332d - Revision history

OCA at 08:39, 7 February 2024

2024-02-07T08:39:12Z

←Older revision		Revision as of 08:39, 7 February 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=332D FirstGlance]. <br>		<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=332D 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [https://pdbe.org/332d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [https://www.ebi.ac.uk/pdbsum/332d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=332d 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]] 1.58Å</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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [https://pdbe.org/332d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [https://www.ebi.ac.uk/pdbsum/332d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=332d ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	To better understand the frequent occurrence of adjacent wobble pairs in ribosomal RNAs we have determined the crystal structure of the RNA duplex, r(GUGUGUA)dC with the 3'-terminal deoxy C residue. Two different crystal forms of the duplex were obtained and both belong to the rhombohedral space group, R3. Crystal form I has hexagonal unit cell dimensions, a = b = 40.82 A and c = 66.09 A and diffracts to 1.58 A resolution, while crystal form II has a = b = 47.11 A and c = 59.86 A, diffracting only to 2.50 A resolution. Both structures were solved by the molecular replacement method using different starting models. In spite of the large differences in the cell dimensions the overall structures in both crystals are similar. Instead of the expected blunt-end duplex with four consecutive G x U pairs, the slippage of the strands resulted in two different tandem G x U/U x G wobble pairs involving two of the central and two of the 5' overhang bases, still yielding a total of four wobble pairs. These tandem wobble pairs are flanked by two Watson-Crick pairs. The A-type duplexes stack in the familiar head-to-tail fashion forming a pseudocontinuous helix. The wobble pairs of the present motif II (G x U/U x G) structure stack with a low twist angle of 25.3 degrees in contrast to that of motif I (U x G/G x U), 38.1 degrees. The four wobble pairs are characteristically heavily hydrated in both the grooves accounting for their stability.
-
-	Crystal structure of r(GUGUGUA)dC with tandem G x U/U x G wobble pairs with strand slippage.,Biswas R, Sundaralingam M J Mol Biol. 1997 Jul 18;270(3):511-9. PMID:9237915<ref>PMID:9237915</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 332d" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Biswas, R]]	+	[[Category: Biswas R]]
-	[[Category: Sundaralingam, M]]	+	[[Category: Sundaralingam M]]
-	~~[[Category: A-dna/rna]]~~	+
-	~~[[Category: Dna-rna complex]]~~	+
-	~~[[Category: Double helix]]~~	+
-	~~[[Category: Overhanging base~~]]	+

OCA at 13:23, 4 May 2022

2022-05-04T13:23:53Z

←Older revision		Revision as of 13:23, 4 May 2022
Line 3:		Line 3:
	<StructureSection load='332d' size='340' side='right'caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>		<StructureSection load='332d' size='340' side='right'caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=332D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=332D FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [~~http~~://pdbe.org/332d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/332d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=332d 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [https://pdbe.org/332d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [https://www.ebi.ac.uk/pdbsum/332d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=332d ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:13, 29 July 2020

2020-07-29T12:13:32Z

←Older revision		Revision as of 12:13, 29 July 2020
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE==		==CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE==
-	<StructureSection load='332d' size='340' side='right' caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>	+	<StructureSection load='332d' size='340' side='right'caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=332D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=332D 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://pdbe.org/332d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=332d ProSAT]</span></td></tr>	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://pdbe.org/332d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=332d ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Biswas, R]]		[[Category: Biswas, R]]
	[[Category: Sundaralingam, M]]		[[Category: Sundaralingam, M]]

OCA at 09:00, 4 August 2016

2016-08-04T09:00:27Z

←Older revision		Revision as of 09:00, 4 August 2016
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE==		==CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE==
	<StructureSection load='332d' size='340' side='right' caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>		<StructureSection load='332d' size='340' side='right' caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=332D FirstGlance]. <br>		<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=332D 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://pdbe.org/332d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=332d ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 13:		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 332d" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 22:58, 3 January 2015

2015-01-03T22:58:31Z

←Older revision		Revision as of 22:58, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=332D FirstGlance]. <br>		<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=332D 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d 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: Biswas, R.]]	+	[[Category: Biswas, R]]
-	[[Category: Sundaralingam, M.]]	+	[[Category: Sundaralingam, M]]
	[[Category: A-dna/rna]]		[[Category: A-dna/rna]]
	[[Category: Dna-rna complex]]		[[Category: Dna-rna complex]]
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Overhanging base]]		[[Category: Overhanging base]]

