1esy - Revision history

OCA at 06:27, 1 May 2024

OCA — Wed, 01 May 2024 06:27:40 GMT

←Older revision		Revision as of 06:27, 1 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ESY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ESY 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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [https://pdbe.org/1esy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [https://www.ebi.ac.uk/pdbsum/1esy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [https://pdbe.org/1esy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [https://www.ebi.ac.uk/pdbsum/1esy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The genome of the human immunodeficiency virus type-1 (HIV-1) contains a stretch of approximately 120 nucleotides known as the psi-site that is essential for RNA packaging during virus assembly. These nucleotides have been proposed to form four stem-loops (SL1-SL4) that have both independent and overlapping functions. Stem-loop SL2 is important for efficient recognition and packaging of the full-length, unspliced viral genome, and also contains the major splice-donor site (SD) for mRNA splicing. We have determined the structure of the 19-residue SL2 oligoribonucleotide by heteronuclear NMR methods. The structure is generally consistent with the most recent of two earlier secondary structure predictions, with residues G1-G2-C3-G4 and C6-U7 forming standard Watson Crick base-pairs with self-complementary residues C16-G17-C18-C19 and A12-G13, respectively. However, residue A15, which is located near the center of the stem, does not form a predicted bulge, and residues A5 and U14 do not form an expected Watson-Crick base-pair. Instead, these residues form a novel A5-U14-A15 base-triple that appears to be stabilized by hydrogen bonds from A15-H61 and -H62 to A5-N1 and U14-O2, respectively; from A5-H61 to U14-O2, and from C16-H42 to U14-O2'. A kink in the backbone allows the aromatic rings of the sequential U14-A15 residues to be approximately co-planar, adopting a stable "platform motif" that is structurally similar to the A-A (adenosine) platforms observed in the P4-P6 ribozyme domain of the Tetrahymena group I intron. Platform motifs generally function in RNA by mediating long-range interactions, and it is therefore possible that the A-U-A base-triple platform mediates long-range interactions that either stabilize the psi-RNA or facilitate splicing and/or packaging. Residue G8 of the G8-G9-U10-G11 tetraloop is stacked above the U7-A12 base-pair, and the remaining tetraloop residues are disordered and available for potential interactions with either other RNA or protein components.
-
-	NMR structure of stem-loop SL2 of the HIV-1 psi RNA packaging signal reveals a novel A-U-A base-triple platform.,Amarasinghe GK, De Guzman RN, Turner RB, Summers MF J Mol Biol. 2000 May 26;299(1):145-56. PMID:10860728<ref>PMID:10860728</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1esy" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:24, 21 December 2022

OCA — Wed, 21 Dec 2022 10:24:55 GMT

←Older revision		Revision as of 10:24, 21 December 2022
Line 1:		Line 1:

	==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==		==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==
-	<StructureSection load='1esy' size='340' side='right'caption='[[1esy~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='1esy' size='340' side='right'caption='[[1esy]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ESY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ESY 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;'>[[1bn0\|1bn0]]</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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [https://pdbe.org/1esy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [https://www.ebi.ac.uk/pdbsum/1esy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy 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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [https://pdbe.org/1esy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [https://www.ebi.ac.uk/pdbsum/1esy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human immunodeficiency virus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Amarasinghe~~, G K~~]]	+	[[Category: Amarasinghe GK]]
-	[[Category: ~~Guzman, R N.~~De]]	+	[[Category: De Guzman RN]]
-	[[Category: Summers~~, M F~~]]	+	[[Category: Summers MF]]
-	[[Category: Turner~~, R B]]~~	+	[[Category: Turner RB]]
-	~~[[Category: Hiv-1]]~~	+
-	~~[[Category: Platform motif]]~~	+
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Splice-donor site~~]]	+

OCA at 07:15, 17 March 2021

OCA — Wed, 17 Mar 2021 07:15:11 GMT

←Older revision		Revision as of 07:15, 17 March 2021
Line 3:		Line 3:
	<StructureSection load='1esy' size='340' side='right'caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1esy' size='340' side='right'caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1ESY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ESY FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</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;'>[[1bn0\|1bn0]]</div></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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [~~http~~://pdbe.org/1esy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1esy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy 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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [https://pdbe.org/1esy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [https://www.ebi.ac.uk/pdbsum/1esy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:13, 12 June 2019

OCA — Wed, 12 Jun 2019 07:13:54 GMT

←Older revision		Revision as of 07:13, 12 June 2019
Line 1:		Line 1:

	==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==		==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==
-	<StructureSection load='1esy' size='340' side='right' caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='1esy' size='340' side='right'caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Amarasinghe, G K]]		[[Category: Amarasinghe, G K]]
	[[Category: Guzman, R N.De]]		[[Category: Guzman, R N.De]]

OCA at 03:56, 6 September 2017

OCA — Wed, 06 Sep 2017 03:56:11 GMT

←Older revision		Revision as of 03:56, 6 September 2017
Line 1:		Line 1:
		+
	==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==		==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==
	<StructureSection load='1esy' size='340' side='right' caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1esy' size='340' side='right' caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://pdbe.org/1esy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy 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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://pdbe.org/1esy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1esy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:00, 12 September 2015

