3a6p - Revision history

OCA at 16:18, 22 December 2021

2021-12-22T16:18:20Z

←Older revision		Revision as of 16:18, 22 December 2021
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	==Crystal structure of Exportin-5:RanGTP:pre-miRNA complex==		==Crystal structure of Exportin-5:RanGTP:pre-miRNA complex==
-	<StructureSection load='3a6p' size='340' side='right' caption='[[3a6p]], [[Resolution\|resolution]] 2.92Å' scene=''>	+	<StructureSection load='3a6p' size='340' side='right'caption='[[3a6p]], [[Resolution\|resolution]] 2.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Canlf Canlf] and [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3A6P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Canlf Canlf] and [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A6P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), RAN ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 CANLF])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), RAN ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 CANLF])</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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [~~http~~://pdbe.org/3a6p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3a6p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6p 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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [https://pdbe.org/3a6p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [https://www.ebi.ac.uk/pdbsum/3a6p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6p ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/XPO5_HUMAN XPO5_HUMAN]] Mediates the nuclear export of proteins bearing a double-stranded RNA binding domain (dsRBD) and double-stranded RNAs (cargos). XPO5 in the nucleus binds cooperatively to the RNA and to the GTPase Ran in its active GTP-bound form. Proteins containing dsRBDs can associate with this trimeric complex through the RNA. Docking of this complex to the nuclear pore complex (NPC) is mediated through binding to nucleoporins. Upon transit of a nuclear export complex into the cytoplasm, hydrolysis of Ran-GTP to Ran-GDP (induced by RANBP1 and RANGAP1, respectively) cause disassembly of the complex and release of the cargo from the export receptor. XPO5 then returns to the nuclear compartment by diffusion through the nuclear pore complex, to mediate another round of transport. The directionality of nuclear export is thought to be conferred by an asymmetric distribution of the GTP- and GDP-bound forms of Ran between the cytoplasm and nucleus. Overexpression may in some circumstances enhance RNA-mediated gene silencing (RNAi). Mediates nuclear export of isoform 5 of ADAR/ADAR1 in a RanGTP-dependent manner.<ref>PMID:12426392</ref> <ref>PMID:11777942</ref> <ref>PMID:12426393</ref> <ref>PMID:14681208</ref> <ref>PMID:12509441</ref> <ref>PMID:14570900</ref> <ref>PMID:15254228</ref> <ref>PMID:14730017</ref> <ref>PMID:14631048</ref> <ref>PMID:15613540</ref> <ref>PMID:19124606</ref> Mediates the nuclear export of micro-RNA precursors, which form short hairpins. Also mediates the nuclear export of synthetic short hairpin RNAs used for RNA interference, and adenovirus VA1 dsRNA. In some circumstances can also mediate the nuclear export of deacylated and aminoacylated tRNAs. Specifically recognizes dsRNAs that lack a 5'-overhang in a sequence-independent manner, have only a short 3'-overhang, and that have a double-stranded length of at least 15 base-pairs. Binding is dependent on Ran-GTP.