1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Smirnov, S.
Matray, T.J.
Kool, E.T.
de los Santos, C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C5 H11 O6 P
198.111
1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE
ABASIC DIDEOXYRIBOSE
DNA linking
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
C21 H19 O6 P
398.346
2'-DEOXYRIBOFURANOSYLPYRENE-5'-MONOPHOSPHATE
non-polymer
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
30
5561
5569
10.1093/nar/gkf688
12490724
Integrity of duplex structures without hydrogen bonding: DNA with pyrene paired at abasic sites
2002
10.2210/pdb1fzl/pdb
pdb_00001fzl
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
3989.729
5'-D(*CP*AP*CP*AP*AP*AP*CP*AP*(PYP)P*GP*CP*AP*C)-3'
1
syn
polymer
3895.506
5'-D(*GP*TP*GP*CP*(3DR)P*TP*GP*TP*TP*TP*GP*TP*G)-3'
1
syn
polymer
no
yes
(DC)(DA)(DC)(DA)(DA)(DA)(DC)(DA)(PYP)(DG)(DC)(DA)(DC)
CACAAACAXGCAC
A
polydeoxyribonucleotide
no
yes
(DG)(DT)(DG)(DC)(3DR)(DT)(DG)(DT)(DT)(DT)(DG)(DT)(DG)
GTGCNTGTTTGTG
B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
-7.565
1
19
A
1
B
26
-5.861
A_DC1:DG26_B
1
-17.787
-0.105
0.440
-0.148
-2.697
1
20
A
2
B
25
-9.439
A_DA2:DT25_B
2
-8.934
0.196
0.285
-0.130
12.995
1
19
A
3
B
24
-2.046
A_DC3:DG24_B
3
-14.499
0.902
-0.065
-0.221
2.414
1
20
A
4
B
23
0.013
A_DA4:DT23_B
4
-14.630
-0.204
-0.319
-0.219
3.578
1
20
A
5
B
22
-4.722
A_DA5:DT22_B
5
-11.909
0.175
-0.018
-0.099
7.426
1
20
A
6
B
21
-2.548
A_DA6:DT21_B
6
-6.825
0.314
0.237
-0.125
21.924
1
19
A
7
B
20
-2.201
A_DC7:DG20_B
7
-6.135
0.787
-0.196
-0.178
6.663
1
20
A
8
B
19
-0.772
A_DA8:DT19_B
8
-10.411
0.025
-0.035
-0.015
-15.297
1
19
A
10
B
17
1.265
A_DG10:DC17_B
9
-10.836
-0.836
-0.299
-0.244
-6.112
1
19
A
11
B
16
-1.284
A_DC11:DG16_B
10
9.878
0.477
0.121
-0.094
28.969
1
20
A
12
B
15
-0.963
A_DA12:DT15_B
11
-8.232
0.278
0.632
-0.107
37.152
1
19
A
13
B
14
2.423
A_DC13:DG14_B
12
-11.601
0.936
-0.772
-0.119
2.000
36.303
A
A
1
2
23.798
B
B
26
25
2.731
14.414
-0.891
-1.546
AA_DC1DA2:DT25DG26_BB
1
-3.962
6.541
33.177
-4.011
1.010
2.979
32.634
A
A
2
3
-5.136
B
B
25
24
2.803
-2.871
1.453
0.061
AA_DA2DC3:DG24DT25_BB
2
5.210
-9.322
32.102
0.553
-1.780
2.633
42.240
A
A
3
4
32.264
B
B
24
23
3.186
22.099
-1.946
-0.689
AA_DC3DA4:DT23DG24_BB
3
-6.048
8.830
35.727
-3.164
2.097
2.704
28.284
A
A
4
5
14.010
B
B
23
22
3.142
6.745
-0.187
-1.419
AA_DA4DA5:DT22DT23_BB
4
-5.161
10.721
27.004
-4.335
-0.712
2.836
35.812
A
A
5
6
13.841
B
B
22
21
3.127
8.433
0.222
-0.852
AA_DA5DA6:DT21DT22_BB
5
-1.724
2.830
34.795
-2.508
-0.591
2.908
38.764
A
A
6
7
-0.413
B
B
21
20
2.897
-0.274
0.208
