1g22 - Revision history

OCA at 18:36, 29 November 2023

OCA — Wed, 29 Nov 2023 18:36:54 GMT

←Older revision		Revision as of 18:36, 29 November 2023
Line 1:		Line 1:

	==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==		==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==
-	<StructureSection load='1g22' size='340' side='right'caption='[[1g22~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='1g22' size='340' side='right'caption='[[1g22]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G22 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><~~scene name~~='~~pdbligand~~=DU:~~2-DEOXYURIDINE-5-MONOPHOSPHATE'~~>DU</~~scene~~>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [https://pdbe.org/1g22 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [https://www.ebi.ac.uk/pdbsum/1g22 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g22 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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [https://pdbe.org/1g22 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [https://www.ebi.ac.uk/pdbsum/1g22 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g22 ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Leroy, J L]]	+	[[Category: Leroy J-L]]
-	[[Category: Nonin-Lecomte, S]]	+	[[Category: Nonin-Lecomte S]]
-	~~[[Category: Centromere]]~~	+
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Dna solution structure]]~~	+
-	~~[[Category: I-motif]]~~	+
-	~~[[Category: Interacting loop]]~~	+
-	~~[[Category: Satellite iii~~]]	+

OCA at 07:10, 24 March 2021

OCA — Wed, 24 Mar 2021 07:10:51 GMT

←Older revision		Revision as of 07:10, 24 March 2021
Line 3:		Line 3:
	<StructureSection load='1g22' size='340' side='right'caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1g22' size='340' side='right'caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1G22 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [~~http~~://pdbe.org/1g22 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1g22 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1g22 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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [https://pdbe.org/1g22 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [https://www.ebi.ac.uk/pdbsum/1g22 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g22 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:03, 19 June 2019

OCA — Wed, 19 Jun 2019 07:03:20 GMT

←Older revision		Revision as of 07:03, 19 June 2019
Line 1:		Line 1:

	==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==		==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==
-	<StructureSection load='1g22' size='340' side='right' caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='1g22' size='340' side='right'caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Leroy, J L]]		[[Category: Leroy, J L]]
	[[Category: Nonin-Lecomte, S]]		[[Category: Nonin-Lecomte, S]]

OCA at 10:54, 13 September 2017

OCA — Wed, 13 Sep 2017 10:54:06 GMT

←Older revision		Revision as of 10:54, 13 September 2017
Line 1:		Line 1:
		+
	==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==		==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==
	<StructureSection load='1g22' size='340' side='right' caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1g22' size='340' side='right' caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://pdbe.org/1g22 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://pdbe.org/1g22 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1g22 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:04, 11 September 2015

OCA — Fri, 11 Sep 2015 12:04:52 GMT

←Older revision		Revision as of 12:04, 11 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://pdbe.org/1g22 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 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 1g22" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:20, 22 December 2014

OCA — Mon, 22 Dec 2014 20:20:59 GMT

←Older revision		Revision as of 20:20, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 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: Leroy, J L.]]	+	[[Category: Leroy, J L]]
-	[[Category: Nonin-Lecomte, S.]]	+	[[Category: Nonin-Lecomte, S]]
	[[Category: Centromere]]		[[Category: Centromere]]
	[[Category: Dna]]		[[Category: Dna]]

OCA at 10:12, 28 September 2014

OCA — Sun, 28 Sep 2014 10:12:23 GMT

←Older revision		Revision as of 10:12, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1g22.~~png~~\|~~left\|200px~~]]	+	==SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT==
		+	<StructureSection load='1g22' size='340' side='right' caption='[[1g22]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1G22 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene>, <scene name='pdbligand=MCY:5-METHYL-2-DEOXYCYTIDINE'>MCY</scene></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=1g22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g22 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1g22 RCSB], [http://www.ebi.ac.uk/pdbsum/1g22 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Repetitive DNA sequences may adopt unusual pairing arrangements. At acid to neutral pH, cytidine-rich DNA oligodeoxynucleotides can form the i-motif structure in which two parallel-stranded duplexes with C.C(+) pairs are intercalated head-to-tail. The i-motif may be formed by multimeric associations or by intra-molecular folding, depending on the number of cytidine tracts, the nucleotide sequences between them, and the experimental conditions.We have found that a natural fragment of the human centromeric satellite III, d(CCATTCCATTCCTTTCC), can form two monomeric i-motif structures that differ in their intercalation topology and that are favored at pH values higher (the eta-form) and lower (the lambda-form) than 4.6. The change in intercalation may be related to adenine protonation in the loops.We studied the uridine derivative methylated on the first cytidine base, d(5mCCATTCCAUTCCUTTCC), whose proton spectrum is better resolved. The intercalation topologies are (C7.C17)/(5mC1.C11)/(C6.C16)/(C2.C12) for form lambda and (5mC1.C11)/(C7.C17)/(C2.C12)/(C6.C16) for form eta. We have solved the structure of the eta-form, and we present a model for the lambda-form. The switch from eta to lambda involves disruption of the i-motif. In both forms, the central AUT linker crosses the wide groove, and the first and the third linkers loop across the minor grooves. The i-motif core is extended in the eta-form by the inter-loop reverse Watson-Crick A3.U13 pair, whose dissociation constant is around 10(-2) at 0 degrees C, and in the lambda-form by the interloop T5.T15 pair.In contrast, d(5mCCATTCCTTACCTTTCC) folds into a pH-independent structure that has the same intercalation topology as the lambda-form. The i-motif core is extended below by the interloop T5.T15 pair and closed on top by the T8.A10 pair.Thus, the C-rich strand of the human satellite III tandem repeats, like the G-rich strand, can fold into various compact structures. The relevance of these features to centromeric function remains unknown.

