(Last update: November 15, 2004)
Table 1a :
Structures for which the helical axis is best
described by a single-kink line.
Sigma2 of a single-kink
line is only slightly smaller (< 0.2) than for the next best
model(s). All structures have 13 or more base pairs and, therefore, an unambigious classification as single-kink structure is possible, in principle, even though the goodness-of-fit difference to the next-best model is small.
The structures are listed by kink angle alpha (a).
Number of structures: 30
|
PDB  |
NDB |
IMB Jena
Image Library |
bp |
molecule
type |
method |
model |
s(2) |
r |
a/a1 |
a2 |
o |
l1 |
l2 |
l3 |
---|
1imh |
pd0214 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.169 |
| 5.0 |
| | 5 |
7 |
|
| | | | | | circular line |
0.188 |
320.0 |
| | | | | |
| | | | | | double-kink line |
0.194 |
| 10.0 |
7.0 |
-140.0 |
4 |
3 |
6 |
| | | | | | line |
0.209 |
| | | | | | |
| | | | | | | | | | | | | | |
1fos |
pdt014 |
E |
H |
B |
19 |
prot-nuc |
diff |
single-kink line |
0.130 |
| 7.0 |
| | 11 |
8 |
|
| | | | | | double-kink line |
0.143 |
| 8.0 |
7.0 |
149.0 |
2 |
8 |
9 |
| | | | | | circular line |
0.149 |
301.0 |
| | | | | |
| | | | | | | | | | | | | | |
1jnm |
pd0241 |
E |
H |
B |
20 |
prot-nuc |
diff |
single-kink line |
0.203 |
| 7.0 |
| | 17 |
3 |
|
| | | | | | circular line |
0.221 |
924.0 |
| | | | | |
| | | | | | line |
0.227 |
| | | | | | |
| | | | | | double-kink line |
0.233 |
| 4.0 |
6.0 |
8.0 |
3 |
14 |
3 |
| | | | | | | | | | | | | | |
1mnn |
pd0341 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.182 |
| 7.0 |
| | 9 |
4 |
|
| | | | | | double-kink line |
0.210 |
| 8.0 |
8.0 |
-164.0 |
2 |
6 |
4 |
| | | | | | circular line |
0.215 |
343.0 |
| | | | | |
| | | | | | line |
0.222 |
| | | | | | |
| | | | | | | | | | | | | | |
1mhd |
pd0243 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.123 |
| 9.0 |
| | 10 |
3 |
|
| | | | | | double-kink line |
0.130 |
| 6.0 |
10.0 |
-143.0 |
3 |
7 |
3 |
| | | | | | line |
0.221 |
| | | | | | |
| | | | | | circular line |
0.284 |
780000000.0 |
| | | | | |
| | | | | | | | | | | | | | |
3kbd |
------ |
E |
H |
B |
16 |
nuc |
NMR |
single-kink line |
0.161 |
| 11.0 |
| | 5 |
11 |
|
| | | | | | double-kink line |
0.191 |
| 11.0 |
3.0 |
109.0 |
5 |
4 |
6 |
| | | | | | circular line |
0.229 |
191.0 |
| | | | | |
| | | | | | | | | | | | | | |
1gtw |
------ |
E |
H |
B |
15 |
prot-nuc |
diff |
single-kink line |
0.199 |
| 12.0 |
| | 10 |
5 |
|
| | | | | | double-kink line |
0.212 |
| 8.0 |
16.0 |
164.0 |
5 |
4 |
6 |
| | | | | | circular line |
0.341 |
158.0 |
| | | | | |
| | | | | | | | | | | | | | |
1ig9 |
pd0212 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.106 |
