1hs2 - Revision history

OCA at 18:38, 29 November 2023

OCA — Wed, 29 Nov 2023 18:38:46 GMT

←Older revision		Revision as of 18:38, 29 November 2023
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	==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==		==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==
-	<StructureSection load='1hs2' size='340' side='right'caption='[[1hs2~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='1hs2' size='340' side='right'caption='[[1hs2]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1HS2 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;'>[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</div~~></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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [https://pdbe.org/1hs2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [https://www.ebi.ac.uk/pdbsum/1hs2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1hs2 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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [https://pdbe.org/1hs2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [https://www.ebi.ac.uk/pdbsum/1hs2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1hs2 ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fountain~~, M A~~]]	+	[[Category: Fountain MA]]
-	[[Category: Krugh~~, T R~~]]	+	[[Category: Krugh TR]]
-	[[Category: Zhang, H]]	+	[[Category: Zhang H]]
-	~~[[Category: 30s ribosome]]~~	+
-	~~[[Category: Hairpin loop]]~~	+
-	~~[[Category: Ribonucleic acid]]~~	+
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Rna structure~~]]	+

OCA at 07:27, 7 April 2021

OCA — Wed, 07 Apr 2021 07:27:08 GMT

←Older revision		Revision as of 07:27, 7 April 2021
Line 3:		Line 3:
	<StructureSection load='1hs2' size='340' side='right'caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1hs2' size='340' side='right'caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</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;'>[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [~~http~~://pdbe.org/1hs2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1hs2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1hs2 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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [https://pdbe.org/1hs2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [https://www.ebi.ac.uk/pdbsum/1hs2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1hs2 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:27, 3 July 2019

OCA — Wed, 03 Jul 2019 07:27:55 GMT

←Older revision		Revision as of 07:27, 3 July 2019
Line 1:		Line 1:

	==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==		==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==
-	<StructureSection load='1hs2' size='340' side='right' caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='1hs2' size='340' side='right'caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Fountain, M A]]		[[Category: Fountain, M A]]
	[[Category: Krugh, T R]]		[[Category: Krugh, T R]]

OCA at 10:52, 27 September 2017

OCA — Wed, 27 Sep 2017 10:52:13 GMT

←Older revision		Revision as of 10:52, 27 September 2017
Line 1:		Line 1:
		+
	==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==		==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==
	<StructureSection load='1hs2' size='340' side='right' caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1hs2' size='340' side='right' caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://pdbe.org/1hs2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://pdbe.org/1hs2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1hs2 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:38, 10 September 2015

OCA — Thu, 10 Sep 2015 12:38:38 GMT

←Older revision		Revision as of 12:38, 10 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://pdbe.org/1hs2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 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 1hs2" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 09:49, 2 January 2015

OCA — Fri, 02 Jan 2015 09:49:18 GMT

←Older revision		Revision as of 09:49, 2 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Fountain, M A.]]	+	[[Category: Fountain, M A]]
-	[[Category: Krugh, T R.]]	+	[[Category: Krugh, T R]]
-	[[Category: Zhang, H.]]	+	[[Category: Zhang, H]]
	[[Category: 30s ribosome]]		[[Category: 30s ribosome]]
	[[Category: Hairpin loop]]		[[Category: Hairpin loop]]

OCA at 11:04, 28 September 2014

OCA — Sun, 28 Sep 2014 11:04:38 GMT

←Older revision		Revision as of 11:04, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1hs2.~~png~~\|~~left~~\|~~200px~~]]	+	==SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)==
		+	<StructureSection load='1hs2' size='340' side='right' caption='[[1hs2]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1HS2 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hs1\|1hs1]], [[1hs3\|1hs3]], [[1hs4\|1hs4]], [[1hs8\|1hs8]]</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=1hs2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hs2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1hs2 RCSB], [http://www.ebi.ac.uk/pdbsum/1hs2 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The binding region of the Escherichia coli S2 ribosomal protein contains a conserved UUAAGU hairpin loop. The structure of the hairpin formed by the oligomer r(GCGU4U5A6A7G8U9CGCA), which has an r(UUAAGU) hairpin loop, was determined by NMR and molecular modeling techniques as part of a study aimed at characterizing the structure and thermodynamics of RNA hairpin loops. Thermodynamic data obtained from melting curves for this RNA oligomer show that it forms a hairpin in solution with the following parameters: DeltaH degrees = -42.8 +/- 2.2 kcal/mol, DeltaS degrees = -127.6 +/- 6.5 eu, and DeltaG degrees (37) = -3.3 +/- 0.2 kcal/mol. Two-dimensional NOESY WATERGATE spectra show an NOE between U imino protons, which suggests that U4 and U9 form a hydrogen bonded U.U pair. The U5(H2') proton shows NOEs to both the A6(H8) proton and the A7(H8) proton, which is consistent with formation of a "U" turn between nucleotides U5 and A6. An NOE between the A7(H2) proton and the U9(H4') proton shows the proximity of the A7 base to the U9 sugar, which is consistent with the structure determined for the six-nucleotide loop. In addition to having a hydrogen-bonded U.U pair as the first mismatch and a U turn, the r(UUAAGU) loop has the G8 base protruding into the solvent. The solution structure of the r(UUAAGU) loop is essentially identical to the structure of an identical loop found in the crystal structure of the 30S ribosomal subunit where the guanine in the loop is involved in tertiary interactions with RNA bases from adjacent regions [Wimberly, B. T., Brodersen, D. E., Clemons, W. M., Morgan-Warren, R. J., Carter, A. P., Vonrhein, C., Hartsch, T., and Ramakrishnan, V. (2000) Nature 407, 327-339]. The similarity of the solution and solid-state structures of this hairpin loop suggests that formation of this hairpin may facilitate folding of 16S RNA.

