2l7d: Difference between revisions

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-[[Image:2l7d.png|left|200px]]
+==Ribonucleotide Perturbation of DNA Structure: Solution Structure of [d(CGC)r(G)d(AATTCGCG)]2==
+<StructureSection load='2l7d' size='340' side='right' caption='[[2l7d]], [[NMR_Ensembles_of_Models | 5 NMR models]]' scene=''>
+== Structural highlights ==
+[[2l7d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L7D OCA]. <br>
+<b>Activity:</b> <span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span><br>
+== Publication Abstract from PubMed ==
+Ribonucleotides are frequently incorporated into DNA during replication. They are recognized and processed by several cellular enzymes, and their continued presence in the yeast nuclear genome results in replicative stress and genome instability. Thus, it is important to understand the effects of isolated ribonucleotide incorporation on DNA structure. With this goal in mind, we describe the nuclear magnetic resonance structure of the self-complementary Dickerson dodecamer sequence [d(CGC)rGd(AATTCGCG)](2) containing two symmetrically positioned riboguanosines. The absence of an observable H(1)-H(2) scalar coupling interaction indicates a C3'-endo conformation for the ribose. Longer-range structural perturbations resulting from the presence of the ribonucleotide are limited to the adjacent and transhelical nucleotides, while the global B-form DNA structure is maintained. Because crystallographic studies have indicated that isolated ribonucleotides promote global B --&gt; A transitions, we also performed molecular modeling analyses to evaluate the structural consequences of higher ribonucleotide substitution levels. Increasing the ribonucleotide content increased the minor groove width toward values more similar to that of A-DNA, but even 50% ribonucleotide substitution did not fully convert the B-DNA to A-DNA. Comparing our structure with the structure of an RNase H2-bound DNA supports the conclusion that, as with other DNA-protein complexes, the DNA conformation is strongly influenced by the interaction with the protein.
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+Solution structure of the Dickerson DNA dodecamer containing a single ribonucleotide.,DeRose EF, Perera L, Murray MS, Kunkel TA, London RE Biochemistry. 2012 Mar 27;51(12):2407-16. Epub 2012 Mar 14. PMID:22390730<ref>PMID:22390730</ref>
-The line below this paragraph, containing "STRUCTURE_2l7d", 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_2l7d|  PDB=2l7d  |  SCENE=  }}
-===Ribonucleotide Perturbation of DNA Structure: Solution Structure of [d(CGC)r(G)d(AATTCGCG)]2===
+From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
+== References ==
+<references/>
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+__TOC__
-The line below this paragraph, {{ABSTRACT_PUBMED_22390730}}, adds the Publication Abstract to the page
+</StructureSection>
-(as it appears on PubMed at http://www.pubmed.gov), where 22390730 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_22390730}}
-==About this Structure==
-[[2l7d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L7D OCA].
-==Reference==
-<ref group="xtra">PMID:022390730</ref><references group="xtra"/>
 [[Category: DeRose, E F.]]
 [[Category: Kunkel, T A.]]