1nxr - Revision history

OCA at 18:53, 29 November 2023

OCA — Wed, 29 Nov 2023 18:53:45 GMT

←Older revision		Revision as of 18:53, 29 November 2023
Line 1:		Line 1:

	==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==		==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==
-	<StructureSection load='1nxr' size='340' side='right'caption='[[1nxr~~]], [[NMR_Ensembles_of_Models \| 18 NMR models~~]]' scene=''>	+	<StructureSection load='1nxr' size='340' side='right'caption='[[1nxr]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NXR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NXR 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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [https://pdbe.org/1nxr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [https://www.ebi.ac.uk/pdbsum/1nxr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nxr 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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [https://pdbe.org/1nxr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [https://www.ebi.ac.uk/pdbsum/1nxr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nxr ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fedoroff~~, O Y~~]]	+	[[Category: Fedoroff OY]]
-	[[Category: Ge, Y]]	+	[[Category: Ge Y]]
-	[[Category: Reid~~, B R]]~~	+	[[Category: Reid BR]]
-	~~[[Category: Dna-rna complex]]~~	+
-	~~[[Category: Dna-rna hybrid]]~~	+
-	~~[[Category: Hiv-1 polypurine hybrid]]~~	+
-	~~[[Category: Reverse transcriptase]]~~	+
-	~~[[Category: Rna/dna hybrid]]~~	+
-	~~[[Category: Rnase h~~]]	+

OCA at 09:53, 12 May 2021

OCA — Wed, 12 May 2021 09:53:55 GMT

←Older revision		Revision as of 09:53, 12 May 2021
Line 3:		Line 3:
	<StructureSection load='1nxr' size='340' side='right'caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>		<StructureSection load='1nxr' size='340' side='right'caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1NXR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NXR FirstGlance]. <br>
-	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [~~http~~://pdbe.org/1nxr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1nxr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1nxr ProSAT]</span></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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [https://pdbe.org/1nxr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [https://www.ebi.ac.uk/pdbsum/1nxr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nxr ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:13, 7 August 2019

OCA — Wed, 07 Aug 2019 07:13:33 GMT

←Older revision		Revision as of 07:13, 7 August 2019
Line 1:		Line 1:

	==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==		==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==
-	<StructureSection load='1nxr' size='340' side='right' caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>	+	<StructureSection load='1nxr' size='340' side='right'caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Fedoroff, O Y]]		[[Category: Fedoroff, O Y]]
	[[Category: Ge, Y]]		[[Category: Ge, Y]]

OCA at 09:59, 1 November 2017

OCA — Wed, 01 Nov 2017 09:59:28 GMT

←Older revision		Revision as of 09:59, 1 November 2017
Line 1:		Line 1:
		+
	==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==		==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==
	<StructureSection load='1nxr' size='340' side='right' caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>		<StructureSection load='1nxr' size='340' side='right' caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>
-	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://pdbe.org/1nxr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr PDBsum]</span></td></tr>	+	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://pdbe.org/1nxr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1nxr ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:14, 11 September 2015

OCA — Fri, 11 Sep 2015 07:14:09 GMT

←Older revision		Revision as of 07:14, 11 September 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>
-	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr PDBsum]</span></td></tr>	+	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://pdbe.org/1nxr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 13:		Line 13:
	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 1nxr" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:02, 5 January 2015

OCA — Mon, 05 Jan 2015 17:02:41 GMT

←Older revision		Revision as of 17:02, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>
-	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr PDBsum]</span></td></tr>	+	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr 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 17:		Line 17:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Fedoroff, O Y.]]	+	[[Category: Fedoroff, O Y]]
-	[[Category: Ge, Y.]]	+	[[Category: Ge, Y]]
-	[[Category: Reid, B R.]]	+	[[Category: Reid, B R]]
	[[Category: Dna-rna complex]]		[[Category: Dna-rna complex]]
	[[Category: Dna-rna hybrid]]		[[Category: Dna-rna hybrid]]

OCA at 15:13, 28 September 2014

OCA — Sun, 28 Sep 2014 15:13:47 GMT

←Older revision		Revision as of 15:13, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1nxr.~~png\|left\|200px~~]]	+	==HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES==
		+	<StructureSection load='1nxr' size='340' side='right' caption='[[1nxr]], [[NMR_Ensembles_of_Models \| 18 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NXR FirstGlance]. <br>
		+	</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=1nxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nxr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1nxr RCSB], [http://www.ebi.ac.uk/pdbsum/1nxr PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The three-dimensional solution structure of the hybrid duplex r(gaggacug):d(CAGTCCTC) has been determined by two-dimensional NMR, distance geometry (DG), restrained molecular dynamics (rMD) and NOE back-calculation methods. This hybrid, consisting of a purine-rich RNA strand and a pyrimidine-rich DNA strand, is related to the polypurine (+)-strand primer formed after (-)-strand DNA synthesis and RNase H degradation of the viral RNA strand and contains the site of a specific cleavage by reverse transcription (RT) RNase H at the end of the HIV-1 polypurine tract. This polypurine primer is an important intermediate in the formation of virally encoded double-stranded DNA prior to HIV-1 retrovirus integration. The correct processing of this primer is vital in the life cycle of the human immunodeficiency virus type (HIV-1) retrovirus. The structure of the r(gaggacug):d(CAGTCCTC) hybrid, as determined in solution by NMR, is intermediate between canonical A-type and B-type double helices, and has mixed structural characteristics. It is quantitatively different from the previously determined solution structures of other RNA-DNA hybrids, particularly in the width and shape of the major groove, which is wider than the major groove of other hybrids and is close to the dimension of the major groove of B-type DNA duplexes. The structure of this hybrid duplex contains a prominent bend in the double helix with a magnitude and direction similar to the bend in Okazaki fragments. The structural features of the present duplex may explain the unique interactions of this sequence with HIV-1 RT during both (-)-strand and (+)-strand DNA synthesis.