-0.556
AA_DA6DC7:DG20DT21_BB
6
2.139
-3.224
38.706
-0.809
-0.081
2.831
36.806
A
A
7
8
26.943
B
B
20
19
3.242
16.281
-1.829
-0.981
AA_DC7DA8:DT19DG20_BB
7
-8.883
14.700
31.933
-3.768
1.688
7.221
72.099
A
A
8
10
3.057
B
B
19
17
7.231
3.597
0.890
-0.054
AA_DA8DG10:DC17DT19_BB
8
-0.007
0.006
72.021
-0.311
-0.757
3.411
37.469
A
A
10
11
-5.753
B
B
17
16
3.205
-3.678
-1.196
-0.903
AA_DG10DC11:DG16DC17_BB
9
-5.383
8.419
36.917
-0.914
1.143
2.528
26.172
A
A
11
12
-2.136
B
B
16
15
2.445
-0.966
-0.569
-1.271
AA_DC11DA12:DT15DG16_BB
10
-2.201
4.867
26.064
-2.608
0.802
3.713
45.357
A
A
12
13
-18.008
B
B
15
14
3.528
-13.632
1.216
-0.657
AA_DA12DC13:DG14DT15_BB
11
7.470
-9.867
42.743
0.531
-0.820
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2000-10-18
1
1
2008-04-27
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_struct_conn.pdbx_leaving_atom_flag
1FZS contains a replication intermediate with a 3'-terminal pyrene residue paired at an abasic site
RCSB
Y
RCSB
2000-10-03
REL
REL
target function
15
6
2D NOESY
2D NOESY
50 mM
6.8
1
atm
284
K
50 mM
6.8
1
atm
308
K
molecular annealing
3
closest to the average
3.6 mM
10%D2O/90%H2O
3.6 mM
99.6%D2O
Varian Co.
collection
VNMR
5
MSI Co.
processing
Felix
95
A. Brunger
refinement
X-PLOR
3.8
500
Varian
UNITYPLUS
600
Varian
UNITYPLUS
C
1
n
1
DC
1
A
A
2
n
2
DA
2
A
C
3
n
3
DC
3
A
A
4
n
4
DA
4
A
A
5
n
5
DA
5
A
A
6
n
6
DA
6
A
C
7
n
7
DC
7
A
A
8
n
8
DA
8
A
PYP
9
n
9
PYP
9
A
G
10
n
10
DG
10
A
C
11
n
11
DC
11
A
A
12
n
12
DA
12
A
C
13
n
13
DC
13
A
G
14
n
1
DG
14
B
T
15
n
2
DT
15
B
G
16
n
3
DG
16
B
C
17
n
4
DC
17
B
3DR
18
n
5
3DR
18
B
T
19
n
6
DT
19
B
G
20
n
7
DG
20
B
T
21
n
8
DT
21
B
T
22
n
9
DT
22
B
T
23
n
10
DT
23
B
G
24
n
11
DG
24
B
T
25
n
12
DT
25
B
G
26
n
13
DG
26
B
author_defined_assembly
2
dimeric
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
1
3.31
0.50
113.80
117.11
A
A
A
N7
C8
N9
DA
DA
DA
2
2
2
N
1
8.63
1.40
114.30
122.93
A
A
A
N1
C1'
C2'
DC
DC
DC
3
3
3
N
1
8.52
0.30
108.30
116.82
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
1
3.30
0.50
113.80
117.10
A
A
A
N7
C8
N9
DA
DA
DA
4
4
4
N
1
3.68
0.60
118.90
122.58
A
A
A
N1
C2
O2
DC
DC
DC
7
7
7
N
1
5.12
0.30
108.30
113.42
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
1.86
0.30
108.30
110.16
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
-5.05
0.80
105.90
100.85
A
A
A
O4'
C1'
C2'
DA
DA
DA
12
12
12
N
1
2.62
0.30
108.30
110.92
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
1
3.01
0.50
113.10
116.11
B
B
B
N7
C8
N9
DG
DG
DG
14
14
14
N
1
-2.57
0.40
106.40
103.83
B
B
B
C8
N9
C4
DG
DG
DG
14
14
14
N
1
1.93
0.30
108.30
110.23