<ref>PMID:12426392</ref> <ref>PMID:11777942</ref> <ref>PMID:12426393</ref> <ref>PMID:14681208</ref> <ref>PMID:12509441</ref> <ref>PMID:14570900</ref> <ref>PMID:15254228</ref> <ref>PMID:14730017</ref> <ref>PMID:14631048</ref> <ref>PMID:15613540</ref> <ref>PMID:19124606</ref> [[~~http~~://www.uniprot.org/uniprot/RAN_CANFA RAN_CANFA]] GTP-binding protein involved in nucleocytoplasmic transport. Required for the import of protein into the nucleus and also for RNA export. Involved in chromatin condensation and control of cell cycle. The complex with BIRC5/survivin plays a role in mitotic spindle formation by serving as a physical scaffold to help deliver the RAN effector molecule TPX2 to microtubules. Acts as a negative regulator of the kinase activity of VRK1 and VRK2 (By similarity).	+	[[https://www.uniprot.org/uniprot/XPO5_HUMAN XPO5_HUMAN]] Mediates the nuclear export of proteins bearing a double-stranded RNA binding domain (dsRBD) and double-stranded RNAs (cargos). XPO5 in the nucleus binds cooperatively to the RNA and to the GTPase Ran in its active GTP-bound form. Proteins containing dsRBDs can associate with this trimeric complex through the RNA. Docking of this complex to the nuclear pore complex (NPC) is mediated through binding to nucleoporins. Upon transit of a nuclear export complex into the cytoplasm, hydrolysis of Ran-GTP to Ran-GDP (induced by RANBP1 and RANGAP1, respectively) cause disassembly of the complex and release of the cargo from the export receptor. XPO5 then returns to the nuclear compartment by diffusion through the nuclear pore complex, to mediate another round of transport. The directionality of nuclear export is thought to be conferred by an asymmetric distribution of the GTP- and GDP-bound forms of Ran between the cytoplasm and nucleus. Overexpression may in some circumstances enhance RNA-mediated gene silencing (RNAi). Mediates nuclear export of isoform 5 of ADAR/ADAR1 in a RanGTP-dependent manner.<ref>PMID:12426392</ref> <ref>PMID:11777942</ref> <ref>PMID:12426393</ref> <ref>PMID:14681208</ref> <ref>PMID:12509441</ref> <ref>PMID:14570900</ref> <ref>PMID:15254228</ref> <ref>PMID:14730017</ref> <ref>PMID:14631048</ref> <ref>PMID:15613540</ref> <ref>PMID:19124606</ref> Mediates the nuclear export of micro-RNA precursors, which form short hairpins. Also mediates the nuclear export of synthetic short hairpin RNAs used for RNA interference, and adenovirus VA1 dsRNA. In some circumstances can also mediate the nuclear export of deacylated and aminoacylated tRNAs. Specifically recognizes dsRNAs that lack a 5'-overhang in a sequence-independent manner, have only a short 3'-overhang, and that have a double-stranded length of at least 15 base-pairs. Binding is dependent on Ran-GTP.<ref>PMID:12426392</ref> <ref>PMID:11777942</ref> <ref>PMID:12426393</ref> <ref>PMID:14681208</ref> <ref>PMID:12509441</ref> <ref>PMID:14570900</ref> <ref>PMID:15254228</ref> <ref>PMID:14730017</ref> <ref>PMID:14631048</ref> <ref>PMID:15613540</ref> <ref>PMID:19124606</ref> [[https://www.uniprot.org/uniprot/RAN_CANFA RAN_CANFA]] GTP-binding protein involved in nucleocytoplasmic transport. Required for the import of protein into the nucleus and also for RNA export. Involved in chromatin condensation and control of cell cycle. The complex with BIRC5/survivin plays a role in mitotic spindle formation by serving as a physical scaffold to help deliver the RAN effector molecule TPX2 to microtubules. Acts as a negative regulator of the kinase activity of VRK1 and VRK2 (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[Exportin\|Exportin]]	+	*[[Exportin 3D structures\|Exportin 3D structures]]
-	*[[GTP-binding protein\|GTP-binding protein]]	+	*[[GTP-binding protein 3D structures\|GTP-binding protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Canlf]]		[[Category: Canlf]]
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Katahira, J]]		[[Category: Katahira, J]]
	[[Category: Lee, S J]]		[[Category: Lee, S J]]

