U1A-UTRRNA, NMR, 31 STRUCTURES==		==U1A-UTRRNA, NMR, 31 STRUCTURES==
-	<StructureSection load='1aud' size='340' side='right' caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>	+	<StructureSection load='1aud' size='340' side='right'caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1AUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://pdbe.org/1aud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://pdbe.org/1aud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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/au/1aud_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/au/1aud_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 1aud" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1aud" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Nucleoprotein 3D structures\|Nucleoprotein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Allain, F H.T]]		[[Category: Allain, F H.T]]
	[[Category: Gubser, C C]]		[[Category: Gubser, C C]]

OCA at 10:59, 8 November 2017

2017-11-08T10:59:20Z

←Older revision		Revision as of 10:59, 8 November 2017
Line 1:		Line 1:
		+
	==U1A-UTRRNA, NMR, 31 STRUCTURES==		==U1A-UTRRNA, NMR, 31 STRUCTURES==
	<StructureSection load='1aud' size='340' side='right' caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>		<StructureSection load='1aud' size='340' side='right' caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>		<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://pdbe.org/1aud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://pdbe.org/1aud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1aud ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1aud" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1aud" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Nucleoprotein\|Nucleoprotein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:53, 7 February 2016

2016-02-07T21:53:32Z

←Older revision		Revision as of 21:53, 7 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=1aud ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:17, 10 September 2015

2015-09-10T05:17:15Z

←Older revision		Revision as of 05:17, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1aud' size='340' side='right' caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>		<StructureSection load='1aud' size='340' side='right' caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://pdbe.org/1aud PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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 1aud" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Allain, F H.T]]		[[Category: Allain, F H.T]]
	[[Category: Gubser, C C]]		[[Category: Gubser, C C]]

OCA at 18:29, 24 December 2014

2014-12-24T18:29:05Z

←Older revision		Revision as of 18:29, 24 December 2014
Line 6:		Line 6:
	<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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SNRPA_HUMAN SNRPA_HUMAN]] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.<ref>PMID:9848648</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:26, 22 December 2014

2014-12-22T10:26:23Z

←Older revision		Revision as of 10:26, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>		<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Allain, F H.T.]]	+	[[Category: Allain, F H.T]]
-	[[Category: Gubser, C C.]]	+	[[Category: Gubser, C C]]
-	[[Category: Howe, P W.A.]]	+	[[Category: Howe, P W.A]]
-	[[Category: Nagai, K.]]	+	[[Category: Nagai, K]]
-	[[Category: Neuhaus, D.]]	+	[[Category: Neuhaus, D]]
-	[[Category: Varani, G.]]	+	[[Category: Varani, G]]
	[[Category: Rna binding protein-rna complex]]		[[Category: Rna binding protein-rna complex]]
	[[Category: Rnp domain]]		[[Category: Rnp domain]]

OCA at 08:17, 30 July 2014

2014-07-30T08:17:19Z

←Older revision		Revision as of 08:17, 30 July 2014
Line 1:		Line 1:
-	[[~~Image~~:1aud.~~png\|left~~\|200px]]	+	==U1A-UTRRNA, NMR, 31 STRUCTURES==
		+	<StructureSection load='1aud' size='340' side='right' caption='[[1aud]], [[NMR_Ensembles_of_Models \| 31 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1aud]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AUD FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U1A 1-102 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1aud FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1aud OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1aud RCSB], [http://www.ebi.ac.uk/pdbsum/1aud 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/au/1aud_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 ==
		+	The RNP domain is a very common eukaryotic protein domain involved in recognition of a wide range of RNA structures and sequences. Two structures of human U1A in complex with distinct RNA substrates have revealed important aspects of RNP-RNA recognition, but have also raised intriguing questions concerning the origin of binding specificity. The beta-sheet of the domain provides an extensive RNA-binding platform for packing aromatic RNA bases and hydrophobic protein side chains. However, many interactions between functional groups on the single-stranded nucleotides and residues on the beta-sheet surface are potentially common to RNP proteins with diverse specificity and therefore make only limited contribution to molecular discrimination. The refined structure of the U1A complex with the RNA polyadenylation inhibition element reported here clarifies the role of the RNP domain principal specificity determinants (the variable loops) in molecular recognition. The most variable region of RNP proteins, loop 3, plays a crucial role in defining the global geometry of the intermolecular interface. Electrostatic interactions with the RNA phosphodiester backbone involve protein side chains that are unique to U1A and are likely to be important for discrimination. This analysis provides a novel picture of RNA-protein recognition, much closer to our current understanding of protein-protein recognition than that of DNA-protein recognition.

-	~~{{STRUCTURE_1aud\| PDB=1aud \| SCENE= }}~~	+	Structural basis of the RNA-binding specificity of human U1A protein.,Allain FH, Howe PW, Neuhaus D, Varani G EMBO J. 1997 Sep 15;16(18):5764-72. PMID:9312034<ref>PMID:9312034</ref>

-	~~===U1A-UTRRNA~~, ~~NMR, 31 STRUCTURES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_9312034}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1aud]] is~~ a ~~2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes~~ the ~~now removed PDB entry [http://oca~~.~~weizmann~~.ac.il/~~oca-bin/send-pdb?obs=1&id=1num 1num]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUD OCA].~~	+

	==See Also==		==See Also==
	*[[Nucleoprotein\|Nucleoprotein]]		*[[Nucleoprotein\|Nucleoprotein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:009312034<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Allain, F H.T.]]		[[Category: Allain, F H.T.]]