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| {{STRUCTURE_1s1l| PDB=1s1l | SCENE= }} | | {{STRUCTURE_1s1l| PDB=1s1l | SCENE= }} |
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| '''Influence of Groove Interactions on the Formation of DNA Holliday Junctions'''
| | ===Influence of Groove Interactions on the Formation of DNA Holliday Junctions=== |
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| ==Overview==
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| The inosine-containing sequence d(CCIGTACm(5)CGG) is shown to crystallize as a four-stranded DNA junction. This structure is nearly identical to the antiparallel junction formed by the parent d(CCGGTACm(5)()CGG) sequence [Vargason, J. M., and Ho, P. S. (2002) J. Biol. Chem. 277, 21041-21049] in terms of its conformational geometry, and inter- and intramolecular interactions within the DNA and between the DNA and solvent, even though the 2-amino group in the minor groove of the important G(3).m(5)C(8) base pair of the junction core trinucleotide (italicized) has been removed. In contrast, the analogous 2,6-diaminopurine sequence d(CCDGTACTGG) crystallizes as resolved duplex DNAs, just like its parent sequence d(CCAGTACTGG) [Hays, F. A., Vargason, J. M., and Ho, P. S. (2003) Biochemistry 42, 9586-9597]. These results demonstrate that it is not the presence or absence of the 2-amino group in the minor groove of the R(3).Y(8) base pair that specifies whether a sequence forms a junction, but the positions of the extracyclic amino and keto groups in the major groove. Finally, the study shows that the arms of the junction can accommodate perturbations to the B-DNA conformation of the stacked duplex arms associated with the loss of the 2-amino substituent, and that two hydrogen bonding interactions from the C(7) and Y(8) pyrimidine nucleotides to phosphate oxygens of the junction crossover specify the geometry of the Holliday junction. | | The line below this paragraph, {{ABSTRACT_PUBMED_15274635}}, adds the Publication Abstract to the page |
| | (as it appears on PubMed at http://www.pubmed.gov), where 15274635 is the PubMed ID number. |
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| | {{ABSTRACT_PUBMED_15274635}} |
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| ==About this Structure== | | ==About this Structure== |
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| [[Category: Minor groove]] | | [[Category: Minor groove]] |
| [[Category: X-ray diffraction]] | | [[Category: X-ray diffraction]] |
| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 08:10:57 2008'' | | |
| | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 09:13:18 2008'' |