3vaj - Revision history

OCA at 10:34, 1 March 2024

OCA — Fri, 01 Mar 2024 10:34:33 GMT

←Older revision		Revision as of 10:34, 1 March 2024
Line 3:		Line 3:
	<StructureSection load='3vaj' size='340' side='right'caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3vaj' size='340' side='right'caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CPQ:N,N~~-~~BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>~~, ~~<scene name='pdbligand=DIO:~~1~~,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.9Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DU:2-~~DEOXYURIDINE~~-5-~~MONOPHOSPHATE~~'>DU</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=CPQ:N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td><~~td class~~=~~"sblockDat"><div style~~=~~'overflow~~: ~~auto; max-height: 3em;~~'>~~[[2g4b\|2g4b]], [[2hzc\|2hzc]], [[3vaf\|3vaf]], [[3vag\|3vag]], [[3vah\|3vah]], [[3vai\|3vai]], [[3vak\|3vak]], [[3val\|3val]], [[3vam\|3vam]], [[3van\|3van]], [[3vao\|3vao]]~~</~~div~~><~~/td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">U2AF2, U2AF65 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [https://pdbe.org/3vaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [https://www.ebi.ac.uk/pdbsum/3vaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vaj 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=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [https://pdbe.org/3vaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [https://www.ebi.ac.uk/pdbsum/3vaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vaj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN]] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>	+	[https://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Degenerate splice site sequences mark the intron boundaries of pre-mRNA transcripts in multicellular eukaryotes. The essential pre-mRNA splicing factor U2AF(65) is faced with the paradoxical tasks of accurately targeting polypyrimidine (Py) tracts preceding 3' splice sites while adapting to both cytidine and uridine nucleotides with nearly equivalent frequencies. To understand how U2AF(65) recognizes degenerate Py tracts, we determined six crystal structures of human U2AF(65) bound to cytidine-containing Py tracts. As deoxy-ribose backbones were required for co-crystallization with these Py tracts, we also determined two baseline structures of U2AF(65) bound to the deoxy-uridine counterparts and compared the original, RNA-bound structure. Local structural changes suggest that the N-terminal RNA recognition motif 1 (RRM1) is more promiscuous for cytosine-containing Py tracts than the C-terminal RRM2. These structural differences between the RRMs were reinforced by the specificities of wild-type and site-directed mutant U2AF(65) for region-dependent cytosine- and uracil-containing RNA sites. Small-angle X-ray scattering analyses further demonstrated that Py tract variations select distinct inter-RRM spacings from a pre-existing ensemble of U2AF(65) conformations. Our results highlight both local and global conformational selection as a means for universal 3' splice site recognition by U2AF(65).	+
-		+
-	U2AF65 adapts to diverse pre-mRNA splice sites through conformational selection of specific and promiscuous RNA recognition motifs.,Jenkins JL, Agrawal AA, Gupta A, Green MR, Kielkopf CL Nucleic Acids Res. 2013 Feb 1. PMID:23376934<ref>PMID:23376934</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3vaj" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jenkins~~, J L~~]]	+	[[Category: Jenkins JL]]
-	[[Category: Kielkopf~~, C L]]~~	+	[[Category: Kielkopf CL]]
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: Rna binding protein-dna complex]]~~	+
-	~~[[Category: Rna recognition motif]]~~	+
-	~~[[Category: Rna splicing factor~~]]	+

OCA at 18:35, 27 July 2022

OCA — Wed, 27 Jul 2022 18:35:25 GMT

←Older revision		Revision as of 18:35, 27 July 2022
Line 1:		Line 1:

	==Structure of U2AF65 variant with BrU5C6 DNA==		==Structure of U2AF65 variant with BrU5C6 DNA==
-	<StructureSection load='3vaj' size='340' side='right' caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='3vaj' size='340' side='right'caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CPQ:N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CPQ:N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g4b\|2g4b]], [[2hzc\|2hzc]], [[3vaf\|3vaf]], [[3vag\|3vag]], [[3vah\|3vah]], [[3vai\|3vai]], [[3vak\|3vak]], [[3val\|3val]], [[3vam\|3vam]], [[3van\|3van]], [[3vao\|3vao]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2g4b\|2g4b]], [[2hzc\|2hzc]], [[3vaf\|3vaf]], [[3vag\|3vag]], [[3vah\|3vah]], [[3vai\|3vai]], [[3vak\|3vak]], [[3val\|3val]], [[3vam\|3vam]], [[3van\|3van]], [[3vao\|3vao]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U2AF2, U2AF65 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U2AF2, U2AF65 ([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~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [~~http~~://pdbe.org/3vaj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3vaj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3vaj 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=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [https://pdbe.org/3vaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [https://www.ebi.ac.uk/pdbsum/3vaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vaj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN]] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>	+	[[https://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN]] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Jenkins, J L]]		[[Category: Jenkins, J L]]
	[[Category: Kielkopf, C L]]		[[Category: Kielkopf, C L]]