-	~~{{STRUCTURE_1g22\| PDB=1g22 \| SCENE= }}~~	+	Structure of a C-rich strand fragment of the human centromeric satellite III: a pH-dependent intercalation topology.,Nonin-Lecomte S, Leroy JL J Mol Biol. 2001 Jun 1;309(2):491-506. PMID:11371167<ref>PMID:11371167</ref>

-	~~===SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11371167}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[1g22]] is a 1 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA].~~	+	</StructureSection>
	[[Category: Leroy, J L.]]		[[Category: Leroy, J L.]]
	[[Category: Nonin-Lecomte, S.]]		[[Category: Nonin-Lecomte, S.]]

OCA: Protected "1g22" [edit=sysop:move=sysop]

OCA — Wed, 21 Nov 2012 15:47:12 GMT

Protected "1g22" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:47, 21 November 2012

OCA at 15:47, 21 November 2012

OCA — Wed, 21 Nov 2012 15:47:10 GMT

←Older revision		Revision as of 15:47, 21 November 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1g22.png\|left\|200px]]		[[Image:1g22.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1g22", creates the "Structure Box" on the page.
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-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1g22\| PDB=1g22 \| SCENE= }}		{{STRUCTURE_1g22\| PDB=1g22 \| SCENE= }}

	===SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT===		===SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11371167}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 11371167 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_11371167}}		{{ABSTRACT_PUBMED_11371167}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA].	+	[[1g22]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA].
-		+
-	~~==Reference==~~	+
-	Structure of a C-rich strand fragment of the human centromeric satellite III: a pH-dependent intercalation topology., Nonin-Lecomte S, Leroy JL, J Mol Biol. 2001 Jun 1;309(2):491-506. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11371167 11371167]	+
	[[Category: Leroy, J L.]]		[[Category: Leroy, J L.]]
	[[Category: Nonin-Lecomte, S.]]		[[Category: Nonin-Lecomte, S.]]
	[[Category: Centromere]]		[[Category: Centromere]]
		+	[[Category: Dna]]
	[[Category: Dna solution structure]]		[[Category: Dna solution structure]]
	[[Category: I-motif]]		[[Category: I-motif]]
	[[Category: Interacting loop]]		[[Category: Interacting loop]]
-	[[Category: Nmr]]
	[[Category: Satellite iii]]		[[Category: Satellite iii]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 04:17:28 2008''

OCA at 01:17, 1 July 2008

OCA — Tue, 01 Jul 2008 01:17:28 GMT

←Older revision		Revision as of 01:17, 1 July 2008
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-	[[Image:1g22.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1g22.png\|left\|200px]]

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	{{STRUCTURE_1g22\| PDB=1g22 \| SCENE= }}		{{STRUCTURE_1g22\| PDB=1g22 \| SCENE= }}

-	~~'''~~SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT~~'''~~	+	===SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT===


-	~~==Overview==~~	+	<!--
-	~~Repetitive DNA sequences may adopt unusual pairing arrangements. At acid to neutral pH, cytidine~~-~~rich DNA oligodeoxynucleotides can form the i~~-~~motif structure in which two parallel-stranded duplexes with C.C(+) pairs are intercalated head-to-tail.~~ The ~~i-motif may be formed by multimeric associations or by intra-molecular folding~~, ~~depending on the number of cytidine tracts~~, the ~~nucleotide sequences between them, and~~ the ~~experimental conditions.We have found that a natural fragment of the human centromeric satellite III, d~~(~~CCATTCCATTCCTTTCC), can form two monomeric i-motif structures that differ in their intercalation topology and that are favored~~ at pH values higher (the eta-form) and lower (the lambda-form) than 4.6. The change in intercalation may be related to adenine protonation in the loops.We studied the uridine derivative methylated on the first cytidine base, d(5mCCATTCCAUTCCUTTCC), whose proton spectrum is better resolved. The intercalation topologies are (C7.C17)/~~(5mC1.C11)~~/~~(C6~~.~~C16)/(C2~~.~~C12~~) ~~for form lambda and (5mC1.C11)/(C7.C17)/(C2.C12)/(C6.C16) for form eta. We have solved the structure of the eta-form~~, and we present a model for the lambda-form. The switch from eta to lambda involves disruption of the i-motif. In both forms, the central AUT linker crosses the wide groove, and the first and the third linkers loop across the minor grooves. The i-motif core is ~~extended in~~ the ~~eta-form by the inter-loop reverse Watson-Crick A3~~.~~U13 pair, whose dissociation constant is around 10(~~-~~2) at 0 degrees C, and in the lambda~~-form by the interloop T5.T15 pair.In contrast, d(5mCCATTCCTTACCTTTCC) folds into a pH-independent structure that has the same intercalation topology as the lambda-form. The i-motif core is extended below by the interloop T5.T15 pair and closed on top by the T8.A10 pair.Thus, the C-rich strand of the human satellite III tandem repeats, like the G-rich strand, can fold into various compact structures. The relevance of these features to centromeric function remains unknown.	+	The line below this paragraph, {{ABSTRACT_PUBMED_11371167}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 11371167 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_11371167}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G22 OCA].

	==Reference==		==Reference==
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	[[Category: Nmr]]		[[Category: Nmr]]
	[[Category: Satellite iii]]		[[Category: Satellite iii]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May~~ ~~2 17~~:02:16 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 04:17:28 2008''