B
B
B
O4'
C1'
N1
DT
DT
DT
15
15
15
N
1
-6.10
0.80
105.90
99.80
B
B
B
O4'
C1'
C2'
DG
DG
DG
16
16
16
N
1
-2.42
0.40
106.40
103.98
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
1
-5.36
0.80
102.40
97.04
B
B
B
C3'
C2'
C1'
DC
DC
DC
17
17
17
N
1
7.31
0.30
108.30
115.61
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
1
4.04
0.30
108.30
112.34
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
1
2.01
0.30
108.30
110.31
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
1
-2.59
0.40
106.40
103.81
B
B
B
C8
N9
C4
DG
DG
DG
20
20
20
N
1
3.71
0.60
119.00
122.71
B
B
B
C4
C5
C7
DT
DT
DT
23
23
23
N
1
-6.31
0.60
122.90
116.59
B
B
B
C6
C5
C7
DT
DT
DT
23
23
23
N
1
-4.90
0.80
105.90
101.00
B
B
B
O4'
C1'
C2'
DG
DG
DG
24
24
24
N
1
2.68
0.30
108.30
110.98
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
1
3.64
0.50
113.10
116.74
B
B
B
N7
C8
N9
DG
DG
DG
24
24
24
N
1
-2.67
0.40
106.40
103.73
B
B
B
C8
N9
C4
DG
DG
DG
24
24
24
N
1
3.75
0.30
108.30
112.05
B
B
B
O4'
C1'
N1
DT
DT
DT
25
25
25
N
1
-4.94
0.80
102.40
97.46
B
B
B
C3'
C2'
C1'
DG
DG
DG
26
26
26
N
1
4.47
0.30
108.30
112.77
B
B
B
O4'
C1'
N9
DG
DG
DG
26
26
26
N
2
3.73
0.60
118.90
122.63
A
A
A
N1
C2
O2
DC
DC
DC
1
1
1
N
2
6.98
1.10
109.80
116.78
A
A
A
C5'
C4'
O4'
DA
DA
DA
2
2
2
N
2
-5.88
0.80
105.90
100.02
A
A
A
O4'
C1'
C2'
DA
DA
DA
2
2
2
N
2
3.23
0.50
113.80
117.03
A
A
A
N7
C8
N9
DA
DA
DA
2
2
2
N
2
8.83
0.30
108.30
117.13
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
2
3.23
0.50
113.80
117.03
A
A
A
N7
C8
N9
DA
DA
DA
4
4
4
N
2
-5.15
0.80
105.90
100.75
A
A
A
O4'
C1'
C2'
DA
DA
DA
5
5
5
N
2
2.34
0.30
108.30
110.64
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
2
-4.87
0.80
105.90
101.03
A
A
A
O4'
C1'
C2'
DA
DA
DA
6
6
6
N
2
3.61
0.30
108.30
111.91
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
2
2.46
0.30
108.30
110.76
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
2
2.00
0.30
108.30
110.30
A
A
A
O4'
C1'
N9
DA
DA
DA
12
12
12
N
2
2.29
0.30
108.30
110.59
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
2
3.09
0.50
113.10
116.19
B
B
B
N7
C8
N9
DG
DG
DG
14
14
14
N
2
-5.12
0.80
105.90
100.78
B
B
B
O4'
C1'
C2'
DG
DG
DG
16
16
16
N
2
-2.70
0.40
106.40
103.70
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
2
-5.42
0.80
102.40
96.98
B
B
B
C3'
C2'
C1'
DC
DC
DC
17
17
17
N
2
8.01
0.30
108.30
116.31
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
2
6.06
0.30
108.30
114.36
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
2
-3.71
0.60
122.90
119.19
B
B
B
C6
C5
C7
DT
DT
DT
19
19
19
N
2
2.16
0.30
108.30
110.46
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
