Table 4.
Dinucleotide step parameters values for RR steps in RNA helices
| Step |
Dataset (n) |
Tilt | Roll | Twist | Shift | Slide | Rise | Prop.av | Cup | Zp |
|---|---|---|---|---|---|---|---|---|---|---|
| AA/UU |
free-RNA |
1.1 |
7.6 |
32.6 |
0.1 |
-1.1 |
3.3 |
-14.3 |
2.3 |
2.0 |
| |
(40) |
(1.3) |
(3.1) |
(2.1) |
(0.3) |
(0.3) |
(0.1) |
(3.8) |
(6.4) |
(0.3) |
| |
non-cont |
0.9 |
6.8 |
30.5 |
0.1 |
-1.3 |
3.3 |
-10.6 |
2.0 |
2.2 |
| (30) |
(3.1) |
(5.7) |
(2.9) |
(0.4) |
(0.5) |
(0.2) |
(6.9) |
(11.7) |
(0.4) |
|
| |
cont |
0.8 |
6.7 |
30.7 |
-0.0 |
-1.5 |
3.3 |
-10.0 |
4.1 |
2.2 |
| (52) |
(2.6) |
(5.2) |
(3.5) |
(0.6) |
(0.4) |
(0.1) |
(6.6) |
(9.9) |
(0.3) |
|
| AG/CU |
free-RNA |
0.4 |
9.7 |
32.2 |
0.1 |
-1.4 |
3.3 |
-12.8 |
-3.8 |
2.2 |
| |
(82) |
(2.0) |
(3.0) |
(2.4) |
(0.4) |
(0.4) |
(0.1) |
(3.7) |
(6.2) |
(0.2) |
| |
non-cont |
0.6 |
8.4 |
31.4 |
0.2 |
-1.6 |
3.3 |
-10.6 |
-2.8 |
2.3 |
| (107) |
(2.7) |
(4.2) |
(3.3) |
(0.5) |
(0.4) |
(0.1) |
(5.3) |
(8.6) |
(0.3) |
|
| |
cont |
1.3 |
8.0 |
30.6 |
0.2 |
-1.7 |
3.3 |
-9.0 |
-2.2 |
2.3 |
| (172) |
(2.6) |
(4.3) |
(3.4) |
(0.5) |
(0.5) |
(0.1) |
(5.5) |
(10.2) |
(0.3) |
|
| GA/UC |
free-RNA |
0.2 |
6.4 |
31.5 |
-0.1 |
-1.5 |
3.3 |
-11.2 |
1.5 |
2.2 |
| |
(68) |
(2.0) |
(4.1) |
(2.3) |
(0.4) |
(0.4) |
(0.1) |
(5.5) |
(7.1) |
(0.3) |
| |
non-cont |
0.7 |
6.1 |
31.1 |
-0.0 |
-1.7 |
3.3 |
-8.9 |
1.4 |
2.4 |
| (116) |
(2.9) |
(5.0) |
(3.2) |
(0.5) |
(0.4) |
(0.1) |
(6.0) |
(10.1) |
(0.4) |
|
| |
cont |
0.3 |
5.9 |
30.8 |
0.0 |
-1.7 |
3.3 |
-8.9 |
1.2 |
2.4 |
| (167) |
(2.5) |
(5.0) |
(3.3) |
(0.5) |
(0.4) |
(0.1) |
(5.6) |
(10.3) |
(0.3) |
|
| GG/CC |
free-RNA |
0.5 |
8.0 |
31.2 |
0.1 |
-1.8 |
3.3 |
-10.5 |
-3.3 |
2.4 |
| |
(157) |
(2.6) |
(3.7) |
(2.7) |
(0.5) |
(0.4) |
(0.1) |
(4.9) |
(8.3) |
(0.3) |
| |
non-cont |
0.7 |
7.7 |
31.0 |
0.2 |
-1.9 |
3.3 |
-8.7 |
-4.5 |
2.5 |
| (317) |
(2.8) |
(4.2) |
(3.0) |
(0.5) |
(0.4) |
(0.1) |
(4.7) |
(9.5) |
(0.3) |
|
| |
cont |
1.1 |
7.3 |
31.0 |
0.2 |
-1.9 |
3.3 |
-8.5 |
-5.0 |
2.5 |
| (488) |
(2.7) |
(4.1) |
(3.2) |
(0.5) |
(0.4) |
(0.1) |
(5.6) |
(9.8) |
(0.3) |
|
| RR |
free-RNA |
0.5 |
8.0 |
31.6 |
0.1 |
-1.5 |
3.3 |
-11.6 |
-1.8 |
2.2 |
| |
(347) |
(2.2) |
(3.7) |
(2.5) |
(0.4) |
(0.4) |
(0.1) |
(4.8) |
(7.7) |
(0.3) |
| |
non-cont |
0.7 |
7.4 |
31.1 |
0.1 |
-1.8 |
3.3 |
-9.2 |
-2.7 |
2.4 |
| (570) |
(2.8) |
(4.5) |
(3.1) |
(0.5) |
(0.4) |
(0.1) |
(5.3) |
(9.9) |
(0.3) |
|
| |
cont |
1.0 |
7.1 |
30.9 |
0.2 |
-1.8 |
3.3 |
-8.8 |
-2.7 |
2.4 |
| (879) |
(2.6) |
(4.4) |
(3.3) |
(0.5) |
(0.4) |
(0.1) |
(5.6) |
(10.4) |
(0.3) |
|
| ModelRNA | -0.4 | 13.1 | 30.0 | 0.0 | -1.2 | 3.3 | -10.4 | 0.0 | 2.2 |
Mean values and SD of dinucleotide step parameters for RR steps along with average propeller-twist (Prop.av), Cup and Zp in free-RNA, protein non-contacting (non-cont) and contacting (cont) datasets. Frequency of occurrence of each dinucleotide step and standard deviation of the parameter values are given in parenthesis. Values of Tilt, Roll, Twist, Cup and Prop.av are in degrees (°), while Shift, Slide, Rise and Zp are in Angstroms (Å).