Comprehensive Bending Classification of Nucleic Acid Double Helix Structures

Bending classification of helical axis - Straight line
(Last update: November 15, 2004)


Table 1a:

Structures for which the helical axis is best described by a straight line.
Sigma2 of the straight line is significantly smaller (> 0.2) than for the next-best model(s). The structures are listed by the goodness of fit sigma2(straight line).

Number of structures: 177

PDB  NDB  IMB Jena
Image Library
bp
molecule
type
method
s(2)
1qaa
------
E   |    H   |    B
20
prot-nuc
model
0.000
1uqd
------
E   |    H   |    B
6
nuc
NMR
0.027
251d
bdf068
E   |    H   |    B
6
nuc
diff
0.048
1bce
------
E   |    H   |    B
6
nuc
NMR
0.049
1uqa
------
E   |    H   |    B
6
nuc
NMR
0.050
377d
arf0108
E   |    H   |    B
6
nuc
diff
0.055
1pbm
------
E   |    H   |    B
6
nuc
NMR
0.056
1n0o
------
E   |    H   |    B
6
nuc
NMR
0.062
1kfv
pd0277
E   |    H   |    B
6
prot-nuc
diff
0.067
282d
ddf069
E   |    H   |    B
6
nuc
diff
0.073
310d
arfs26
E   |    H   |    B
6
nuc
diff
0.081
224d
ddf052
E   |    H   |    B
6
nuc
diff
0.089
1buf
------
E   |    H   |    B
6
nuc
NMR
0.091
1uqb
------
E   |    H   |    B
6
nuc
NMR
0.091
1bcb
------
E   |    H   |    B
6
nuc
NMR
0.098
1lww
pd0322
E   |    H   |    B
7
prot-nuc
diff
0.103
1d21
ddfa14
E   |    H   |    B
6
nuc
diff
0.105
1d17
ddfa16
E   |    H   |    B
6
nuc
diff
0.107
1m5r
pd0334
E   |    H   |    B
6
prot-nuc
diff
0.108
1gj1
------
E   |    H   |    B
6
nuc
NMR
0.112
275d
adfb63
E   |    H   |    B
6
nuc
diff
0.116
1zqa
pde027
E   |    H   |    B
7
prot-nuc
diff
0.120
245d
ddf063
E   |    H   |    B
6
nuc
diff
0.120
1d1u
pd0152
E   |    H   |    B
6
prot-nuc
diff
0.125
1k9g
dd0047
E   |    H   |    B
6
nuc
diff
0.126
1ixy
pd0333
E   |    H   |    B
6
prot-nuc
diff
0.127
1l2b
pd0294
E   |    H   |    B
6
prot-nuc
diff
0.128
1f6c
bd0040
E   |    H   |    B
6
nuc
diff
0.136
1f69
bd0039
E   |    H   |    B
6
nuc
diff
0.142
1d22
ddfa15
E   |    H   |    B
6
nuc
diff
0.143
1lwv
pd0321
E   |    H   |    B
7
prot-nuc
diff
0.145
254d
adfb62
E   |    H   |    B
6
nuc
diff
0.145
1uqg
------
E   |    H   |    B
6
nuc
NMR
0.146
1i7j
ar0031
E   |    H   |    B
6
nuc
diff
0.147
1ih3
ad0022
E   |    H   |    B
6
nuc
diff
0.147
1p25
bd0064
E   |    H   |    B
6
nuc
diff
0.150
7icr
pde060
E   |    H   |    B
6
prot-nuc
diff
0.152
9ick
pde0100
E   |    H   |    B
6
prot-nuc
diff
0.153
7ick
pde053
E   |    H   |    B
6
prot-nuc
diff
0.154
1pbl
------
E   |    H   |    B
6
nuc
NMR
0.155
1uqf
------
E   |    H   |    B
6
nuc
NMR
0.162
1g00
ad0010
E   |    H   |    B
6
nuc
diff
0.163
182d
ddf049
E   |    H   |    B
6
nuc
diff
0.164
1p26
bd0065
E   |    H   |    B
6
nuc
diff
0.164
7ics
pde061
E   |    H   |    B
6
prot-nuc
diff
0.167
1l3z
ar0040
E   |    H   |    B
6
nuc
diff
0.169
256d
adfb72
E   |    H   |    B
6
nuc
diff
0.170
1m0e
pd0327
E   |    H   |    B
6
prot-nuc
diff
0.174
366d
ddf073
E   |    H   |    B
6
nuc
diff
0.176
1mtg
------
E   |    H   |    B
6
nuc
NMR
0.179
146d
------
E   |    H   |    B
6
nuc
NMR
0.180
7icn
pde056
E   |    H   |    B
6
prot-nuc
diff
0.181
9icl
pde0101
E   |    H   |    B
6