OCA at 09:04, 4 August 2016

OCA — Thu, 04 Aug 2016 09:04:51 GMT

←Older revision		Revision as of 09:04, 4 August 2016
Line 1:		Line 1:
		+
	==Structure of U2AF65 variant with BrU5C6 DNA==		==Structure of U2AF65 variant with BrU5C6 DNA==
	<StructureSection load='3vaj' size='340' side='right' caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3vaj' size='340' side='right' caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CPQ:N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CPQ:N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g4b\|2g4b]], [[2hzc\|2hzc]], [[3vaf\|3vaf]], [[3vag\|3vag]], [[3vah\|3vah]], [[3vai\|3vai]], [[3vak\|3vak]], [[3val\|3val]], [[3vam\|3vam]], [[3van\|3van]], [[3vao\|3vao]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g4b\|2g4b]], [[2hzc\|2hzc]], [[3vaf\|3vaf]], [[3vag\|3vag]], [[3vah\|3vah]], [[3vai\|3vai]], [[3vak\|3vak]], [[3val\|3val]], [[3vam\|3vam]], [[3van\|3van]], [[3vao\|3vao]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U2AF2, U2AF65 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U2AF2, U2AF65 ([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=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [http://www.ebi.ac.uk/pdbsum/3vaj 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=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [http://pdbe.org/3vaj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [http://www.ebi.ac.uk/pdbsum/3vaj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3vaj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 3vaj" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Jenkins, J L]]		[[Category: Jenkins, J L]]
	[[Category: Kielkopf, C L]]		[[Category: Kielkopf, C L]]

OCA at 08:00, 24 December 2014

OCA — Wed, 24 Dec 2014 08:00:48 GMT

←Older revision		Revision as of 08:00, 24 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3vaj~~\| ~~PDB~~=3vaj \| ~~SCENE~~= }}	+	==Structure of U2AF65 variant with BrU5C6 DNA==
-	===~~Structure of~~ U2AF65 ~~variant with BrU5C6 DNA~~===	+	<StructureSection load='3vaj' size='340' side='right' caption='[[3vaj]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23376934}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[3vaj]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VAJ FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CPQ:N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE'>CPQ</scene>, <scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2g4b\|2g4b]], [[2hzc\|2hzc]], [[3vaf\|3vaf]], [[3vag\|3vag]], [[3vah\|3vah]], [[3vai\|3vai]], [[3vak\|3vak]], [[3val\|3val]], [[3vam\|3vam]], [[3van\|3van]], [[3vao\|3vao]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">U2AF2, U2AF65 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=3vaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vaj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vaj RCSB], [http://www.ebi.ac.uk/pdbsum/3vaj PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN]] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>		[[http://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN]] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Degenerate splice site sequences mark the intron boundaries of pre-mRNA transcripts in multicellular eukaryotes. The essential pre-mRNA splicing factor U2AF(65) is faced with the paradoxical tasks of accurately targeting polypyrimidine (Py) tracts preceding 3' splice sites while adapting to both cytidine and uridine nucleotides with nearly equivalent frequencies. To understand how U2AF(65) recognizes degenerate Py tracts, we determined six crystal structures of human U2AF(65) bound to cytidine-containing Py tracts. As deoxy-ribose backbones were required for co-crystallization with these Py tracts, we also determined two baseline structures of U2AF(65) bound to the deoxy-uridine counterparts and compared the original, RNA-bound structure. Local structural changes suggest that the N-terminal RNA recognition motif 1 (RRM1) is more promiscuous for cytosine-containing Py tracts than the C-terminal RRM2. These structural differences between the RRMs were reinforced by the specificities of wild-type and site-directed mutant U2AF(65) for region-dependent cytosine- and uracil-containing RNA sites. Small-angle X-ray scattering analyses further demonstrated that Py tract variations select distinct inter-RRM spacings from a pre-existing ensemble of U2AF(65) conformations. Our results highlight both local and global conformational selection as a means for universal 3' splice site recognition by U2AF(65).

-	~~==About this Structure==~~	+	U2AF65 adapts to diverse pre-mRNA splice sites through conformational selection of specific and promiscuous RNA recognition motifs.,Jenkins JL, Agrawal AA, Gupta A, Green MR, Kielkopf CL Nucleic Acids Res. 2013 Feb 1. PMID:23376934<ref>PMID:23376934</ref>
-	~~[[3vaj]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023376934</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Jenkins, J L.]]	+	[[Category: Jenkins, J L]]
-	[[Category: Kielkopf, C L.]]	+	[[Category: Kielkopf, C L]]
	[[Category: Rna binding protein]]		[[Category: Rna binding protein]]
	[[Category: Rna binding protein-dna complex]]		[[Category: Rna binding protein-dna complex]]
	[[Category: Rna recognition motif]]		[[Category: Rna recognition motif]]
	[[Category: Rna splicing factor]]		[[Category: Rna splicing factor]]

