Comprehensive Bending Classification of Nucleic Acid
Double Helix Structures
Bending classification of helical axis - Single-kink line
(Last update: November 15, 2004)
Table 2:
Structures with 13 or more pairs for which the
helical axis is best described by a single-kink line and the alternative double-kink model has a short central segment with 0 or 1 base pairs.
In this case the difference in the goodness-of-fit values
between the best and the next best models is not used as a
classification criterion. Because of the small number of structures
different listings are not given.
Number of structures: 9
|
PDB  |
NDB |
IMB Jena
Image Library |
bp |
molecule
type |
method |
model |
s(2) |
r |
a/a1 |
a2 |
o |
l1 |
l2 |
l3 |
---|
1gu5 |
------ |
E |
H |
B |
15 |
prot-nuc |
diff |
single-kink line |
0.080 |
| 14.0 |
| | 10 |
5 |
|
| | | | | | double-kink line |
0.128 |
| 2.0 |
13.0 |
53.0 |
10 |
0 |
5 |
| | | | | | circular line |
0.197 |
135.0 |
| | | | | |
| | | | | | | | | | | | | | |
1hjc |
pd0205 |
E |
H |
B |
15 |
prot-nuc |
diff |
single-kink line |
0.198 |
| 11.0 |
| | 4 |
11 |
|
| | | | | | double-kink line |
0.286 |
| 98.0 |
89.0 |
-176.0 |
5 |
1 |
9 |
| | | | | | circular line |
0.305 |
228.0 |
| | | | | |
| | | | | | | | | | | | | | |
1osl |
------ |
E |
H |
B |
18 |
prot-nuc |
NMR |
single-kink line |
0.012 |
| 3.0 |
| | 10 |
8 |
|
| | | | | | circular line |
0.013 |
725.0 |
| | | | | |
| | | | | | double-kink line |
0.016 |
| 2.0 |
4.0 |
142.0 |
10 |
0 |
8 |
| | | | | | line |
0.060 |
| | | | | | |
| | | | | | | | | | | | | | |
1tf3 |
------ |
E |
H |
B |
15 |
prot-nuc |
NMR |
single-kink line |
0.177 |
| 12.0 |
| | 6 |
9 |
|
| | | | | | double-kink line |
0.249 |
| 15.0 |
5.0 |
142.0 |
6 |
1 |
6 |
| | | | | | circular line |
0.274 |
124.0 |
| | | | | |
| | | | | | | | | | | | | | |
2pua |
pdr040 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.561 |
| 42.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.586 |
| 109.0 |
73.0 |
-159.0 |
8 |
1 |
7 |
| | | | | | | | | | | | | | |
2pub |
pdr041 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.455 |
| 47.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.555 |
| 17.0 |
41.0 |
-78.0 |
8 |
0 |
8 |
| | | | | | | | | | | | | | |
2puc |
pdr042 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.442 |
| 46.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.510 |
| 39.0 |
53.0 |
-116.0 |
8 |
0 |
8 |
| | | | | | | | | | | | | | |
2pud |
pdr046 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.470 |
| 46.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.548 |
| 23.0 |
29.0 |
-54.0 |
8 |
0 |
8 |
| | | | | | | | | | | | | | |
2puf |
pdr044 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.483 |
| 43.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.557 |
| 23.0 |
26.0 |
-53.0 |
8 |
0 |
8 |
| | | | | | | | | | | | | | |
Abbreviations