prot-nuc
diff
0.183
9icm
pde0102
E   |    H   |    B
6
prot-nuc
diff
0.183
1l1z
pd0293
E   |    H   |    B
6
prot-nuc
diff
0.185
7icg
pde049
E   |    H   |    B
6
prot-nuc
diff
0.187
1ih1
bd0050
E   |    H   |    B
6
nuc
diff
0.189
1s9b
bd0069
E   |    H   |    B
6
nuc
diff
0.194
9ico
pde0104
E   |    H   |    B
6
prot-nuc
diff
0.195
1dl8
dd0023
E   |    H   |    B
6
nuc
diff
0.196
9icp
pde0105
E   |    H   |    B
6
prot-nuc
diff
0.198
1n3a
pd0355
E   |    H   |    B
7
prot-nuc
diff
0.200
1i6j
pd0202
E   |    H   |    B
6
prot-nuc
diff
0.206
1k82
pd0264
E   |    H   |    B
6
prot-nuc
diff
0.209
7icp
pde058
E   |    H   |    B
6
prot-nuc
diff
0.211
9icu
pde0110
E   |    H   |    B
6
prot-nuc
diff
0.212
1n3c
pd0356
E   |    H   |    B
7
prot-nuc
diff
0.214
1uqe
------
E   |    H   |    B
6
nuc
NMR
0.216
9icn
pde0103
E   |    H   |    B
6
prot-nuc
diff
0.216
28dn
adh023
E   |    H   |    B
8
nuc
diff
0.218
7icm
pde055
E   |    H   |    B
6
prot-nuc
diff
0.221
9icq
pde0106
E   |    H   |    B
6
prot-nuc
diff
0.222
9icx
pde0113
E   |    H   |    B
6
prot-nuc
diff
0.222
452d
dd0012
E   |    H   |    B
6
nuc
diff
0.224
1lwy
pd0323
E   |    H   |    B
7
prot-nuc
diff
0.226
1g5k
------
E   |    H   |    B
6
nuc
NMR
0.231
1ih4
ad0023
E   |    H   |    B
6
nuc
diff
0.234
465d
dd0015
E   |    H   |    B
6
nuc
diff
0.234
367d
ddf074
E   |    H   |    B
6
nuc
diff
0.235
7ict
pde062
E   |    H   |    B
6
prot-nuc
diff
0.235
7icl
pde054
E   |    H   |    B
6
prot-nuc
diff
0.242
1qch
------
E   |    H   |    B
6
nuc
NMR
0.243
5ana
adh024
E   |    H   |    B
8
nuc
diff
0.245
1l1t
pd0292
E   |    H   |    B
6
prot-nuc
diff
0.247
1d37
ddf028
E   |    H   |    B
6
nuc
diff
0.248
7ice
pde047
E   |    H   |    B
6
prot-nuc
diff
0.251
1ih2
ad0021
E   |    H   |    B
6
nuc
diff
0.259
1d3r
bd0017
E   |    H   |    B
6
nuc
diff
0.263
7ico
pde057
E   |    H   |    B
6
prot-nuc
diff
0.263
1cx3
------
E   |    H   |    B
6
nuc
NMR
0.264
9icw
pde0112
E   |    H   |    B
6
prot-nuc
diff
0.265
7icq
pde059
E   |    H   |    B
6
prot-nuc
diff
0.269
1kci
dd0048
E   |    H   |    B
6
nuc
diff
0.271
1em0
dd0027
E   |    H   |    B
6
nuc
diff
0.276
1k2k
------
E   |    H   |    B
6
nuc
NMR
0.276
234d
ddf054
E   |    H   |    B
6
nuc
diff
0.277
9ict
pde0109
E   |    H   |    B
6
prot-nuc
diff
0.284
9icr
pde0107
E   |    H   |    B
6
prot-nuc
diff
0.285
1n39
pd0357
E   |    H   |    B
7
prot-nuc
diff
0.288
1lyr
------
E   |    H   |    B
7
prot-nuc
model
0.297
1k2j
------
E   |    H   |    B
6
nuc
NMR
0.303
206d
bdf062
E   |    H   |    B
6
nuc
diff
0.303
385d
ddf078
E   |    H   |    B
6
nuc
diff
0.305
1uqc
------
E   |    H   |    B
6
nuc
NMR
0.311
7ici
pde051
E   |    H   |    B
6
prot-nuc
diff
0.315
1q2r
pr0101
E   |    H   |    B
6
prot-nuc
diff
0.319
1d97
bdfp24
E   |    H   |    B
6
nuc
diff
0.320
235d
ddf055
E   |    H   |    B
6
nuc
diff
0.324
1zqd
pde030
E   |    H   |    B
7
prot-nuc
diff
0.325
1agl
ddf072
E   |    H   |    B
6
nuc
diff
0.327
198d
ddf050
E   |    H   |    B
6
nuc
diff
0.329
9ics
pde0108
E   |    H   |    B
6
prot-nuc
diff
0.342
1q2s
pr0102
E   |    H   |    B
6
prot-nuc
diff
0.343
288d
ddf065
E   |    H   |    B
6