2
-2.69
0.40
106.40
103.71
B
B
B
C8
N9
C4
DG
DG
DG
20
20
20
N
2
2.26
0.30
108.30
110.56
B
B
B
O4'
C1'
N1
DT
DT
DT
21
21
21
N
2
-4.98
0.80
105.90
100.92
B
B
B
O4'
C1'
C2'
DT
DT
DT
22
22
22
N
2
-3.93
0.60
122.90
118.97
B
B
B
C6
C5
C7
DT
DT
DT
22
22
22
N
2
4.00
0.60
119.00
123.00
B
B
B
C4
C5
C7
DT
DT
DT
23
23
23
N
2
-6.64
0.60
122.90
116.26
B
B
B
C6
C5
C7
DT
DT
DT
23
23
23
N
2
4.18
0.30
108.30
112.48
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
2
3.32
0.50
113.10
116.42
B
B
B
N7
C8
N9
DG
DG
DG
24
24
24
N
2
4.96
0.30
108.30
113.26
B
B
B
O4'
C1'
N1
DT
DT
DT
25
25
25
N
2
3.06
0.50
113.10
116.16
B
B
B
N7
C8
N9
DG
DG
DG
26
26
26
N
3
3.73
0.60
118.90
122.63
A
A
A
N1
C2
O2
DC
DC
DC
1
1
1
N
3
-5.37
0.80
105.90
100.53
A
A
A
O4'
C1'
C2'
DA
DA
DA
2
2
2
N
3
3.11
0.50
113.80
116.91
A
A
A
N7
C8
N9
DA
DA
DA
2
2
2
N
3
-4.89
0.80
102.40
97.51
A
A
A
C3'
C2'
C1'
DC
DC
DC
3
3
3
N
3
8.25
0.30
108.30
116.55
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
3
3.00
0.50
113.80
116.80
A
A
A
N7
C8
N9
DA
DA
DA
4
4
4
N
3
-5.71
0.80
105.90
100.19
A
A
A
O4'
C1'
C2'
DA
DA
DA
5
5
5
N
3
3.78
0.30
108.30
112.08
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
3
2.87
0.30
108.30
111.17
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
3
2.77
0.30
108.30
111.07
A
A
A
O4'
C1'
N1
DC
DC
DC
7
7
7
N
3
6.22
0.30
108.30
114.52
A
A
A
O4'
C1'
N9
DA
DA
DA
8
8
8
N
3
3.95
0.30
108.30
112.25
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
3
-2.41
0.40
106.40
103.99
A
A
A
C8
N9
C4
DG
DG
DG
10
10
10
N
3
2.75
0.30
108.30
111.05
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
3
2.21
0.30
108.30
110.51
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
3
3.09
0.50
113.10
116.19
B
B
B
N7
C8
N9
DG
DG
DG
14
14
14
N
3
-4.96
0.80
105.90
100.94
B
B
B
O4'
C1'
C2'
DG
DG
DG
16
16
16
N
3
-2.72
0.40
106.40
103.68
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
3
7.08
0.30
108.30
115.38
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
3
6.58
0.30
108.30
114.88
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
3
2.83
0.30
108.30
111.13
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
3
-2.68
0.40
106.40
103.72
B
B
B
C8
N9
C4
DG
DG
DG
20
20
20
N
3
3.08
0.30
108.30
111.38
B
B
B
O4'
C1'
N1
DT
DT
DT
21
21
21
N
3
-4.95
0.80
105.90
100.95
B
B
B
O4'
C1'
C2'
DT
DT
DT
22
22
22
N
3
2.37
0.30
108.30
110.67
B
B
B
O4'
C1'
N1
DT
DT
DT
23
23
23
N
3
3.85
0.60
119.00
122.85
B
B
B
C4
C5
C7
DT
DT
DT
23
23
23
N
3
-6.53
0.60
122.90
116.37
B
B
B
C6
C5
C7
DT
DT
DT
23
23
23
N
3
1.82
0.30
108.30
110.13
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
3