OCA at 08:05, 24 October 2018

2018-10-24T08:05:08Z

←Older revision

Revision as of 08:05, 24 October 2018

OCA at 21:03, 9 February 2016

2016-02-09T21:03:00Z

←Older revision		Revision as of 21:03, 9 February 2016
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	<StructureSection load='3a6p' size='340' side='right' caption='[[3a6p]], [[Resolution\|resolution]] 2.92Å' scene=''>		<StructureSection load='3a6p' size='340' side='right' caption='[[3a6p]], [[Resolution\|resolution]] 2.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Canis_lupus_familiaris Canis lupus familiaris~~] and [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Canfa Canfa] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6P FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~]), RAN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 ~~Canis lupus familiaris~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), RAN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 CANFA])</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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p 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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://pdbe.org/3a6p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	<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=3a6p ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3a6p" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Canis lupus familiaris~~]]	+	[[Category: Canfa]]
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Katahira, J]]		[[Category: Katahira, J]]
	[[Category: Lee, S J]]		[[Category: Lee, S J]]

OCA at 09:31, 25 December 2014

2014-12-25T09:31:23Z

←Older revision		Revision as of 09:31, 25 December 2014
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	<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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p 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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/XPO5_HUMAN XPO5_HUMAN]] Mediates the nuclear export of proteins bearing a double-stranded RNA binding domain (dsRBD) and double-stranded RNAs (cargos). XPO5 in the nucleus binds cooperatively to the RNA and to the GTPase Ran in its active GTP-bound form. Proteins containing dsRBDs can associate with this trimeric complex through the RNA. Docking of this complex to the nuclear pore complex (NPC) is mediated through binding to nucleoporins. Upon transit of a nuclear export complex into the cytoplasm, hydrolysis of Ran-GTP to Ran-GDP (induced by RANBP1 and RANGAP1, respectively) cause disassembly of the complex and release of the cargo from the export receptor. XPO5 then returns to the nuclear compartment by diffusion through the nuclear pore complex, to mediate another round of transport. The directionality of nuclear export is thought to be conferred by an asymmetric distribution of the GTP- and GDP-bound forms of Ran between the cytoplasm and nucleus. Overexpression may in some circumstances enhance RNA-mediated gene silencing (RNAi). Mediates nuclear export of isoform 5 of ADAR/ADAR1 in a RanGTP-dependent manner.<ref>PMID:12426392</ref> <ref>PMID:11777942</ref> <ref>PMID:12426393</ref> <ref>PMID:14681208</ref> <ref>PMID:12509441</ref> <ref>PMID:14570900</ref> <ref>PMID:15254228</ref> <ref>PMID:14730017</ref> <ref>PMID:14631048</ref> <ref>PMID:15613540</ref> <ref>PMID:19124606</ref> Mediates the nuclear export of micro-RNA precursors, which form short hairpins. Also mediates the nuclear export of synthetic short hairpin RNAs used for RNA interference, and adenovirus VA1 dsRNA. In some circumstances can also mediate the nuclear export of deacylated and aminoacylated tRNAs. Specifically recognizes dsRNAs that lack a 5'-overhang in a sequence-independent manner, have only a short 3'-overhang, and that have a double-stranded length of at least 15 base-pairs. Binding is dependent on Ran-GTP.<ref>PMID:12426392</ref> <ref>PMID:11777942</ref> <ref>PMID:12426393</ref> <ref>PMID:14681208</ref> <ref>PMID:12509441</ref> <ref>PMID:14570900</ref> <ref>PMID:15254228</ref> <ref>PMID:14730017</ref> <ref>PMID:14631048</ref> <ref>PMID:15613540</ref> <ref>PMID:19124606</ref> [[http://www.uniprot.org/uniprot/RAN_CANFA RAN_CANFA]] GTP-binding protein involved in nucleocytoplasmic transport. Required for the import of protein into the nucleus and also for RNA export. Involved in chromatin condensation and control of cell cycle. The complex with BIRC5/survivin plays a role in mitotic spindle formation by serving as a physical scaffold to help deliver the RAN effector molecule TPX2 to microtubules. Acts as a negative regulator of the kinase activity of VRK1 and VRK2 (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Canis lupus familiaris]]		[[Category: Canis lupus familiaris]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Katahira, J.]]	+	[[Category: Katahira, J]]
-	[[Category: Lee, S J.]]	+	[[Category: Lee, S J]]
-	[[Category: Nakagawa, A.]]	+	[[Category: Nakagawa, A]]
-	[[Category: Okada, C.]]	+	[[Category: Okada, C]]
-	[[Category: Shibata, S.]]	+	[[Category: Shibata, S]]
-	[[Category: Tsukihara, T.]]	+	[[Category: Tsukihara, T]]
-	[[Category: Yamashita, E.]]	+	[[Category: Yamashita, E]]
-	[[Category: Yoneda, Y.]]	+	[[Category: Yoneda, Y]]
	[[Category: Cell cycle]]		[[Category: Cell cycle]]
	[[Category: Cell division]]		[[Category: Cell division]]

