3vyy - Revision history

OCA at 12:42, 8 November 2023

OCA — Wed, 08 Nov 2023 12:42:42 GMT

←Older revision		Revision as of 12:42, 8 November 2023
Line 1:		Line 1:

	==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==		==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==
-	<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]]' scene=''>	+	<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vyy]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY FirstGlance]. <br>
-	</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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.9Å</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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DHX9_HUMAN DHX9_HUMAN] Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. Positively regulates HIV-1 LTR-directed gene expression.<ref>PMID:19029303</ref> <ref>PMID:19229320</ref> <ref>PMID:22190748</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Intensive research interest has focused on small RNA-processing machinery and the RNA-induced silencing complex (RISC), key cellular machines in RNAi pathways. However, the structural mechanism regarding RISC assembly, the primary step linking small RNA processing and RNA-mediated gene silencing, is largely unknown. Human RNA helicase A (DHX9) was reported to function as an RISC-loading factor, and such function is mediated mainly by its dsRNA-binding domains (dsRBDs). Here, we report the crystal structures of human RNA helicase A (RHA) dsRBD1 and dsRBD2 domains in complex with dsRNAs, respectively. Structural analysis not only reveals higher siRNA duplex-binding affinity displayed by dsRBD1, but also identifies a crystallographic dsRBD1 pair of physiological significance in cooperatively recognizing dsRNAs. Structural observations are further validated by isothermal titration calorimetric (ITC) assay. Moreover, co-immunoprecipitation (co-IP) assay coupled with mutagenesis demonstrated that both dsRBDs are required for RISC association, and such association is mediated by dsRNA. Hence, our structural and functional efforts have revealed a potential working model for siRNA recognition by RHA tandem dsRBDs, and together they provide direct structural insights into RISC assembly facilitated by RHA.
		+
		+	Structural insights into RISC assembly facilitated by dsRNA-binding domains of human RNA helicase A (DHX9).,Fu Q, Yuan YA Nucleic Acids Res. 2013 Jan 29. PMID:23361462<ref>PMID:23361462</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 3vyy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Helicase 3D structures\|Helicase 3D structures]]		*[[Helicase 3D structures\|Helicase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Synthetic construct]]
	[[Category: Fu Q]]		[[Category: Fu Q]]
	[[Category: Yuan YA]]		[[Category: Yuan YA]]

OCA at 10:27, 31 August 2022

OCA — Wed, 31 Aug 2022 10:27:53 GMT

←Older revision		Revision as of 10:27, 31 August 2022
Line 1:		Line 1:

	==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==		==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==
-	<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]]~~, [[Resolution\|resolution]] 2.90Å~~' scene=''>	+	<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>~~[[3vyy]] is a 7 chain structure.~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY 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;'>[[3vyx\|3vyx]]</div></td></tr>~~	+	</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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>	+
	</table>		</table>
-	== Function ==
-	[[https://www.uniprot.org/uniprot/DHX9_HUMAN DHX9_HUMAN]] Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. Positively regulates HIV-1 LTR-directed gene expression.<ref>PMID:19029303</ref> <ref>PMID:19229320</ref> <ref>PMID:22190748</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Intensive research interest has focused on small RNA-processing machinery and the RNA-induced silencing complex (RISC), key cellular machines in RNAi pathways. However, the structural mechanism regarding RISC assembly, the primary step linking small RNA processing and RNA-mediated gene silencing, is largely unknown. Human RNA helicase A (DHX9) was reported to function as an RISC-loading factor, and such function is mediated mainly by its dsRNA-binding domains (dsRBDs). Here, we report the crystal structures of human RNA helicase A (RHA) dsRBD1 and dsRBD2 domains in complex with dsRNAs, respectively. Structural analysis not only reveals higher siRNA duplex-binding affinity displayed by dsRBD1, but also identifies a crystallographic dsRBD1 pair of physiological significance in cooperatively recognizing dsRNAs. Structural observations are further validated by isothermal titration calorimetric (ITC) assay. Moreover, co-immunoprecipitation (co-IP) assay coupled with mutagenesis demonstrated that both dsRBDs are required for RISC association, and such association is mediated by dsRNA. Hence, our structural and functional efforts have revealed a potential working model for siRNA recognition by RHA tandem dsRBDs, and together they provide direct structural insights into RISC assembly facilitated by RHA.
-
-	Structural insights into RISC assembly facilitated by dsRNA-binding domains of human RNA helicase A (DHX9).,Fu Q, Yuan YA Nucleic Acids Res. 2013 Jan 29. PMID:23361462<ref>PMID:23361462</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3vyy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Helicase 3D structures\|Helicase 3D structures]]		*[[Helicase 3D structures\|Helicase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: RNA helicase]]~~	+	[[Category: Fu Q]]
-	[[Category: Fu, Q]]	+	[[Category: Yuan YA]]
-	[[Category: Yuan~~, Y A]]~~	+
-	~~[[Category: Dsrbd fold]]~~	+
-	~~[[Category: Dsrbd-dsrna complex]]~~	+
-	~~[[Category: Dsrna binding]]~~	+
-	~~[[Category: Hydrolase-rna complex]]~~	+
-	~~[[Category: Protein-protein interaction~~]]	+