3.65
0.50
113.10
116.75
B
B
B
N7
C8
N9
DG
DG
DG
24
24
24
N
3
-2.63
0.40
106.40
103.77
B
B
B
C8
N9
C4
DG
DG
DG
24
24
24
N
3
5.25
0.30
108.30
113.55
B
B
B
O4'
C1'
N1
DT
DT
DT
25
25
25
N
3
2.73
0.30
108.30
111.03
B
B
B
O4'
C1'
N9
DG
DG
DG
26
26
26
N
3
3.13
0.50
113.10
116.23
B
B
B
N7
C8
N9
DG
DG
DG
26
26
26
N
4
-5.30
0.80
105.90
100.60
A
A
A
O4'
C1'
C2'
DA
DA
DA
2
2
2
N
4
9.10
0.30
108.30
117.40
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
4
3.30
0.50
113.80
117.10
A
A
A
N7
C8
N9
DA
DA
DA
4
4
4
N
4
-5.80
0.80
105.90
100.10
A
A
A
O4'
C1'
C2'
DA
DA
DA
5
5
5
N
4
6.07
0.30
108.30
114.37
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
4
4.75
0.30
108.30
113.05
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
4
4.00
0.60
118.90
122.90
A
A
A
N1
C2
O2
DC
DC
DC
11
11
11
N
4
2.61
0.30
108.30
110.91
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
4
-2.49
0.40
106.40
103.91
B
B
B
C8
N9
C4
DG
DG
DG
14
14
14
N
4
1.83
0.30
108.30
110.13
B
B
B
O4'
C1'
N1
DT
DT
DT
15
15
15
N
4
-6.56
0.80
105.90
99.34
B
B
B
O4'
C1'
C2'
DG
DG
DG
16
16
16
N
4
1.85
0.30
108.30
110.15
B
B
B
O4'
C1'
N9
DG
DG
DG
16
16
16
N
4
-2.51
0.40
106.40
103.89
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
4
6.88
0.30
108.30
115.18
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
4
5.88
0.30
108.30
114.18
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
4
2.07
0.30
108.30
110.37
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
4
-2.49
0.40
106.40
103.91
B
B
B
C8
N9
C4
DG
DG
DG
20
20
20
N
4
2.24
0.30
108.30
110.54
B
B
B
O4'
C1'
N1
DT
DT
DT
21
21
21
N
4
2.08
0.30
108.30
110.38
B
B
B
O4'
C1'
N1
DT
DT
DT
23
23
23
N
4
3.93
0.60
119.00
122.93
B
B
B
C4
C5
C7
DT
DT
DT
23
23
23
N
4
-6.61
0.60
122.90
116.29
B
B
B
C6
C5
C7
DT
DT
DT
23
23
23
N
4
5.27
0.30
108.30
113.57
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
4
3.27
0.50
113.10
116.37
B
B
B
N7
C8
N9
DG
DG
DG
24
24
24
N
4
4.67
0.30
108.30
112.97
B
B
B
O4'
C1'
N1
DT
DT
DT
25
25
25
N
5
3.72
0.60
118.90
122.62
A
A
A
N1
C2
O2
DC
DC
DC
1
1
1
N
5
-5.64
0.80
105.90
100.26
A
A
A
O4'
C1'
C2'
DA
DA
DA
2
2
2
N
5
-4.90
0.80
102.40
97.50
A
A
A
C3'
C2'
C1'
DC
DC
DC
3
3
3
N
5
9.07
0.30
108.30
117.37
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
5
-5.88
0.80
105.90
100.02
A
A
A
O4'
C1'
C2'
DA
DA
DA
5
5
5
N
5
3.14
0.30
108.30
111.44
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
5
1.90
0.30
108.30
110.20
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
5
5.17
0.30
108.30
113.47
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
5
2.44
0.30
108.30
110.74
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
