6ffr: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 6ffr is ~~ON HOLD until Paper~~ Publication

==DNA-RNA Hybrid Quadruplex with Flipped Tetrad==

== Structural highlights ==

<table><tr><td colspan='2'>[[6ffr]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FFR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FFR 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=6ffr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ffr OCA], [http://pdbe.org/6ffr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ffr RCSB], [http://www.ebi.ac.uk/pdbsum/6ffr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ffr ProSAT]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

A DNA G-quadruplex adopting a (3+1)-hybrid structure was substituted at its 5'-tetrad by riboguanosine (rG) analogs. Incorporation of anti-favoring rG at appropriate syn-positions of the 5'-outer tetrad induced conformational rearrangements to yield a quadruplex featuring a 5'-tetrad with reversed polarity. A high-resolution structure of a disubstituted quadruplex variant as well as direct NMR experimental evidence reveals a non-conventional C-HO hydrogen bond in a medium groove between the 2'-OH of an rG residue adopting a C2'-endo sugar pucker and H8 of a 3'-neighboring anti-G residue. In contrast, a C3'-endo sugar conformation for another guanine ribonucleotide prevents formation of a corresponding hydrogen bond but relocates its 2'-OH substituent from the quadruplex narrow groove into a medium groove. Both the formation of favorable CHO hydrogen bridges and unfavorable interactions of the 2'-hydroxyl group in a narrow groove will promote RNA folding into a parallel topology featuring all-anti core residues and four grooves of medium size.

~~Authors~~:

DNA-RNA Hybrid Quadruplexes Reveal Interactions that Favor RNA Parallel Topologies.,Haase L, Dickerhoff J, Weisz K Chemistry. 2018 Aug 7. doi: 10.1002/chem.201803367. PMID:30084512<ref>PMID:30084512</ref>

~~Description~~:

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

[[Category: ~~Unreleased Structures~~]]

</div>

== References ==

__TOC__

</StructureSection>

[[Category: Dickerhoff, J]]

[[Category: Haase, L]]

[[Category: Weisz, K]]

[[Category: Dna-rna hybrid]]

[[Category: Quadruplex]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 6ffr is ON HOLD  until Paper Publication
+==DNA-RNA Hybrid Quadruplex with Flipped Tetrad==
+<StructureSection load='6ffr' size='340' side='right' caption='[[6ffr]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[6ffr]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FFR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FFR 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=6ffr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ffr OCA], [http://pdbe.org/6ffr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ffr RCSB], [http://www.ebi.ac.uk/pdbsum/6ffr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ffr ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+A DNA G-quadruplex adopting a (3+1)-hybrid structure was substituted at its 5'-tetrad by riboguanosine (rG) analogs. Incorporation of anti-favoring rG at appropriate syn-positions of the 5'-outer tetrad induced conformational rearrangements to yield a quadruplex featuring a 5'-tetrad with reversed polarity. A high-resolution structure of a disubstituted quadruplex variant as well as direct NMR experimental evidence reveals a non-conventional C-HO hydrogen bond in a medium groove between the 2'-OH of an rG residue adopting a C2'-endo sugar pucker and H8 of a 3'-neighboring anti-G residue. In contrast, a C3'-endo sugar conformation for another guanine ribonucleotide prevents formation of a corresponding hydrogen bond but relocates its 2'-OH substituent from the quadruplex narrow groove into a medium groove. Both the formation of favorable CHO hydrogen bridges and unfavorable interactions of the 2'-hydroxyl group in a narrow groove will promote RNA folding into a parallel topology featuring all-anti core residues and four grooves of medium size.
-Authors:
+DNA-RNA Hybrid Quadruplexes Reveal Interactions that Favor RNA Parallel Topologies.,Haase L, Dickerhoff J, Weisz K Chemistry. 2018 Aug 7. doi: 10.1002/chem.201803367. PMID:30084512<ref>PMID:30084512</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 6ffr" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Dickerhoff, J]]
+[[Category: Haase, L]]
+[[Category: Weisz, K]]
+[[Category: Dna-rna hybrid]]
+[[Category: Quadruplex]]