OCA at 04:56, 25 August 2022

OCA — Thu, 25 Aug 2022 04:56:33 GMT

←Older revision		Revision as of 04:56, 25 August 2022
Line 3:		Line 3:
	<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vyy]] is a 7 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=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vyy]] is a 7 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY 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;'>[[3vyx\|3vyx]]</div></td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3vyx\|3vyx]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DHX9, DDX9, LKP, NDH2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy 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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]

OCA at 19:11, 27 July 2022

OCA — Wed, 27 Jul 2022 19:11:05 GMT

←Older revision		Revision as of 19:11, 27 July 2022
Line 3:		Line 3:
	<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3vyy' size='340' side='right'caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vyy]] is a 7 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=3VYY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3VYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vyy]] is a 7 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=3VYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYY FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vyx\|3vyx]]</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;'>[[3vyx\|3vyx]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DHX9, DDX9, LKP, NDH2 ([~~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">DHX9, DDX9, LKP, NDH2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [~~http~~://pdbe.org/3vyy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy 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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [https://pdbe.org/3vyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [https://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DHX9_HUMAN DHX9_HUMAN]] Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. Positively regulates HIV-1 LTR-directed gene expression.<ref>PMID:19029303</ref> <ref>PMID:19229320</ref> <ref>PMID:22190748</ref>	+	[[https://www.uniprot.org/uniprot/DHX9_HUMAN DHX9_HUMAN]] Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. Positively regulates HIV-1 LTR-directed gene expression.<ref>PMID:19029303</ref> <ref>PMID:19229320</ref> <ref>PMID:22190748</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 08:31, 4 December 2019

OCA — Wed, 04 Dec 2019 08:31:39 GMT

←Older revision

Revision as of 08:31, 4 December 2019

OCA at 19:20, 5 August 2016

OCA — Fri, 05 Aug 2016 19:20:12 GMT

←Older revision		Revision as of 19:20, 5 August 2016
Line 1:		Line 1:
		+
	==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==		==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==
	<StructureSection load='3vyy' size='340' side='right' caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3vyy' size='340' side='right' caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vyy]] is a 7 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=3VYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vyy]] is a 7 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=3VYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VYY FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vyx\|3vyx]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vyx\|3vyx]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DHX9, DDX9, LKP, NDH2 ([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">DHX9, DDX9, LKP, NDH2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [http://www.ebi.ac.uk/pdbsum/3vyy 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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [http://pdbe.org/3vyy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [http://www.ebi.ac.uk/pdbsum/3vyy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3vyy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Fu, Q]]		[[Category: Fu, Q]]

OCA at 05:10, 25 December 2014

OCA — Thu, 25 Dec 2014 05:10:24 GMT

←Older revision		Revision as of 05:10, 25 December 2014
Line 8:		Line 8:
	<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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [http://www.ebi.ac.uk/pdbsum/3vyy 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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [http://www.ebi.ac.uk/pdbsum/3vyy PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DHX9_HUMAN DHX9_HUMAN]] Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. Positively regulates HIV-1 LTR-directed gene expression.<ref>PMID:19029303</ref> <ref>PMID:19229320</ref> <ref>PMID:22190748</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 16:07, 9 December 2014