5
3.12
0.30
108.30
111.42
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
5
3.09
0.50
113.10
116.19
B
B
B
N7
C8
N9
DG
DG
DG
14
14
14
N
5
-5.84
0.80
105.90
100.06
B
B
B
O4'
C1'
C2'
DG
DG
DG
16
16
16
N
5
-2.57
0.40
106.40
103.83
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
5
6.84
0.30
108.30
115.14
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
5
10.41
1.20
119.70
130.11
B
B
B
C3'
O3'
P
3DR
3DR
DT
18
18
19
Y
5
5.27
0.30
108.30
113.57
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
5
2.80
0.30
108.30
111.10
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
5
1.99
0.30
108.30
110.29
B
B
B
O4'
C1'
N1
DT
DT
DT
21
21
21
N
5
-3.79
0.60
122.90
119.11
B
B
B
C6
C5
C7
DT
DT
DT
22
22
22
N
5
4.00
0.60
119.00
123.00
B
B
B
C4
C5
C7
DT
DT
DT
23
23
23
N
5
-6.66
0.60
122.90
116.24
B
B
B
C6
C5
C7
DT
DT
DT
23
23
23
N
5
4.75
0.30
108.30
113.05
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
5
3.48
0.50
113.10
116.58
B
B
B
N7
C8
N9
DG
DG
DG
24
24
24
N
5
-2.51
0.40
106.40
103.89
B
B
B
C8
N9
C4
DG
DG
DG
24
24
24
N
5
3.83
0.30
108.30
112.13
B
B
B
O4'
C1'
N1
DT
DT
DT
25
25
25
N
5
3.25
0.50
113.10
116.35
B
B
B
N7
C8
N9
DG
DG
DG
26
26
26
N
5
-2.45
0.40
106.40
103.95
B
B
B
C8
N9
C4
DG
DG
DG
26
26
26
N
6
3.69
0.60
118.90
122.59
A
A
A
N1
C2
O2
DC
DC
DC
1
1
1
N
6
-5.65
0.80
105.90
100.25
A
A
A
O4'
C1'
C2'
DA
DA
DA
2
2
2
N
6
3.02
0.50
113.80
116.82
A
A
A
N7
C8
N9
DA
DA
DA
2
2
2
N
6
8.69
0.30
108.30
116.99
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
6
-4.98
0.80
105.90
100.92
A
A
A
O4'
C1'
C2'
DA
DA
DA
5
5
5
N
6
2.26
0.30
108.30
110.56
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
6
4.09
0.30
108.30
112.39
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
6
2.62
0.30
108.30
110.92
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
6
3.09
0.50
113.10
116.19
B
B
B
N7
C8
N9
DG
DG
DG
14
14
14
N
6
-2.56
0.40
106.40
103.84
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
6
-5.21
0.80
102.40
97.19
B
B
B
C3'
C2'
C1'
DC
DC
DC
17
17
17
N
6
7.49
0.30
108.30
115.79
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
6
7.77
1.20
119.70
127.47
B
B
B
C3'
O3'
P
DC
DC
3DR
17
17
18
Y
6
5.46
0.30
108.30
113.76
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
6
-2.73
0.40
106.40
103.67
B
B
B
C8
N9
C4
DG
DG
DG
20
20
20
N
6
2.39
0.30
108.30
110.69
B
B
B
O4'
C1'
N1
DT
DT
DT
21
21
21
N
6
-3.62
0.60
122.90
119.28
B
B
B
C6
C5
C7
DT
DT
DT
22
22
22
N
6
3.89
0.60
119.00
122.89
B
B
B
C4
C5
C7
DT
DT
DT
23
23
23
N
6
-6.59
0.60
122.90
116.31
B
B
B
C6
C5
C7
DT
DT
DT
23
23
23
N
6
-4.98
0.80
105.90
100.92