OCA at 06:10, 10 October 2014

2014-10-10T06:10:05Z

←Older revision		Revision as of 06:10, 10 October 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6P FirstGlance]. <br>		<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6P FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), RAN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 Canis lupus familiaris])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), RAN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 Canis lupus familiaris])</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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p 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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 24:		Line 24:
	A high-resolution structure of the pre-microRNA nuclear export machinery.,Okada C, Yamashita E, Lee SJ, Shibata S, Katahira J, Nakagawa A, Yoneda Y, Tsukihara T Science. 2009 Nov 27;326(5957):1275-9. PMID:19965479<ref>PMID:19965479</ref>		A high-resolution structure of the pre-microRNA nuclear export machinery.,Okada C, Yamashita E, Lee SJ, Shibata S, Katahira J, Nakagawa A, Yoneda Y, Tsukihara T Science. 2009 Nov 27;326(5957):1275-9. PMID:19965479<ref>PMID:19965479</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
		+
		+	==See Also==
		+	*[[Exportin\|Exportin]]
		+	*[[GTP-binding protein\|GTP-binding protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:03, 14 May 2014

2014-05-14T11:03:07Z

←Older revision		Revision as of 11:03, 14 May 2014
Line 1:		Line 1:
-	[[~~Image:~~3a6p.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of Exportin-5:RanGTP:pre-miRNA complex==
		+	<StructureSection load='3a6p' size='340' side='right' caption='[[3a6p]], [[Resolution\|resolution]] 2.92Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3a6p]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6P FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">XPO5, KIAA1291, RANBP21 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), RAN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 Canis lupus familiaris])</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=3a6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6p RCSB], [http://www.ebi.ac.uk/pdbsum/3a6p 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/a6/3a6p_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 ==
		+	Nuclear export of microRNAs (miRNAs) by exportin-5 (Exp-5) is an essential step in miRNA biogenesis. Here, we present the 2.9 angstrom structure of the pre-miRNA nuclear export machinery formed by pre-miRNA complexed with Exp-5 and a guanine triphosphate (GTP)-bound form of the small nuclear guanine triphosphatase (GTPase) Ran (RanGTP). The x-ray structure shows that Exp-5:RanGTP recognizes the 2-nucleotide 3' overhang structure and the double-stranded stem of the pre-miRNA. Exp-5:RanGTP shields the pre-miRNA stem from degradation in a baseball mitt-like structure where it is held by broadly distributed weak interactions, whereas a tunnel-like structure of Exp-5 interacts strongly with the 2-nucleotide 3' overhang through hydrogen bonds and ionic interactions. RNA recognition by Exp-5:RanGTP does not depend on RNA sequence, implying that Exp-5:RanGTP can recognize a variety of pre-miRNAs.

-	<!--	+	A high-resolution structure of the pre-microRNA nuclear export machinery.,Okada C, Yamashita E, Lee SJ, Shibata S, Katahira J, Nakagawa A, Yoneda Y, Tsukihara T Science. 2009 Nov 27;326(5957):1275-9. PMID:19965479<ref>PMID:19965479</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3a6p"~~, ~~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),~~	+
-	~~or leave the SCENE parameter empty for the default display~~.	+
-	-->	+
-	~~{{STRUCTURE_3a6p\| PDB=3a6p \| SCENE= }}~~	+

-	~~===Crystal structure~~ of ~~Exportin-5:RanGTP:pre-miRNA complex===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_19965479}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 19965479 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_19965479}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3a6p]] is a 10 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019965479<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Canis lupus familiaris]]		[[Category: Canis lupus familiaris]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]

OCA: Protected "3a6p" [edit=sysop:move=sysop]

2012-04-25T07:59:31Z

Protected "3a6p" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:59, 25 April 2012

OCA at 07:59, 25 April 2012

2012-04-25T07:59:28Z

←Older revision		Revision as of 07:59, 25 April 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3a6p.png\|left\|200px]]
-	[[Image:3a6p.~~jpg~~\|left\|200px]]	+

	<!--		<!--
Line 12:		Line 11:
	===Crystal structure of Exportin-5:RanGTP:pre-miRNA complex===		===Crystal structure of Exportin-5:RanGTP:pre-miRNA complex===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19965479}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19965479 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19965479}}