nuc
diff
0.344
7icj
pde052
E   |    H   |    B
6
prot-nuc
diff
0.353
1d36
ddf026
E   |    H   |    B
6
nuc
diff
0.354
258d
ddf064
E   |    H   |    B
6
nuc
diff
0.355
1c9z
dd0018
E   |    H   |    B
6
nuc
diff
0.359
236d
ddf056
E   |    H   |    B
6
nuc
diff
0.361
7icv
pde088
E   |    H   |    B
6
prot-nuc
diff
0.361
1d67
ddf038
E   |    H   |    B
6
nuc
diff
0.366
1ih6
ad0024
E   |    H   |    B
6
nuc
diff
0.366
1x95
------
E   |    H   |    B
6
nuc
NMR
0.369
1imr
ddf061
E   |    H   |    B
6
nuc
diff
0.370
1p24
bd0063
E   |    H   |    B
6
nuc
diff
0.371
276d
ddf066
E   |    H   |    B
6
nuc
diff
0.372
386d
ddf079
E   |    H   |    B
6
nuc
diff
0.374
1msw
pd0345
E   |    H   |    B
6
prot-nuc
diff
0.379
2d34
ddfb24
E   |    H   |    B
6
nuc
diff
0.381
2bpf
pde011
E   |    H   |    B
7
prot-nuc
diff
0.384
7icf
pde048
E   |    H   |    B
6
prot-nuc
diff
0.385
152d
ddf045
E   |    H   |    B
6
nuc
diff
0.391
1ims
ddf062
E   |    H   |    B
6
nuc
diff
0.393
1d11
ddf001
E   |    H   |    B
6
nuc
diff
0.395
1d12
ddf019
E   |    H   |    B
6
nuc
diff
0.405
1d15
ddf022
E   |    H   |    B
6
nuc
diff
0.407
1d10
ddf020
E   |    H   |    B
6
nuc
diff
0.422
151d
ddf044
E   |    H   |    B
6
nuc
diff
0.430
7ich
pde050
E   |    H   |    B
6
prot-nuc
diff
0.433
1p20
dd0056
E   |    H   |    B
6
nuc
diff
0.434
1d38
ddf029
E   |    H   |    B
6
nuc
diff
0.442
257d
adf073
E   |    H   |    B
6
nuc
diff
0.445
482d
dd0017
E   |    H   |    B
6
nuc
diff
0.446
215d
ddf053
E   |    H   |    B
6
nuc
diff
0.453
1d33
ddf023
E   |    H   |    B
6
nuc
diff
0.455
1d35
ddfb25
E   |    H   |    B
6
nuc
diff
0.455
1d58
ddf036
E   |    H   |    B
6
nuc
diff
0.467
185d
------
E   |    H   |    B
6
nuc
NMR
0.470
7icu
pde063
E   |    H   |    B
6
prot-nuc
diff
0.472
332d
ahh089
E   |    H   |    B
6
nuc
diff
0.475
1d14
ddfp21
E   |    H   |    B
6
nuc
diff
0.486
1ao1
------
E   |    H   |    B
6
nuc
NMR
0.494
1p51
pd0426
E   |    H   |    B
6
prot-nuc
diff
0.503
203d
------
E   |    H   |    B
8
nuc
NMR
0.506
1oup
pd0403
E   |    H   |    B
8
prot-nuc
diff
0.514
380d
ddfb76
E   |    H   |    B
6
nuc
diff
0.531
2des
ddf041
E   |    H   |    B
6
nuc
diff
0.557
308d
ddfb70
E   |    H   |    B
6
nuc
diff
0.590
1cp8
------
E   |    H   |    B
8
nuc
NMR
0.631
1d54
ddf035
E   |    H   |    B
6
nuc
diff
0.634
1da0
ddf018
E   |    H   |    B
6
nuc
diff
0.639
278d
ddf068
E   |    H   |    B
6
nuc
diff
0.663
110d
ddf039
E   |    H   |    B
6
nuc
diff
0.676
418d
dr0001
E   |    H   |    B
6
nuc
diff
0.729
277d
ddf067
E   |    H   |    B
6
nuc
diff
0.776
343d
adfb97
E   |    H   |    B
6
nuc
diff
0.778
1vaq
dd0063
E   |    H   |    B
8
nuc
diff
0.821
2da8
------
E   |    H   |    B
6
nuc
NMR
0.855
1l2d
pd0296
E   |    H   |    B
6
prot-nuc
diff
0.859
1da9
ddf040
E   |    H   |    B
6
nuc
diff
0.865
1qda
dd0022
E   |    H   |    B
6
nuc
diff
0.886
1nab
dd0054
E   |    H   |    B
6
nuc
diff
0.887
1n0k
------
E   |    H   |    B
6
nuc
NMR
0.897
1eki
------
E   |    H   |    B
8
nuc
NMR
0.962
1i5v
------
E   |    H   |    B
6
nuc
NMR
1.326
1j7t
dr0006
E   |    H   |    B
6
nuc
diff
1.360
1l2c
pd0295
E   |    H   |    B
6
prot-nuc
diff
1.543

Abbreviations