B
B
B
O4'
C1'
C2'
DG
DG
DG
24
24
24
N
6
2.68
0.30
108.30
110.98
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
6
3.43
0.50
113.10
116.53
B
B
B
N7
C8
N9
DG
DG
DG
24
24
24
N
6
-2.58
0.40
106.40
103.82
B
B
B
C8
N9
C4
DG
DG
DG
24
24
24
N
6
4.82
0.30
108.30
113.12
B
B
B
O4'
C1'
N1
DT
DT
DT
25
25
25
N
6
3.19
0.30
108.30
111.49
B
B
B
O4'
C1'
N9
DG
DG
DG
26
26
26
N
6
3.05
0.50
113.10
116.15
B
B
B
N7
C8
N9
DG
DG
DG
26
26
26
N
1
A
A
C4
N4
DC
DC
1
1
0.095
0.009
1.335
1.430
N
1
A
A
C6
N6
DA
DA
2
2
0.089
0.008
1.335
1.424
N
1
A
A
C4
N4
DC
DC
3
3
0.095
0.009
1.335
1.430
N
1
A
A
C6
N6
DA
DA
4
4
0.095
0.008
1.335
1.430
N
1
A
A
C6
N6
DA
DA
5
5
0.096
0.008
1.335
1.431
N
1
A
A
C6
N6
DA
DA
6
6
0.095
0.008
1.335
1.430
N
1
A
A
C4
N4
DC
DC
7
7
0.095
0.009
1.335
1.430
N
1
A
A
C6
N6
DA
DA
8
8
0.097
0.008
1.335
1.432
N
1
A
A
C2
N2
DG
DG
10
10
0.083
0.010
1.341
1.424
N
1
A
A
C4
N4
DC
DC
11
11
0.095
0.009
1.335
1.430
N
1
A
A
C6
N6
DA
DA
12
12
0.096
0.008
1.335
1.431
N
1
A
A
C4
N4
DC
DC
13
13
0.095
0.009
1.335
1.430
N
1
B
B
C2
N2
DG
DG
14
14
0.076
0.010
1.341
1.417
N
1
B
B
C5
C7
DT
DT
15
15
0.037
0.006
1.496
1.533
N
1
B
B
C2
N2
DG
DG
16
16
0.085
0.010
1.341
1.426
N
1
B
B
C4
N4
DC
DC
17
17
0.096
0.009
1.335
1.431
N
1
B
B
C5
C7
DT
DT
19
19
0.047
0.006
1.496
1.543
N
1
B
B
C2
N2
DG
DG
20
20
0.085
0.010
1.341
1.426
N
1
B
B
C5
C7
DT
DT
21
21
0.038
0.006
1.496
1.534
N
1
B
B
C5
C7
DT
DT
22
22
0.039
0.006
1.496
1.535
N
1
B
B
C2
N2
DG
DG
24
24
0.086
0.010
1.341
1.427
N
1
B
B
C5
C7
DT
DT
25
25
0.040
0.006
1.496
1.536
N
1
B
B
C2
N2
DG
DG
26
26
0.087
0.010
1.341
1.428
N
2
A
A
C4
N4
DC
DC
1
1
0.095
0.009
1.335
1.430
N
2
A
A
C6
N6
DA
DA
2
2
0.090
0.008
1.335
1.425
N
2
A
A
C4
N4
DC
DC
3
3
0.091
0.009
1.335
1.426
N
2
A
A
C6
N6
DA
DA
4
4
0.096
0.008
1.335
1.431
N
2
A
A
C6
N6
DA
DA
5
5
0.096
0.008
1.335
1.431
N
2
A
A
C6
N6
DA
DA
6
6
0.092
0.008
1.335
1.427
N
2
A
A
C4
N4
DC
DC
7
7
0.095
0.009
1.335
1.430
N
2
A
A
C6
N6
DA
DA
8
8
0.094
0.008
1.335
1.429
N
2
A
A
C2
N2
DG
DG
10
10
0.082
0.010
1.341
1.423
N
2
A
A
C4
N4
DC
DC
11
11
0.095
0.009
1.335
1.430
N
2
A
A
C6
N6
DA
DA
12
12
0.094
0.008
1.335
1.429
N
2
A
A
C4
N4
DC
DC
13
13
0.094
0.009
1.335
1.429
N
2
B
B
C2
N2
DG
DG
14
14
0.078
0.010
1.341
1.419
N
2
B
B
C5
C7
DT
DT
15
15
0.037
0.006
1.496
1.533
N
2
B
B
C2
N2
DG
DG
16
16
0.086
0.010
1.341
1.427
N
2
B
B
C4
N4
DC
DC
17
17
0.095
0.009
1.335
1.430
N
2
B
B
C5
C7
DT
DT
19
19
0.042
0.006
1.496
1.538
N
2
B
B
C2
N2
DG
DG
20
20
0.082
0.010
1.341
1.423
N
2
B
B
C5
C7
DT
DT
22
22
0.038
0.006
1.496
1.534
N
2
B
B
C2
N2
DG
DG
24
24
0.084
0.010
1.341
1.425
N
2
B
B
C5
C7
DT
DT
25
25
0.038