-	~~{{STRUCTURE_1hs2\| PDB=1hs2 \| SCENE= }}~~	+	Structural characterization of a six-nucleotide RNA hairpin loop found in Escherichia coli, r(UUAAGU).,Zhang H, Fountain MA, Krugh TR Biochemistry. 2001 Aug 21;40(33):9879-86. PMID:11502181<ref>PMID:11502181</ref>

-	~~===SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11502181}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1hs2]] is~~ a ~~1 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=1HS2 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016962136<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Fountain, M A.]]		[[Category: Fountain, M A.]]
	[[Category: Krugh, T R.]]		[[Category: Krugh, T R.]]

OCA: Protected "1hs2" [edit=sysop:move=sysop]

OCA — Wed, 21 Nov 2012 15:50:56 GMT

Protected "1hs2" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:50, 21 November 2012

OCA at 15:50, 21 November 2012

OCA — Wed, 21 Nov 2012 15:50:52 GMT

←Older revision		Revision as of 15:50, 21 November 2012
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-	{{Seed}}
	[[Image:1hs2.png\|left\|200px]]		[[Image:1hs2.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1hs2", 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_1hs2\| PDB=1hs2 \| SCENE= }}		{{STRUCTURE_1hs2\| PDB=1hs2 \| SCENE= }}

	===SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)===		===SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11502181}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 11502181 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_11502181}}		{{ABSTRACT_PUBMED_11502181}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA].	+	[[1hs2]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA].

	==Reference==		==Reference==
-	~~Structural characterization of a six-nucleotide RNA hairpin loop found in Escherichia coli, r(UUAAGU)., Zhang H, Fountain MA, Krugh TR, Biochemistry. 2001 Aug 21;40(33):9879-86.~~ PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~11502181 11502181]~~	+	<ref group="xtra">PMID:016962136</ref><references group="xtra"/>
	[[Category: Fountain, M A.]]		[[Category: Fountain, M A.]]
	[[Category: Krugh, T R.]]		[[Category: Krugh, T R.]]
Line 30:		Line 18:
	[[Category: Hairpin loop]]		[[Category: Hairpin loop]]
	[[Category: Ribonucleic acid]]		[[Category: Ribonucleic acid]]
		+	[[Category: Rna]]
	[[Category: Rna structure]]		[[Category: Rna structure]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 08:36:28 2008''

OCA at 05:36, 1 July 2008

OCA — Tue, 01 Jul 2008 05:36:29 GMT

←Older revision		Revision as of 05:36, 1 July 2008
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	{{STRUCTURE_1hs2\| PDB=1hs2 \| SCENE= }}		{{STRUCTURE_1hs2\| PDB=1hs2 \| SCENE= }}

-	~~'''~~SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)~~'''~~	+	===SOLUTION STRUCTURE OF RNA HAIRPIN LOOP UUAAGU AS PART OF HAIRPIN R(GCGUUAAGUCGCA)===


-	~~==Overview==~~	+	<!--
-	The ~~binding region of~~ the ~~Escherichia coli S2 ribosomal protein contains a conserved UUAAGU hairpin loop. The structure of~~ the ~~hairpin formed by the oligomer r~~(~~GCGU4U5A6A7G8U9CGCA), which has an r(UUAAGU) hairpin loop, was determined by NMR and molecular modeling techniques~~ as ~~part of a study aimed~~ at characterizing the structure and thermodynamics of RNA hairpin loops. Thermodynamic data obtained from melting curves for this RNA oligomer show that it forms a hairpin in solution with the following parameters: ~~DeltaH degrees = -42.8 +~~/~~- 2.2 kcal~~/~~mol, DeltaS degrees = -127~~.~~6 +/- 6~~.~~5 eu, and DeltaG degrees (37~~) ~~= -3.3 +/- 0.2 kcal/mol. Two-dimensional NOESY WATERGATE spectra show an NOE between U imino protons~~, ~~which suggests that U4 and U9 form a hydrogen bonded U.U pair. The U5(H2') proton shows NOEs to both the A6(H8) proton and the A7(H8) proton, which~~ is ~~consistent with formation of a "U" turn between nucleotides U5 and A6. An NOE between~~ the ~~A7(H2) proton and the U9(H4') proton shows the proximity of the A7 base to the U9 sugar, which is consistent with the structure determined for the six-nucleotide loop~~. ~~In addition to having a hydrogen~~-bonded U.U pair as the first mismatch and a U turn, the r(UUAAGU) loop has the G8 base protruding into the solvent. The solution structure of the r(UUAAGU) loop is essentially identical to the structure of an identical loop found in the crystal structure of the 30S ribosomal subunit where the guanine in the loop is involved in tertiary interactions with RNA bases from adjacent regions [Wimberly, B. T., Brodersen, D. E., Clemons, W. M., Morgan-Warren, R. J., Carter, A. P., Vonrhein, C., Hartsch, T., and Ramakrishnan, V. (2000) Nature 407, 327-339]. The similarity of the solution and solid-state structures of this hairpin loop suggests that formation of this hairpin may facilitate folding of 16S RNA.	+	The line below this paragraph, {{ABSTRACT_PUBMED_11502181}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 11502181 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_11502181}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HS2 OCA].

	==Reference==		==Reference==
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	[[Category: Ribonucleic acid]]		[[Category: Ribonucleic acid]]
	[[Category: Rna structure]]		[[Category: Rna structure]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May~~ ~~2 19:10~~:36 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 08:36:28 2008''