1t5i - Revision history

OCA at 08:36, 14 February 2024

OCA — Wed, 14 Feb 2024 08:36:17 GMT

←Older revision		Revision as of 08:36, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1t5i' size='340' side='right'caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1t5i' size='340' side='right'caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1T5I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T5I 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;'>[[1t6n\|1t6n]]</div></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.9Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">BAT1 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [https://pdbe.org/1t5i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [https://www.ebi.ac.uk/pdbsum/1t5i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t5i 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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [~~http~~://pdbe.org/1t5i PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1t5i PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1t5i ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DX39B_HUMAN DX39B_HUMAN]] Component of the THO subcomplex of the TREX complex. The TREX complex specifically associates with spliced mRNA and not with unspliced pre-mRNA. It is recruited to spliced mRNAs by a transcription-independent mechanism. Binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export. The recruitment occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. DDX39B functions as a bridge between ALYREF/THOC4 and the THO complex. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. The recruitment of the TREX complex to the intronless viral mRNA occurs via an interaction between KSHV ORF57 protein and ALYREF/THOC4.<ref>PMID:9242493</ref> <ref>PMID:11675789</ref> <ref>PMID:15833825</ref> <ref>PMID:15998806</ref> <ref>PMID:17190602</ref> <ref>PMID:17562711</ref> <ref>PMID:18974867</ref> <ref>PMID:15585580</ref> Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA. Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not influenced by U2AF2 and ALYREF/THOC4.<ref>PMID:9242493</ref> <ref>PMID:11675789</ref> <ref>PMID:15833825</ref> <ref>PMID:15998806</ref> <ref>PMID:17190602</ref> <ref>PMID:17562711</ref> <ref>PMID:18974867</ref> <ref>PMID:15585580</ref>	+	[https://www.uniprot.org/uniprot/DX39B_HUMAN DX39B_HUMAN] Component of the THO subcomplex of the TREX complex. The TREX complex specifically associates with spliced mRNA and not with unspliced pre-mRNA. It is recruited to spliced mRNAs by a transcription-independent mechanism. Binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export. The recruitment occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. DDX39B functions as a bridge between ALYREF/THOC4 and the THO complex. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. The recruitment of the TREX complex to the intronless viral mRNA occurs via an interaction between KSHV ORF57 protein and ALYREF/THOC4.<ref>PMID:9242493</ref> <ref>PMID:11675789</ref> <ref>PMID:15833825</ref> <ref>PMID:15998806</ref> <ref>PMID:17190602</ref> <ref>PMID:17562711</ref> <ref>PMID:18974867</ref> <ref>PMID:15585580</ref> Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA. Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not influenced by U2AF2 and ALYREF/THOC4.<ref>PMID:9242493</ref> <ref>PMID:11675789</ref> <ref>PMID:15833825</ref> <ref>PMID:15998806</ref> <ref>PMID:17190602</ref> <ref>PMID:17562711</ref> <ref>PMID:18974867</ref> <ref>PMID:15585580</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1t5i 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=1t5i ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	UAP56 is an essential eukaryotic pre-mRNA splicing factor and mRNA export factor. The mechanisms of its functions are not well understood. We determined the crystal structures of the N- and C-terminal domains of human UAP56 (comprising 90% of the full-length UAP56) at 1.9 A resolution. The two domains each have a RecA-like fold and are connected by a flexible linker. The overall fold of each domain is highly similar to the corresponding domains of eIF4A (a prototypic DExD/H-box protein), with differences at the loops and termini. This structural similarity suggests that UAP56 is likely to possess ATPase and helicase activity similar to eIF4A. The NTP binding pocket of UAP56 is occupied by a citrate ion, mimicking the phosphates of NTP and retaining the P loop in an open conformation. The crystal structure of the N-terminal domain of UAP56 also reveals a dimer interface that is potentially important for UAP56's function.
-
-	Crystal structure of UAP56, a DExD/H-box protein involved in pre-mRNA splicing and mRNA export.,Zhao R, Shen J, Green MR, MacMorris M, Blumenthal T Structure. 2004 Aug;12(8):1373-81. PMID:15296731<ref>PMID:15296731</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1t5i" 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: Green~~, M R~~]]	+	[[Category: Green MR]]
-	[[Category: Shen, J]]	+	[[Category: Shen J]]
-	[[Category: Zhao, R]]	+	[[Category: Zhao R]]
-	~~[[Category: Pre-mrna processing protein]]~~	+
-	~~[[Category: Reca-like fold~~]]	+

