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225d

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[[Image:225d.jpg|left|200px]]
 
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==A TETRAMERIC DNA STRUCTURE WITH PROTONATED CYTOSINE:CYTOSINE BASE PAIRS==
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The line below this paragraph, containing "STRUCTURE_225d", creates the "Structure Box" on the page.
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<StructureSection load='225d' size='340' side='right'caption='[[225d]]' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[225d]] is a 4 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=225D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=225D FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=225d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=225d OCA], [https://pdbe.org/225d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=225d RCSB], [https://www.ebi.ac.uk/pdbsum/225d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=225d ProSAT]</span></td></tr>
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{{STRUCTURE_225d| PDB=225d | SCENE= }}
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</table>
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<div style="background-color:#fffaf0;">
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'''A TETRAMERIC DNA STRUCTURE WITH PROTONATED CYTOSINE:CYTOSINE BASE PAIRS'''
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== Publication Abstract from PubMed ==
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==Overview==
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Oligomers containing tracts of cytidine form hemiprotonated base pairs at acid pH and have been considered to be double-stranded. We have solved the structure of the DNA oligomer 5'-d(TCCCCC) at acid pH and find that it is a four-stranded complex in which two base-paired parallel-stranded duplexes are intimately associated, with their base pairs fully intercalated. The relative orientation of the duplexes is antiparallel, so that each base pair is face-to-face with its neighbours. The NMR spectrum displays only six spin systems, showing that the structure is highly symmetrical on the NMR timescale; the four strands are equivalent. A model derived by energy minimization and constrained molecular dynamics shows excellent compatibility with the observed nuclear Overhauser effects (NOEs) particularly for the very unusual inter-residue sugar-sugar NOEs H1'-H1', H1'-H2" and H1'-H4'. These NOEs are probably diagnostic for such tetrameric structures.
Oligomers containing tracts of cytidine form hemiprotonated base pairs at acid pH and have been considered to be double-stranded. We have solved the structure of the DNA oligomer 5'-d(TCCCCC) at acid pH and find that it is a four-stranded complex in which two base-paired parallel-stranded duplexes are intimately associated, with their base pairs fully intercalated. The relative orientation of the duplexes is antiparallel, so that each base pair is face-to-face with its neighbours. The NMR spectrum displays only six spin systems, showing that the structure is highly symmetrical on the NMR timescale; the four strands are equivalent. A model derived by energy minimization and constrained molecular dynamics shows excellent compatibility with the observed nuclear Overhauser effects (NOEs) particularly for the very unusual inter-residue sugar-sugar NOEs H1'-H1', H1'-H2" and H1'-H4'. These NOEs are probably diagnostic for such tetrameric structures.
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==About this Structure==
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A tetrameric DNA structure with protonated cytosine.cytosine base pairs.,Gehring K, Leroy JL, Gueron M Nature. 1993 Jun 10;363(6429):561-5. PMID:8389423<ref>PMID:8389423</ref>
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=225D OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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A tetrameric DNA structure with protonated cytosine.cytosine base pairs., Gehring K, Leroy JL, Gueron M, Nature. 1993 Jun 10;363(6429):561-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8389423 8389423]
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</div>
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[[Category: Gehring, K.]]
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<div class="pdbe-citations 225d" style="background-color:#fffaf0;"></div>
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[[Category: Gueron, M.]]
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== References ==
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[[Category: Leroy, J L.]]
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<references/>
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[[Category: Dna]]
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__TOC__
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[[Category: Intercalated cytosine tetrad]]
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</StructureSection>
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[[Category: Nmr]]
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[[Category: Large Structures]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 18:20:13 2008''
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[[Category: Gehring K]]
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[[Category: Gueron M]]
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[[Category: Leroy JL]]

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A TETRAMERIC DNA STRUCTURE WITH PROTONATED CYTOSINE:CYTOSINE BASE PAIRS

PDB ID 225d

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