-	~~{{STRUCTURE_1nxr\| PDB=1nxr \| SCENE= }}~~	+	Solution structure of r(gaggacug):d(CAGTCCTC) hybrid: implications for the initiation of HIV-1 (+)-strand synthesis.,Fedoroff OY, Ge Y, Reid BR J Mol Biol. 1997 Jun 6;269(2):225-39. PMID:9191067<ref>PMID:9191067</ref>

-	~~===HIV-1 POLYPURINE HYBRID~~, ~~R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_9191067}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[1nxr]] is a 2 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA].~~	+	</StructureSection>
	[[Category: Fedoroff, O Y.]]		[[Category: Fedoroff, O Y.]]
	[[Category: Ge, Y.]]		[[Category: Ge, Y.]]

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

OCA — Wed, 05 Dec 2012 21:19:53 GMT

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

←Older revision

Revision as of 21:19, 5 December 2012

OCA at 21:19, 5 December 2012

OCA — Wed, 05 Dec 2012 21:19:49 GMT

←Older revision		Revision as of 21:19, 5 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1nxr.png\|left\|200px]]		[[Image:1nxr.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1nxr", 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_1nxr\| PDB=1nxr \| SCENE= }}		{{STRUCTURE_1nxr\| PDB=1nxr \| SCENE= }}

	===HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES===		===HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_9191067}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 9191067 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_9191067}}		{{ABSTRACT_PUBMED_9191067}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA].	+	[[1nxr]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA].
-		+
-	~~==Reference==~~	+
-	Solution structure of r(gaggacug):d(CAGTCCTC) hybrid: implications for the initiation of HIV-1 (+)-strand synthesis., Fedoroff OY, Ge Y, Reid BR, J Mol Biol. 1997 Jun 6;269(2):225-39. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9191067 9191067]	+
	[[Category: Fedoroff, O Y.]]		[[Category: Fedoroff, O Y.]]
	[[Category: Ge, Y.]]		[[Category: Ge, Y.]]
	[[Category: Reid, B R.]]		[[Category: Reid, B R.]]
		+	[[Category: Dna-rna complex]]
		+	[[Category: Dna-rna hybrid]]
	[[Category: Hiv-1 polypurine hybrid]]		[[Category: Hiv-1 polypurine hybrid]]
	[[Category: Reverse transcriptase]]		[[Category: Reverse transcriptase]]
	[[Category: Rna/dna hybrid]]		[[Category: Rna/dna hybrid]]
	[[Category: Rnase h]]		[[Category: Rnase h]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 23:45:52 2008''

OCA at 20:46, 28 July 2008

OCA — Mon, 28 Jul 2008 20:46:03 GMT

←Older revision		Revision as of 20:46, 28 July 2008
Line 1:		Line 1:
-	[[Image:1nxr.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1nxr.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1nxr\| PDB=1nxr \| SCENE= }}		{{STRUCTURE_1nxr\| PDB=1nxr \| SCENE= }}

-	~~'''~~HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES~~'''~~	+	===HIV-1 POLYPURINE HYBRID, R(GAGGACUG):D(CAGTCCTC), NMR, 18 STRUCTURES===


-	~~==Overview==~~	+	<!--
-	The ~~three-dimensional solution structure of the hybrid duplex r(gaggacug):d(CAGTCCTC) has been determined by two-dimensional NMR~~, ~~distance geometry (DG)~~, ~~restrained molecular dynamics (rMD) and NOE back-calculation methods. This hybrid, consisting of a purine-rich RNA strand and a pyrimidine-rich DNA strand, is related~~ to the ~~polypurine~~ (~~+)-strand primer formed after (-)-strand DNA synthesis and RNase H degradation of the viral RNA strand and contains the site of a specific cleavage by reverse transcription (RT) RNase H~~ at ~~the end of the HIV-1 polypurine tract~~. ~~This polypurine primer is an important intermediate in the formation of virally encoded double-stranded DNA prior to HIV-1 retrovirus integration~~. ~~The correct processing of this primer is vital in the life cycle of the human immunodeficiency virus type (HIV-1~~) ~~retrovirus. The structure of the r(gaggacug):d(CAGTCCTC) hybrid, as determined in solution by NMR~~, is ~~intermediate between canonical A-type and B-type double helices, and has mixed structural characteristics. It is quantitatively different from~~ the previously determined solution structures of other RNA-DNA hybrids, particularly in the width and shape of the major groove, which is wider than the major groove of other hybrids and is close to the dimension of the major groove of B-type DNA duplexes. The structure of this hybrid duplex contains a prominent bend in the double helix with a magnitude and direction similar to the bend in Okazaki fragments. The structural features of the present duplex may explain the unique interactions of this sequence with HIV-~~1 RT during both (~~-~~)-strand and (+)-strand DNA synthesis.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_9191067}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 9191067 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_9191067}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NXR OCA].

	==Reference==		==Reference==
Line 27:		Line 31:
	[[Category: Rna/dna hybrid]]		[[Category: Rna/dna hybrid]]
	[[Category: Rnase h]]		[[Category: Rnase h]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 03~~:06:30 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 23:45:52 2008''