OCA at 11:43, 24 December 2020

OCA — Thu, 24 Dec 2020 11:43:00 GMT

←Older revision		Revision as of 11:43, 24 December 2020
Line 1:		Line 1:

	==Crystal structure of the C-terminal domain of UAP56==		==Crystal structure of the C-terminal domain of UAP56==
-	<StructureSection load='1t5i' size='340' side='right' caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='1t5i' size='340' side='right'caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1T5I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1T5I FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</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;'>[[1t6n\|1t6n]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT1 ([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">BAT1 ([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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://pdbe.org/1t5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t5i 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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://pdbe.org/1t5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t5i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Green, M R]]		[[Category: Green, M R]]
	[[Category: Shen, J]]		[[Category: Shen, J]]

OCA at 07:31, 14 March 2018

OCA — Wed, 14 Mar 2018 07:31:24 GMT

←Older revision		Revision as of 07:31, 14 March 2018
Line 1:		Line 1:
		+
	==Crystal structure of the C-terminal domain of UAP56==		==Crystal structure of the C-terminal domain of UAP56==
	<StructureSection load='1t5i' size='340' side='right' caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1t5i' size='340' side='right' caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT1 ([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">BAT1 ([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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://pdbe.org/1t5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i 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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://pdbe.org/1t5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t5i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t5/1t5i_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t5/1t5i_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>

OCA at 02:21, 9 February 2016

OCA — Tue, 09 Feb 2016 02:21:54 GMT

←Older revision		Revision as of 02:21, 9 February 2016
Line 17:		Line 17:
	<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=1t5i ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 17:40, 10 September 2015

OCA — Thu, 10 Sep 2015 17:40:34 GMT

←Older revision		Revision as of 17:40, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1t5i' size='340' side='right' caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1t5i' size='340' side='right' caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T5I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T5I FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT1 ([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">BAT1 ([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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i 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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://pdbe.org/1t5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i 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 1t5i" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Green, M R]]		[[Category: Green, M R]]
	[[Category: Shen, J]]		[[Category: Shen, J]]

OCA at 03:44, 25 December 2014

OCA — Thu, 25 Dec 2014 03:44:57 GMT

←Older revision		Revision as of 03:44, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T5I FirstGlance]. <br>		<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T5I FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT1 ([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">BAT1 ([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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i 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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DX39B_HUMAN DX39B_HUMAN]] Component of the THO subcomplex of the TREX complex. The TREX complex specifically associates with spliced mRNA and not with unspliced pre-mRNA. It is recruited to spliced mRNAs by a transcription-independent mechanism. Binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export. The recruitment occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. DDX39B functions as a bridge between ALYREF/THOC4 and the THO complex. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. The recruitment of the TREX complex to the intronless viral mRNA occurs via an interaction between KSHV ORF57 protein and ALYREF/THOC4.<ref>PMID:9242493</ref> <ref>PMID:11675789</ref> <ref>PMID:15833825</ref> <ref>PMID:15998806</ref> <ref>PMID:17190602</ref> <ref>PMID:17562711</ref> <ref>PMID:18974867</ref> <ref>PMID:15585580</ref> Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA. Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not influenced by U2AF2 and ALYREF/THOC4.<ref>PMID:9242493</ref> <ref>PMID:11675789</ref> <ref>PMID:15833825</ref> <ref>PMID:15998806</ref> <ref>PMID:17190602</ref> <ref>PMID:17562711</ref> <ref>PMID:18974867</ref> <ref>PMID:15585580</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Green, M R.]]	+	[[Category: Green, M R]]
-	[[Category: Shen, J.]]	+	[[Category: Shen, J]]
-	[[Category: Zhao, R.]]	+	[[Category: Zhao, R]]
	[[Category: Pre-mrna processing protein]]		[[Category: Pre-mrna processing protein]]
	[[Category: Reca-like fold]]		[[Category: Reca-like fold]]