| 12.0 |
| | 4 |
9 |
|
| | | | | | double-kink line |
0.110 |
| 13.0 |
6.0 |
151.0 |
5 |
4 |
4 |
| | | | | | circular line |
0.216 |
148.0 |
| | | | | |
| | | | | | | | | | | | | | |
1a0a |
pdt046 |
E |
H |
B |
17 |
prot-nuc |
diff |
single-kink line |
0.370 |
| 13.0 |
| | 12 |
4 |
|
| | | | | | double-kink line |
0.421 |
| 28.0 |
12.0 |
34.0 |
1 |
11 |
4 |
| | | | | | circular line |
0.540 |
223.0 |
| | | | | |
| | | | | | | | | | | | | | |
1gu4 |
------ |
E |
H |
B |
15 |
prot-nuc |
diff |
single-kink line |
0.153 |
| 13.0 |
| | 10 |
5 |
|
| | | | | | double-kink line |
0.196 |
| 5.0 |
16.0 |
155.0 |
6 |
3 |
5 |
| | | | | | circular line |
0.301 |
147.0 |
| | | | | |
| | | | | | | | | | | | | | |
1a02 |
pdt050 |
E |
H |
B |
18 |
prot-nuc |
diff |
single-kink line |
0.101 |
| 15.0 |
| | 11 |
7 |
|
| | | | | | double-kink line |
0.126 |
| 14.0 |
4.0 |
65.0 |
11 |
2 |
4 |
| | | | | | circular line |
0.288 |
132.0 |
| | | | | |
| | | | | | | | | | | | | | |
1b8i |
pd0042 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.173 |
| 18.0 |
| | 7 |
6 |
|
| | | | | | circular line |
0.205 |
74.0 |
| | | | | |
| | | | | | double-kink line |
0.299 |
| 5.0 |
16.0 |
34.0 |
3 |
5 |
5 |
| | | | | | | | | | | | | | |
1ig7 |
pd0211 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.185 |
| 18.0 |
| | 8 |
5 |
|
| | | | | | double-kink line |
0.187 |
| 12.0 |
18.0 |
-18.0 |
7 |
4 |
2 |
| | | | | | circular line |
0.190 |
74.0 |
| | | | | |
| | | | | | | | | | | | | | |
1pdn |
pdr018 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.280 |
| 18.0 |
| | 5 |
8 |
|
| | | | | | double-kink line |
0.344 |
| 21.0 |
8.0 |
-153.0 |
5 |
4 |
3 |
| | | | | | | | | | | | | | |
4gat |
------ |
E |
H |
B |
13 |
prot-nuc |
NMR |
single-kink line |
0.108 |
| 18.0 |
| | 7 |
6 |
|
| | | | | | double-kink line |
0.118 |
| 11.0 |
12.0 |
-39.0 |
6 |
3 |
4 |
| | | | | | circular line |
0.185 |
80.0 |
| | | | | |
| | | | | | | | | | | | | | |
1h9t |
pd0232 |
E |
H |
B |
19 |
prot-nuc |
diff |
single-kink line |
0.369 |
| 20.0 |
| | 10 |
9 |
|
| | | | | | double-kink line |
0.377 |
| 22.0 |
15.0 |
-117.0 |
9 |
2 |
8 |
| | | | | | | | | | | | | | |
1kqq |
------ |
E |
H |
B |
15 |
prot-nuc |
NMR |
single-kink line |
0.248 |
| 22.0 |
| | 7 |
8 |
|
| | | | | | double-kink line |
0.263 |
| 21.0 |
9.0 |
70.0 |
7 |
6 |
2 |
| | | | | | circular line |
0.283 |
77.0 |
| | | | | |
| | | | | | | | | | | | | | |
1tsr |
pdr022 |
E |
H |
B |
20 |
prot-nuc |
diff |
single-kink line |
0.287 |
| 22.0 |
| | 4 |
16 |
|
| | | | | | double-kink line |
0.309 |
| 21.0 |
3.0 |
22.0 |
4 |
10 |
5 |
| | | | | | | | | | | | | | |
1tup |
pdr027 |
E |
H |
B |
20 |
prot-nuc |
diff |