OCA at 06:31, 20 June 2013

OCA — Thu, 20 Jun 2013 06:31:09 GMT

←Older revision		Revision as of 06:31, 20 June 2013
Line 1:		Line 1:
-	[[Image:3vaj.jpg\|left\|200px]]
-
	{{STRUCTURE_3vaj\| PDB=3vaj \| SCENE= }}		{{STRUCTURE_3vaj\| PDB=3vaj \| SCENE= }}
-
	===Structure of U2AF65 variant with BrU5C6 DNA===		===Structure of U2AF65 variant with BrU5C6 DNA===
-
	{{ABSTRACT_PUBMED_23376934}}		{{ABSTRACT_PUBMED_23376934}}
		+
		+	==Function==
		+	[[http://www.uniprot.org/uniprot/U2AF2_HUMAN U2AF2_HUMAN]] Necessary for the splicing of pre-mRNA. Induces cardiac troponin-T (TNNT2) pre-mRNA exon inclusion in muscle. Regulates the TNNT2 exon 5 inclusion through competition with MBNL1. Binds preferentially to a single-stranded structure within the polypyrimidine tract of TNNT2 intron 4 during spliceosome assembly. Required for the export of mRNA out of the nucleus, even if the mRNA is encoded by an intron-less gene. Represses the splicing of MAPT/Tau exon 10.<ref>PMID:15009664</ref> <ref>PMID:19470458</ref> <ref>PMID:19574390</ref>

	==About this Structure==		==About this Structure==
	[[3vaj]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA].		[[3vaj]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023376934</ref><references group="xtra"/><references/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Jenkins, J L.]]		[[Category: Jenkins, J L.]]

OCA at 10:26, 13 February 2013

OCA — Wed, 13 Feb 2013 10:26:50 GMT

←Older revision		Revision as of 10:26, 13 February 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3vaj.jpg\|left\|200px]]

-	~~The entry~~ 3vaj ~~is ON HOLD~~ ~~until Mar 06 2014~~	+	{{STRUCTURE_3vaj\| PDB=3vaj \| SCENE= }}

-	~~Authors: Jenkins, J.L., Kielkopf, C.L.~~	+	===Structure of U2AF65 variant with BrU5C6 DNA===

-	~~Description:~~ Structure ~~of U2AF65 variant~~ with ~~BrU5C6 DNA~~	+	{{ABSTRACT_PUBMED_23376934}}
		+
		+	==About this Structure==
		+	[[3vaj]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VAJ OCA].
		+	[[Category: Homo sapiens]]
		+	[[Category: Jenkins, J L.]]
		+	[[Category: Kielkopf, C L.]]
		+	[[Category: Rna binding protein]]
		+	[[Category: Rna binding protein-dna complex]]
		+	[[Category: Rna recognition motif]]
		+	[[Category: Rna splicing factor]]

OCA at 20:32, 12 December 2012

OCA — Wed, 12 Dec 2012 20:32:04 GMT

←Older revision		Revision as of 20:32, 12 December 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3vaj is ON HOLD until ~~Paper Publication~~	+	The entry 3vaj is ON HOLD until Mar 06 2014

	Authors: Jenkins, J.L., Kielkopf, C.L.		Authors: Jenkins, J.L., Kielkopf, C.L.

	Description: Structure of U2AF65 variant with BrU5C6 DNA		Description: Structure of U2AF65 variant with BrU5C6 DNA

OCA at 07:21, 22 February 2012

OCA — Wed, 22 Feb 2012 07:21:40 GMT

←Older revision		Revision as of 07:21, 22 February 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3vaj is ON HOLD	+	The entry 3vaj is ON HOLD until Paper Publication

	Authors: Jenkins, J.L., Kielkopf, C.L.		Authors: Jenkins, J.L., Kielkopf, C.L.

	Description: Structure of U2AF65 variant with BrU5C6 DNA		Description: Structure of U2AF65 variant with BrU5C6 DNA

OCA: Protected "3vaj" [edit=sysop:move=sysop]

OCA — Wed, 04 Jan 2012 05:48:20 GMT

Protected "3vaj" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:48, 4 January 2012

OCA: New page: '''Unreleased structure''' The entry 3vaj is ON HOLD Authors: Jenkins, J.L., Kielkopf, C.L. Description: Structure of U2AF65 variant with BrU5C6 DNA

OCA — Wed, 04 Jan 2012 05:48:19 GMT

New page: '''Unreleased structure''' The entry 3vaj is ON HOLD Authors: Jenkins, J.L., Kielkopf, C.L. Description: Structure of U2AF65 variant with BrU5C6 DNA

New page

'''Unreleased structure'''

The entry 3vaj is ON HOLD

Authors: Jenkins, J.L., Kielkopf, C.L.

Description: Structure of U2AF65 variant with BrU5C6 DNA