OCA at 19:25, 29 September 2014

OCA — Mon, 29 Sep 2014 19:25:18 GMT

←Older revision		Revision as of 19:25, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1t5i.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the C-terminal domain of UAP56==
		+	<StructureSection load='1t5i' size='340' side='right' caption='[[1t5i]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1t5i]] is a 1 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=1T5I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T5I FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1t6n\|1t6n]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BAT1 ([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=1t5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t5i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t5i RCSB], [http://www.ebi.ac.uk/pdbsum/1t5i 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/t5/1t5i_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 ==
		+	UAP56 is an essential eukaryotic pre-mRNA splicing factor and mRNA export factor. The mechanisms of its functions are not well understood. We determined the crystal structures of the N- and C-terminal domains of human UAP56 (comprising 90% of the full-length UAP56) at 1.9 A resolution. The two domains each have a RecA-like fold and are connected by a flexible linker. The overall fold of each domain is highly similar to the corresponding domains of eIF4A (a prototypic DExD/H-box protein), with differences at the loops and termini. This structural similarity suggests that UAP56 is likely to possess ATPase and helicase activity similar to eIF4A. The NTP binding pocket of UAP56 is occupied by a citrate ion, mimicking the phosphates of NTP and retaining the P loop in an open conformation. The crystal structure of the N-terminal domain of UAP56 also reveals a dimer interface that is potentially important for UAP56's function.

-	~~{{STRUCTURE_1t5i\| PDB=1t5i \| SCENE= }}~~	+	Crystal structure of UAP56, a DExD/H-box protein involved in pre-mRNA splicing and mRNA export.,Zhao R, Shen J, Green MR, MacMorris M, Blumenthal T Structure. 2004 Aug;12(8):1373-81. PMID:15296731<ref>PMID:15296731</ref>

-	~~===Crystal structure~~ of the ~~C-terminal domain of UAP56===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15296731}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1t5i]] is a 1 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=1T5I OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015296731<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Green, M R.]]		[[Category: Green, M R.]]

OCA: Protected "1t5i" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 12:28:28 GMT

Protected "1t5i" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:28, 5 January 2013

OCA at 12:28, 5 January 2013

OCA — Sat, 05 Jan 2013 12:28:26 GMT

←Older revision		Revision as of 12:28, 5 January 2013
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-	{{Seed}}
	[[Image:1t5i.png\|left\|200px]]		[[Image:1t5i.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1t5i", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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	{{STRUCTURE_1t5i\| PDB=1t5i \| SCENE= }}		{{STRUCTURE_1t5i\| PDB=1t5i \| SCENE= }}

	===Crystal structure of the C-terminal domain of UAP56===		===Crystal structure of the C-terminal domain of UAP56===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15296731}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15296731 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_15296731}}		{{ABSTRACT_PUBMED_15296731}}

	==About this Structure==		==About this Structure==
-	~~1T5I~~ is a 1 chain structure of 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=1T5I OCA].	+	[[1t5i]] is a 1 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=1T5I OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15296731~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015296731</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Green, M R.]]		[[Category: Green, M R.]]
	[[Category: Shen, J.]]		[[Category: Shen, J.]]
	[[Category: Zhao, R.]]		[[Category: Zhao, R.]]
		+	[[Category: Pre-mrna processing protein]]
	[[Category: Reca-like fold]]		[[Category: Reca-like fold]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 05:41:27 2009''

OCA at 03:41, 17 February 2009

OCA — Tue, 17 Feb 2009 03:41:28 GMT

←Older revision		Revision as of 03:41, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1T5I is a ~~[[Single protein]]~~ structure of 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=1T5I OCA].	+	1T5I is a 1 chain structure of 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=1T5I OCA].

	==Reference==		==Reference==
-	~~Crystal structure of UAP56, a DExD/H-box protein involved in pre-mRNA splicing and mRNA export., Zhao R, Shen J, Green MR, MacMorris M, Blumenthal T, Structure. 2004 Aug;12(8):1373-81.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/15296731 15296731]~~	+	<ref group="xtra">PMID:15296731</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Green, M R.]]		[[Category: Green, M R.]]
	[[Category: Shen, J.]]		[[Category: Shen, J.]]
Line 31:		Line 30:
	[[Category: Reca-like fold]]		[[Category: Reca-like fold]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 09:~~05:~~33 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 05:41:27 2009''