1s1l: Difference between revisions
No edit summary |
No edit summary |
||
| Line 1: | Line 1: | ||
[[Image:1s1l.gif|left|200px]] | [[Image:1s1l.gif|left|200px]] | ||
<!-- | |||
The line below this paragraph, containing "STRUCTURE_1s1l", 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_1s1l| PDB=1s1l | SCENE= }} | |||
}} | |||
'''Influence of Groove Interactions on the Formation of DNA Holliday Junctions''' | '''Influence of Groove Interactions on the Formation of DNA Holliday Junctions''' | ||
| Line 19: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1L OCA]. | |||
==Reference== | ==Reference== | ||
Influence of minor groove substituents on the structure of DNA Holliday junctions., Hays FA, Jones ZJ, Ho PS, Biochemistry. 2004 Aug 3;43(30):9813-22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15274635 15274635] | Influence of minor groove substituents on the structure of DNA Holliday junctions., Hays FA, Jones ZJ, Ho PS, Biochemistry. 2004 Aug 3;43(30):9813-22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15274635 15274635] | ||
[[Category: Hays, F A.]] | [[Category: Hays, F A.]] | ||
[[Category: Ho, P S.]] | [[Category: Ho, P S.]] | ||
[[Category: Jones, Z J.]] | [[Category: Jones, Z J.]] | ||
[[Category: | [[Category: Dna four-way junction]] | ||
[[Category: | [[Category: Holliday junction]] | ||
[[Category: | [[Category: Inosine]] | ||
[[Category: | [[Category: Major groove]] | ||
[[Category: | [[Category: Minor groove]] | ||
[[Category: | [[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 | |||
Revision as of 08:10, 3 May 2008
Influence of Groove Interactions on the Formation of DNA Holliday Junctions
OverviewOverview
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.
About this StructureAbout this Structure
Full crystallographic information is available from OCA.
ReferenceReference
Influence of minor groove substituents on the structure of DNA Holliday junctions., Hays FA, Jones ZJ, Ho PS, Biochemistry. 2004 Aug 3;43(30):9813-22. PMID:15274635 Page seeded by OCA on Sat May 3 08:10:57 2008