	==About this Structure==		==About this Structure==
-	~~3A6P~~ is a 10 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA].	+	[[3a6p]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:019965479</ref><references group="xtra"/>
	[[Category: Canis lupus familiaris]]		[[Category: Canis lupus familiaris]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
Line 25:		Line 33:
	[[Category: Yamashita, E.]]		[[Category: Yamashita, E.]]
	[[Category: Yoneda, Y.]]		[[Category: Yoneda, Y.]]
-	[[Category: Acetylation]]
-	[[Category: Alternative splicing]]
	[[Category: Cell cycle]]		[[Category: Cell cycle]]
	[[Category: Cell division]]		[[Category: Cell division]]
-	[[Category: Cytoplasm]]
	[[Category: Exportin-5]]		[[Category: Exportin-5]]
	[[Category: Gtp-binding]]		[[Category: Gtp-binding]]
Line 39:		Line 44:
	[[Category: Nucleus]]		[[Category: Nucleus]]
	[[Category: Phosphoprotein]]		[[Category: Phosphoprotein]]
-	[[Category: Polymorphism]]
	[[Category: Pre-microrna]]		[[Category: Pre-microrna]]
	[[Category: Protein transport]]		[[Category: Protein transport]]
-	[[Category: Protein transport/nuclear protein/rna complex]]	+	[[Category: Protein transport-nuclear protein-rna complex]]
	[[Category: Rangtp]]		[[Category: Rangtp]]
	[[Category: Rna-binding]]		[[Category: Rna-binding]]
Line 48:		Line 52:
	[[Category: Transport]]		[[Category: Transport]]
	[[Category: Trna-binding]]		[[Category: Trna-binding]]
-	[[Category: Ubl conjugation]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 9 15:41:02 2009''

OCA at 13:41, 9 December 2009

2009-12-09T13:41:03Z

←Older revision		Revision as of 13:41, 9 December 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3a6p.jpg\|left\|200px]]

-	The ~~entry 3a6p~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3a6p", 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),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3a6p\| PDB=3a6p \| SCENE= }}

-	~~Authors~~: ~~Okada, C., Yamashita, E., Lee, S.J., Shibata, S., Katahira, J., Nakagawa, A., Yoneda, Y., Tsukihara, T.~~	+	===Crystal structure of Exportin-5:RanGTP:pre-miRNA complex===

-	Description: Crystal structure of dsRNA binding protein

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Nov 25 09~~:08:23 2009''	+	==About this Structure==
		+	3A6P is a 10 chains structure of sequences from [http://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6P OCA].
		+	[[Category: Canis lupus familiaris]]
		+	[[Category: Homo sapiens]]
		+	[[Category: Katahira, J.]]
		+	[[Category: Lee, S J.]]
		+	[[Category: Nakagawa, A.]]
		+	[[Category: Okada, C.]]
		+	[[Category: Shibata, S.]]
		+	[[Category: Tsukihara, T.]]
		+	[[Category: Yamashita, E.]]
		+	[[Category: Yoneda, Y.]]
		+	[[Category: Acetylation]]
		+	[[Category: Alternative splicing]]
		+	[[Category: Cell cycle]]
		+	[[Category: Cell division]]
		+	[[Category: Cytoplasm]]
		+	[[Category: Exportin-5]]
		+	[[Category: Gtp-binding]]
		+	[[Category: Importin-beta family]]
		+	[[Category: Isopeptide bond]]
		+	[[Category: Mitosis]]
		+	[[Category: Nuclearexport]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Nucleus]]
		+	[[Category: Phosphoprotein]]
		+	[[Category: Polymorphism]]
		+	[[Category: Pre-microrna]]
		+	[[Category: Protein transport]]
		+	[[Category: Protein transport/nuclear protein/rna complex]]
		+	[[Category: Rangtp]]
		+	[[Category: Rna-binding]]
		+	[[Category: Rna-mediated gene silencing]]
		+	[[Category: Transport]]
		+	[[Category: Trna-binding]]
		+	[[Category: Ubl conjugation]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 9 15:41:02 2009''

OCA at 07:08, 25 November 2009

2009-11-25T07:08:23Z

←Older revision		Revision as of 07:08, 25 November 2009
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3a6p is ON HOLD	+	The entry 3a6p is ON HOLD until Paper Publication

	Authors: Okada, C., Yamashita, E., Lee, S.J., Shibata, S., Katahira, J., Nakagawa, A., Yoneda, Y., Tsukihara, T.		Authors: Okada, C., Yamashita, E., Lee, S.J., Shibata, S., Katahira, J., Nakagawa, A., Yoneda, Y., Tsukihara, T.
Line 7:		Line 7:
	Description: Crystal structure of dsRNA binding protein		Description: Crystal structure of dsRNA binding protein

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Sep 30 08~~:55:42 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 25 09:08:23 2009''