OCA — Sat, 12 Sep 2015 01:00:29 GMT

←Older revision		Revision as of 01:00, 12 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy 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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://pdbe.org/1esy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 14:
	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 1esy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:12, 22 December 2014

OCA — Mon, 22 Dec 2014 23:12:27 GMT

←Older revision		Revision as of 23:12, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy 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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 18:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Amarasinghe, G K.]]	+	[[Category: Amarasinghe, G K]]
-	[[Category: Guzman, R N.De.]]	+	[[Category: Guzman, R N.De]]
-	[[Category: Summers, M F.]]	+	[[Category: Summers, M F]]
-	[[Category: Turner, R B.]]	+	[[Category: Turner, R B]]
	[[Category: Hiv-1]]		[[Category: Hiv-1]]
	[[Category: Platform motif]]		[[Category: Platform motif]]
	[[Category: Rna]]		[[Category: Rna]]
	[[Category: Splice-donor site]]		[[Category: Splice-donor site]]

OCA at 11:24, 24 September 2014

OCA — Wed, 24 Sep 2014 11:24:56 GMT

←Older revision		Revision as of 11:24, 24 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1esy.~~png~~\|~~left~~\|~~200px~~]]	+	==NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM==
		+	<StructureSection load='1esy' size='340' side='right' caption='[[1esy]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1esy]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ESY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ESY FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bn0\|1bn0]]</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=1esy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1esy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1esy RCSB], [http://www.ebi.ac.uk/pdbsum/1esy PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The genome of the human immunodeficiency virus type-1 (HIV-1) contains a stretch of approximately 120 nucleotides known as the psi-site that is essential for RNA packaging during virus assembly. These nucleotides have been proposed to form four stem-loops (SL1-SL4) that have both independent and overlapping functions. Stem-loop SL2 is important for efficient recognition and packaging of the full-length, unspliced viral genome, and also contains the major splice-donor site (SD) for mRNA splicing. We have determined the structure of the 19-residue SL2 oligoribonucleotide by heteronuclear NMR methods. The structure is generally consistent with the most recent of two earlier secondary structure predictions, with residues G1-G2-C3-G4 and C6-U7 forming standard Watson Crick base-pairs with self-complementary residues C16-G17-C18-C19 and A12-G13, respectively. However, residue A15, which is located near the center of the stem, does not form a predicted bulge, and residues A5 and U14 do not form an expected Watson-Crick base-pair. Instead, these residues form a novel A5-U14-A15 base-triple that appears to be stabilized by hydrogen bonds from A15-H61 and -H62 to A5-N1 and U14-O2, respectively; from A5-H61 to U14-O2, and from C16-H42 to U14-O2'. A kink in the backbone allows the aromatic rings of the sequential U14-A15 residues to be approximately co-planar, adopting a stable "platform motif" that is structurally similar to the A-A (adenosine) platforms observed in the P4-P6 ribozyme domain of the Tetrahymena group I intron. Platform motifs generally function in RNA by mediating long-range interactions, and it is therefore possible that the A-U-A base-triple platform mediates long-range interactions that either stabilize the psi-RNA or facilitate splicing and/or packaging. Residue G8 of the G8-G9-U10-G11 tetraloop is stacked above the U7-A12 base-pair, and the remaining tetraloop residues are disordered and available for potential interactions with either other RNA or protein components.

-	~~{{STRUCTURE_1esy\| PDB=1esy \| SCENE= }}~~	+	NMR structure of stem-loop SL2 of the HIV-1 psi RNA packaging signal reveals a novel A-U-A base-triple platform.,Amarasinghe GK, De Guzman RN, Turner RB, Summers MF J Mol Biol. 2000 May 26;299(1):145-56. PMID:10860728<ref>PMID:10860728</ref>

-	~~===NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-~~U~~-A BASE-TRIPLE PLATFORM===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~==About this Structure==~~	+	<references/>
-	~~[[1esy]] is a 1 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=1ESY OCA].~~	+	__TOC__
-		+	</StructureSection>
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:010860728<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Amarasinghe, G K.]]		[[Category: Amarasinghe, G K.]]
	[[Category: Guzman, R N.De.]]		[[Category: Guzman, R N.De.]]

OCA at 14:35, 8 November 2012

OCA — Thu, 08 Nov 2012 14:35:12 GMT

←Older revision		Revision as of 14:35, 8 November 2012
Line 1:		Line 1:
	[[Image:1esy.png\|left\|200px]]		[[Image:1esy.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1esy", 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_1esy\| PDB=1esy \| SCENE= }}		{{STRUCTURE_1esy\| PDB=1esy \| SCENE= }}

	===NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM===		===NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_10860728}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 10860728 is the PubMed ID number.
-	-->
-	{{ABSTRACT_PUBMED_10860728}}

	==About this Structure==		==About this Structure==
Line 22:		Line 10:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10860728~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010860728</ref><references group="xtra"/>
	[[Category: Amarasinghe, G K.]]		[[Category: Amarasinghe, G K.]]
	[[Category: Guzman, R N.De.]]		[[Category: Guzman, R N.De.]]

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

OCA — Wed, 29 Dec 2010 17:52:08 GMT

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

←Older revision

Revision as of 17:52, 29 December 2010