OCA at 06:59, 9 June 2014

2014-06-09T06:59:29Z

←Older revision		Revision as of 06:59, 9 June 2014
Line 1:		Line 1:
-	[[~~Image~~:332d.~~png\|left\|200px~~]]	+	==CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE==
		+	<StructureSection load='332d' size='340' side='right' caption='[[332d]], [[Resolution\|resolution]] 1.58Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=332D 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=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB], [http://www.ebi.ac.uk/pdbsum/332d PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	To better understand the frequent occurrence of adjacent wobble pairs in ribosomal RNAs we have determined the crystal structure of the RNA duplex, r(GUGUGUA)dC with the 3'-terminal deoxy C residue. Two different crystal forms of the duplex were obtained and both belong to the rhombohedral space group, R3. Crystal form I has hexagonal unit cell dimensions, a = b = 40.82 A and c = 66.09 A and diffracts to 1.58 A resolution, while crystal form II has a = b = 47.11 A and c = 59.86 A, diffracting only to 2.50 A resolution. Both structures were solved by the molecular replacement method using different starting models. In spite of the large differences in the cell dimensions the overall structures in both crystals are similar. Instead of the expected blunt-end duplex with four consecutive G x U pairs, the slippage of the strands resulted in two different tandem G x U/U x G wobble pairs involving two of the central and two of the 5' overhang bases, still yielding a total of four wobble pairs. These tandem wobble pairs are flanked by two Watson-Crick pairs. The A-type duplexes stack in the familiar head-to-tail fashion forming a pseudocontinuous helix. The wobble pairs of the present motif II (G x U/U x G) structure stack with a low twist angle of 25.3 degrees in contrast to that of motif I (U x G/G x U), 38.1 degrees. The four wobble pairs are characteristically heavily hydrated in both the grooves accounting for their stability.

-	~~{{STRUCTURE_332d\| PDB=332d \| SCENE= }}~~	+	Crystal structure of r(GUGUGUA)dC with tandem G x U/U x G wobble pairs with strand slippage.,Biswas R, Sundaralingam M J Mol Biol. 1997 Jul 18;270(3):511-9. PMID:9237915<ref>PMID:9237915</ref>

-	~~===CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U~~/U~~-G WOBBLE PAIRS WITH STRAND SLIPPAGE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_9237915}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[332d]] is a 2 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=332D OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:009237915<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Biswas, R.]]		[[Category: Biswas, R.]]
	[[Category: Sundaralingam, M.]]		[[Category: Sundaralingam, M.]]

OCA: Protected "332d" [edit=sysop:move=sysop]

2012-08-14T18:18:37Z

Protected "332d" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:18, 14 August 2012

OCA at 18:18, 14 August 2012

2012-08-14T18:18:36Z

←Older revision		Revision as of 18:18, 14 August 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:332d.png\|left\|200px]]		[[Image:332d.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_332d", 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_332d\| PDB=332d \| SCENE= }}		{{STRUCTURE_332d\| PDB=332d \| SCENE= }}

	===CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE===		===CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_9237915}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 9237915 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_9237915}}		{{ABSTRACT_PUBMED_9237915}}

	==About this Structure==		==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA].	+	[[332d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA].

	==Reference==		==Reference==
-	~~Crystal structure of r(GUGUGUA)dC with tandem G x U/U x G wobble pairs with strand slippage., Biswas R, Sundaralingam M, J Mol Biol. 1997 Jul 18;270(3):511-9.~~ PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~9237915 9237915]~~	+	<ref group="xtra">PMID:009237915</ref><references group="xtra"/>
	[[Category: Biswas, R.]]		[[Category: Biswas, R.]]
	[[Category: Sundaralingam, M.]]		[[Category: Sundaralingam, M.]]
	[[Category: A-dna/rna]]		[[Category: A-dna/rna]]
		+	[[Category: Dna-rna complex]]
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Overhanging base]]		[[Category: Overhanging base]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 13:26:47 2008''

OCA at 10:26, 27 July 2008

2008-07-27T10:26:49Z

←Older revision		Revision as of 10:26, 27 July 2008
Line 1:		Line 1:
-	[[Image:332d.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:332d.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_332d\| PDB=332d \| SCENE= }}		{{STRUCTURE_332d\| PDB=332d \| SCENE= }}

