104d: Difference between revisions

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-{{Seed}}
-[[Image:104d.png|left|200px]]
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+==DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF CHIMERIC JUNCTIONS IN==
-The line below this paragraph, containing "STRUCTURE_104d", creates the "Structure Box" on the page.
+<StructureSection load='104d' size='340' side='right'caption='[[104d]]' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[104d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=104D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=104D FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</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=104d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=104d OCA], [https://pdbe.org/104d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=104d RCSB], [https://www.ebi.ac.uk/pdbsum/104d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=104d ProSAT]</span></td></tr>
-{{STRUCTURE_104d|  PDB=104d  |  SCENE=  }}
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Hybrid duplexes and chimeric duplexes containing hybrid segments linked to pure DNA (or pure RNA) segments are involved in transcription and replication, as well as reverse transcription. A complete understanding of the mechanism of these processes requires detailed information on such duplexes and the junctions between duplexes of differing structure. Using two-dimensional NMR, restrained molecular dynamics and mechanics, and back-calculation refinement against the nuclear Overhauser effect spectra at various mixing times, we have determined the solution structure of the chimeric duplex [r(cgcg)d-(TATACGCG)]2 containing a pure DNA segment in the center of a hybrid duplex. The solution structure differs from the previously determined X-ray structure of the analogous duplex [r(gcg)d(TATACGC)]2, which was found to be A-form throughout [Wang, A.H.-J., et al. (1982) Nature 299, 601-604]. The basic features of the solution structure are (a) the RNA residues are all A-form with C3'-endo sugar conformations, (b) the central DNA segment is B-form, (c) the transition from A-form RNA sugar conformations to B-form DNA sugar conformations involves only the dT5 base step, and (d) although the sugar conformations of the DNA residues A6-G12 are closer to B-form, the basic helical properties of the peripheral RNA.DNA hybrid segments are closer to typical A-form than to B-form.
-===DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF CHIMERIC JUNCTIONS IN===
+DNA duplexes flanked by hybrid duplexes: the solution structure of chimeric junctions in [r(cgcg)d(TATACGCG)]2.,Zhu L, Salazar M, Reid BR Biochemistry. 1995 Feb 21;34(7):2372-80. PMID:7857947<ref>PMID:7857947</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_7857947}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 104d" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 7857947 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_7857947}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=104D OCA].
+[[Category: Reid BR]]
+[[Category: Salazar M]]
-==Reference==
+[[Category: Zhu L]]
-DNA duplexes flanked by hybrid duplexes: the solution structure of chimeric junctions in [r(cgcg)d(TATACGCG)]2., Zhu L, Salazar M, Reid BR, Biochemistry. 1995 Feb 21;34(7):2372-80. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7857947 7857947]
-[[Category: Reid, B R.]]
-[[Category: Salazar, M.]]
-[[Category: Zhu, L.]]
-[[Category: Dna]]
-[[Category: Duplex]]
-[[Category: Hybrid]]
-[[Category: Junction]]
-[[Category: Nmr]]
-[[Category: Rna]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 15:07:05 2008''