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Solvent Influence on Base Stacking

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Presentation on theme: "Solvent Influence on Base Stacking"— Presentation transcript:

1 Solvent Influence on Base Stacking
Jan Norberg, Lennart Nilsson  Biophysical Journal  Volume 74, Issue 1, Pages (January 1998) DOI: /S (98) Copyright © 1998 The Biophysical Society Terms and Conditions

2 Figure 1 Free energy surfaces of stacking for the ribodinucleoside monophosphate rAprA in CHCl3 (——), DMSO (– – –), MeOH (– · – · –), and aqueous (·····) solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

3 Figure 2 Free energy surfaces of stacking for the deoxyribodinucleoside monophosphate dTpdT in CHCl3 (——), DMSO (– – –), MeOH (– · – · –), and aqueous (·····) solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

4 Figure 3 Root mean square atomic deviations as a function of time for all heavy atoms of the ribodinucleoside monophosphate rAprA in (a) CHCl3, (b) DMSO, (c) MeOH, and (d) aqueous solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

5 Figure 4 Root mean square atomic deviations versus time for all heavy atoms of the deoxyribodinucleoside monophosphate dTpdT in (a) CHCl3, (b) DMSO, (c) MeOH, and (d) aqueous solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

6 Figure 5 The time evolution of the distance between the glycosidic nitrogen base atoms (——), and the angle θ (·····) between the normal vectors of the bases for the ribodinucleoside monophosphate rAprA in (a) CHCl3 and (b) DMSO. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

7 Figure 6 The time evolution of the distance between the glycosidic nitrogen base atoms (——) and of the angle θ (·····) between the normal vectors of the bases for the ribodinucleoside monophosphate rAprA in (a) MeOH and (b) aqueous solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

8 Figure 7 The time evolution of the distance between the glycosidic nitrogen base atoms (——) and of the angle θ (·····) between the normal vectors of the bases for the deoxyribodinucleoside monophosphate dTpdT in (a) CHCl3 and (b) DMSO. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

9 Figure 8 The time evolution of the distance between the glycosidic nitrogen base atoms (——) and of the angle θ (·····) between the normal vectors of the bases for the deoxyribodinucleoside monophosphate dTpdT in (a) MeOH and (b) aqueous solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

10 Figure 9 Accessible surface area versus time for the ribodinucleoside monophosphate rAprA in (a) CHCl3, (b) DMSO, (c) MeOH, and (d) aqueous solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

11 Figure 10 Accessible surface area versus time for the deoxyribodinucleoside monophosphate dTpdT in (a) CHCl3, (b) DMSO, (c) MeOH, and (d) aqueous solution. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

12 Figure 11 Pseudorotation phase angle as a function of time for the ribodinucleoside monophosphate rAprA in CHCl3 for (a) 5′ moiety and (b) 3′ moiety; in DMSO for (c) 5′ moiety and (d) 3′ moiety; in MeOH for (e) 5′ moiety and (f) 3′ moiety; and in H2O for (g) 5′ moiety and (h) 3′ moiety. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions

13 Figure 12 Pseudorotation phase angle as a function of time for the deoxyribodinucleoside monophosphate dTpdT in CHCl3 for (a) 5′ moiety and (b) 3′ moiety; in DMSO for (c) 5′ moiety and (d) 3′ moiety; in MeOH for (e) 5′ moiety and (f) 3′ moiety; and in H2O for (g) 5′ moiety and (h) 3′ moiety. Biophysical Journal  , DOI: ( /S (98) ) Copyright © 1998 The Biophysical Society Terms and Conditions


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