-	~~'''~~CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE~~'''~~	+	===CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE===


-	~~==Overview==~~	+	<!--
-	~~To better understand the frequent occurrence of adjacent wobble pairs in ribosomal RNAs we have determined the crystal structure of the RNA duplex, r(GUGUGUA)dC with the 3'~~-terminal deoxy C residue. Two different crystal forms of the duplex were obtained and both belong to the rhombohedral space group, R3. Crystal form I has hexagonal unit cell dimensions, a = b = 40.82 A and c = 66.09 A and diffracts to 1.58 A resolution, while crystal form II has a = b = 47.11 A and c = 59.86 A, diffracting only to 2.50 A resolution. Both structures were solved by the molecular replacement method using different starting models. In spite of the large differences in the cell dimensions the overall structures in both crystals are similar. Instead of the expected blunt-~~end duplex with four consecutive G x U pairs~~, ~~the slippage of the strands resulted in two different tandem G x U/U x G wobble pairs involving two of the central and two of the 5' overhang bases~~, ~~still yielding a total of four wobble pairs. These tandem wobble pairs are flanked by two Watson-Crick pairs. The A-type duplexes stack in~~ the ~~familiar head-~~to~~-tail fashion forming a pseudocontinuous helix. The wobble pairs of~~ the ~~present motif II~~ (~~G x U~~/~~U x G) structure stack with a low twist angle of 25~~.~~3 degrees in contrast to that of motif I (U x G/G x U~~), ~~38.1 degrees. The four wobble pairs are characteristically heavily hydrated in both~~ the ~~grooves accounting for their stability~~.	+	The line below this paragraph, {{ABSTRACT_PUBMED_9237915}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 9237915 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_9237915}}

	==About this Structure==		==About this Structure==
Line 25:		Line 29:
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Overhanging base]]		[[Category: Overhanging base]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun ~~May 4 20~~:16:06 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 13:26:47 2008''

OCA at 17:16, 4 May 2008

2008-05-04T17:16:07Z

←Older revision		Revision as of 17:16, 4 May 2008
Line 1:		Line 1:
	[[Image:332d.gif\|left\|200px]]		[[Image:332d.gif\|left\|200px]]

-	{{Structure	+	<!--
-	\|PDB~~= 332d \|SIZE=350\|CAPTION= <~~scene ~~name='initialview01'>332d</scene>~~, ~~resolution 1~~.~~580Å~~	+	The line below this paragraph, containing "STRUCTURE_332d", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <scene name='pdbligand=A:ADENOSINE~~-~~5'~~-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	\|~~ACTIVITY~~=	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	~~\|DOMAIN=~~	+	{{STRUCTURE_332d\| PDB=332d \| SCENE= }}
-	~~\|RELATEDENTRY=~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=332d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=332d OCA], [http://www.ebi.ac.uk/pdbsum/332d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=332d RCSB]</span>	+
-	}}	+

	'''CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE'''		'''CRYSTAL STRUCTURE OF R(GUGUGUA)D(C) WITH TANDEM G-U/U-G WOBBLE PAIRS WITH STRAND SLIPPAGE'''
Line 19:		Line 16:

	==About this Structure==		==About this Structure==
-	~~332D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ].~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA].	+	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=332D OCA].

	==Reference==		==Reference==
	Crystal structure of r(GUGUGUA)dC with tandem G x U/U x G wobble pairs with strand slippage., Biswas R, Sundaralingam M, J Mol Biol. 1997 Jul 18;270(3):511-9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9237915 9237915]		Crystal structure of r(GUGUGUA)dC with tandem G x U/U x G wobble pairs with strand slippage., Biswas R, Sundaralingam M, J Mol Biol. 1997 Jul 18;270(3):511-9. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9237915 9237915]
-	[[Category: Protein complex]]
	[[Category: Biswas, R.]]		[[Category: Biswas, R.]]
	[[Category: Sundaralingam, M.]]		[[Category: Sundaralingam, M.]]
-	[[Category: a-dna/rna]]	+	[[Category: A-dna/rna]]
-	[[Category: ~~double~~ helix]]	+	[[Category: Double helix]]
-	[[Category: ~~overhanging~~ base]]	+	[[Category: Overhanging base]]
-		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 20:16:06 2008''
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:21:26 2008''	+