OCA — Tue, 09 Dec 2014 16:07:33 GMT

←Older revision		Revision as of 16:07, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3vyy.~~jpg~~\|~~left~~\|~~200px~~]]	+	==Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)==
		+	<StructureSection load='3vyy' size='340' side='right' caption='[[3vyy]], [[Resolution\|resolution]] 2.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3vyy]] is a 7 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=3VYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VYY FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vyx\|3vyx]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DHX9, DDX9, LKP, NDH2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </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=3vyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vyy RCSB], [http://www.ebi.ac.uk/pdbsum/3vyy PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Intensive research interest has focused on small RNA-processing machinery and the RNA-induced silencing complex (RISC), key cellular machines in RNAi pathways. However, the structural mechanism regarding RISC assembly, the primary step linking small RNA processing and RNA-mediated gene silencing, is largely unknown. Human RNA helicase A (DHX9) was reported to function as an RISC-loading factor, and such function is mediated mainly by its dsRNA-binding domains (dsRBDs). Here, we report the crystal structures of human RNA helicase A (RHA) dsRBD1 and dsRBD2 domains in complex with dsRNAs, respectively. Structural analysis not only reveals higher siRNA duplex-binding affinity displayed by dsRBD1, but also identifies a crystallographic dsRBD1 pair of physiological significance in cooperatively recognizing dsRNAs. Structural observations are further validated by isothermal titration calorimetric (ITC) assay. Moreover, co-immunoprecipitation (co-IP) assay coupled with mutagenesis demonstrated that both dsRBDs are required for RISC association, and such association is mediated by dsRNA. Hence, our structural and functional efforts have revealed a potential working model for siRNA recognition by RHA tandem dsRBDs, and together they provide direct structural insights into RISC assembly facilitated by RHA.

-	~~{{STRUCTURE_3vyy\| PDB=3vyy \| SCENE= }}~~	+	Structural insights into RISC assembly facilitated by dsRNA-binding domains of human RNA helicase A (DHX9).,Fu Q, Yuan YA Nucleic Acids Res. 2013 Jan 29. PMID:23361462<ref>PMID:23361462</ref>

-	~~===Structural insights into RISC assembly facilitated by dsRNA binding domains~~ of ~~human RNA helicase A (DHX9)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_23361462}}~~	+	==See Also==
-		+	*[[Helicase\|Helicase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~3vyy~~]] ~~is a 7 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=3VYY OCA].~~	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
-	[[Category: Fu, Q.]]	+	[[Category: Fu, Q]]
-	[[Category: Yuan, Y A.]]	+	[[Category: Yuan, Y A]]
	[[Category: Dsrbd fold]]		[[Category: Dsrbd fold]]
	[[Category: Dsrbd-dsrna complex]]		[[Category: Dsrbd-dsrna complex]]

OCA at 10:30, 13 February 2013

OCA — Wed, 13 Feb 2013 10:30:47 GMT

←Older revision		Revision as of 10:30, 13 February 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3vyy.jpg\|left\|200px]]

-	~~The entry~~ 3vyy ~~is ON HOLD~~	+	{{STRUCTURE_3vyy\| PDB=3vyy \| SCENE= }}

-	~~Authors: Yuan, Y.~~A~~., Fu, Q.~~	+	===Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)===

-	~~Description~~: ~~Structural insights into RISC assembly facilitated by dsRNA binding domains of human~~ RNA helicase A ~~(DHX9)~~	+	{{ABSTRACT_PUBMED_23361462}}
		+
		+	==About this Structure==
		+	[[3vyy]] is a 7 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=3VYY OCA].
		+	[[Category: Homo sapiens]]
		+	[[Category: RNA helicase]]
		+	[[Category: Fu, Q.]]
		+	[[Category: Yuan, Y A.]]
		+	[[Category: Dsrbd fold]]
		+	[[Category: Dsrbd-dsrna complex]]
		+	[[Category: Dsrna binding]]
		+	[[Category: Hydrolase-rna complex]]
		+	[[Category: Protein-protein interaction]]

OCA at 06:55, 24 October 2012

OCA — Wed, 24 Oct 2012 06:55:38 GMT

←Older revision		Revision as of 06:55, 24 October 2012
Line 3:		Line 3:
	The entry 3vyy is ON HOLD		The entry 3vyy is ON HOLD

-	Authors: Yuan, Y. A., Fu, Q	+	Authors: Yuan, Y.A., Fu, Q.

	Description: Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)		Description: Structural insights into RISC assembly facilitated by dsRNA binding domains of human RNA helicase A (DHX9)