single-kink line |
0.282 |
| 22.0 |
| | 4 |
16 |
|
| | | | | | double-kink line |
0.301 |
| 21.0 |
4.0 |
23.0 |
4 |
10 |
5 |
| | | | | | | | | | | | | | |
141d |
------ |
E |
H |
B |
13 |
nuc |
NMR |
single-kink line |
0.070 |
| 23.0 |
| | 6 |
7 |
|
| | | | | | circular line |
0.073 |
50.0 |
| | | | | |
| | | | | | double-kink line |
0.085 |
| 13.0 |
13.0 |
-7.0 |
5 |
3 |
5 |
| | | | | | | | | | | | | | |
1rna |
arn035 |
E |
H |
B |
14 |
nuc |
diff |
single-kink line |
0.080 |
| 23.0 |
| | 8 |
6 |
|
| | | | | | double-kink line |
0.108 |
| 5.0 |
21.0 |
-14.0 |
4 |
4 |
6 |
| | | | | | circular line |
0.162 |
50.0 |
| | | | | |
| | | | | | | | | | | | | | |
5gat |
------ |
E |
H |
B |
13 |
prot-nuc |
NMR |
single-kink line |
0.173 |
| 23.0 |
| | 7 |
6 |
|
| | | | | | double-kink line |
0.186 |
| 10.0 |
18.0 |
-56.0 |
6 |
2 |
5 |
| | | | | | circular line |
0.262 |
63.0 |
| | | | | |
| | | | | | | | | | | | | | |
1f44 |
pd0166 |
E |
H |
B |
15 |
prot-nuc |
diff |
single-kink line |
0.276 |
| 27.0 |
| | 8 |
7 |
|
| | | | | | double-kink line |
0.277 |
| 13.0 |
21.0 |
-55.0 |
6 |
3 |
6 |
| | | | | | circular line |
0.470 |
55.0 |
| | | | | |
| | | | | | | | | | | | | | |
1skn |
pdt064 |
E |
H |
B |
13 |
prot-nuc |
diff |
single-kink line |
0.196 |
| 27.0 |
| | 7 |
6 |
|
| | | | | | double-kink line |
0.272 |
| 10.0 |
20.0 |
-5.0 |
6 |
2 |
5 |
| | | | | | circular line |
0.281 |
49.0 |
| | | | | |
| | | | | | | | | | | | | | |
1kbu |
pd0271 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.352 |
| 33.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.407 |
| 17.0 |
19.0 |
32.0 |
7 |
3 |
6 |
| | | | | | | | | | | | | | |
1lbg |
pdr026 |
E |
H |
B |
16 |
prot-nuc |
diff |
single-kink line |
0.666 |
| 44.0 |
| | 8 |
8 |
|
| | | | | | double-kink line |
0.834 |
| 43.0 |
8.0 |
83.0 |
8 |
4 |
4 |
| | | | | | | | | | | | | | |
1j5n |
------ |
E |
H |
B |
15 |
prot-nuc |
NMR |
single-kink line |
0.419 |
| 48.0 |
| | 10 |
5 |
|
| | | | | | double-kink line |
0.455 |
| 7.0 |
51.0 |
146.0 |
5 |
5 |
5 |
| | | | | | | | | | | | | | |
1hbx |
pd0233 |
E |
H |
B |
25 |
prot-nuc |
diff |
single-kink line |
1.881 |
| 57.0 |
| | 16 |
9 |
|
| | | | | | double-kink line |
1.920 |
| 9.0 |
59.0 |
-146.0 |
6 |
10 |
9 |
| | | | | | | | | | | | | | |
1e3m |
pd0201 |
E |
H |
B |
17 |
prot-nuc |
diff |
single-kink line |
1.164 |
| 70.0 |
| | 8 |
9 |
|
| | | | | | double-kink line |
1.206 |
| 25.0 |
51.0 |
20.0 |
6 |
2 |
9 |
| | | | | | | | | | | | | | |
1ng9 |
pd0367 |
E |
H |
B |
17 |
prot-nuc |
diff |
single-kink line |
1.020 |
| 71.0 |
| | 7 |
10 |
|
| | | | | | double-kink line |
1.105 |
| 30.0 |
46.0 |
21.0 |
6 |
2 |
9 |
| | | | | | | | | | | | | | |
Abbreviations