0.006
1.496
1.534
N
2
B
B
C2
N2
DG
DG
26
26
0.090
0.010
1.341
1.431
N
3
A
A
C4
N4
DC
DC
1
1
0.099
0.009
1.335
1.434
N
3
A
A
C6
N6
DA
DA
2
2
0.084
0.008
1.335
1.419
N
3
A
A
C4
N4
DC
DC
3
3
0.093
0.009
1.335
1.428
N
3
A
A
C6
N6
DA
DA
4
4
0.096
0.008
1.335
1.431
N
3
A
A
C6
N6
DA
DA
5
5
0.095
0.008
1.335
1.430
N
3
A
A
C6
N6
DA
DA
6
6
0.095
0.008
1.335
1.430
N
3
A
A
C4
N4
DC
DC
7
7
0.094
0.009
1.335
1.429
N
3
A
A
C6
N6
DA
DA
8
8
0.092
0.008
1.335
1.427
N
3
A
A
C2
N2
DG
DG
10
10
0.085
0.010
1.341
1.426
N
3
A
A
C4
N4
DC
DC
11
11
0.094
0.009
1.335
1.429
N
3
A
A
C6
N6
DA
DA
12
12
0.095
0.008
1.335
1.430
N
3
A
A
C4
N4
DC
DC
13
13
0.092
0.009
1.335
1.427
N
3
B
B
C2
N2
DG
DG
14
14
0.079
0.010
1.341
1.420
N
3
B
B
C2
N2
DG
DG
16
16
0.084
0.010
1.341
1.425
N
3
B
B
C4
N4
DC
DC
17
17
0.096
0.009
1.335
1.431
N
3
B
B
C5
C7
DT
DT
19
19
0.037
0.006
1.496
1.533
N
3
B
B
C2
N2
DG
DG
20
20
0.080
0.010
1.341
1.421
N
3
B
B
C5
C7
DT
DT
22
22
0.040
0.006
1.496
1.536
N
3
B
B
C2
N2
DG
DG
24
24
0.084
0.010
1.341
1.425
N
3
B
B
C5
C7
DT
DT
25
25
0.038
0.006
1.496
1.534
N
3
B
B
C2
N2
DG
DG
26
26
0.088
0.010
1.341
1.429
N
4
A
A
C4
N4
DC
DC
1
1
0.095
0.009
1.335
1.430
N
4
A
A
C6
N6
DA
DA
2
2
0.089
0.008
1.335
1.424
N
4
A
A
C4
N4
DC
DC
3
3
0.095
0.009
1.335
1.430
N
4
A
A
C6
N6
DA
DA
4
4
0.097
0.008
1.335
1.432
N
4
A
A
C6
N6
DA
DA
5
5
0.095
0.008
1.335
1.430
N
4
A
A
C6
N6
DA
DA
6
6
0.094
0.008
1.335
1.429
N
4
A
A
C4
N4
DC
DC
7
7
0.093
0.009
1.335
1.428
N
4
A
A
C6
N6
DA
DA
8
8
0.096
0.008
1.335
1.431
N
4
A
A
C2
N2
DG
DG
10
10
0.084
0.010
1.341
1.425
N
4
A
A
C4
N4
DC
DC
11
11
0.096
0.009
1.335
1.431
N
4
A
A
C6
N6
DA
DA
12
12
0.097
0.008
1.335
1.432
N
4
A
A
C4
N4
DC
DC
13
13
0.093
0.009
1.335
1.428
N
4
B
B
C2
N2
DG
DG
14
14
0.079
0.010
1.341
1.420
N
4
B
B
C2
N2
DG
DG
16
16
0.084
0.010
1.341
1.425
N
4
B
B
C4
N4
DC
DC
17
17
0.092
0.009
1.335
1.427
N
4
B
B
C2
N2
DG
DG
20
20
0.081
0.010
1.341
1.422
N
4
B
B
C5
C7
DT
DT
21
21
0.042
0.006
1.496
1.538
N
4
B
B
C5
C7
DT
DT
22
22
0.038
0.006
1.496
1.534
N
4
B
B
C2
N2
DG
DG
24
24
0.086
0.010
1.341
1.427
N
4
B
B
C5
C7
DT
DT
25
25
0.038
0.006
1.496
1.534
N
4
B
B
C2
N2
DG
DG
26
26
0.086
0.010
1.341
1.427
N
5
A
A
C4
N4
DC
DC
1
1
0.097
0.009
1.335
1.432
N
5
A
A
C6
N6
DA
DA
2
2
0.089
0.008
1.335
1.424
N
5
A
A
C4
N4
DC
DC
3
3
0.094
0.009
1.335
1.429
N
5
A
A
C6
N6
DA
DA
4
4
0.098
0.008
1.335
1.433
N
5
A
A
C6
N6
DA
DA
5
5
0.097
0.008
1.335
1.432
N
5
A
A
C6
N6
DA
DA
6
6
0.094
0.008
1.335
1.429
N
5
A
A
C4
N4
DC
DC
7
7
0.094
0.009
1.335
1.429
N
5
A
A
C6
N6
DA
DA
8
8
0.095
0.008
1.335
1.430
N
5
A
A
C2
N2
DG
DG
10
10
0.083
0.010
1.341
1.424
N
5
A
A
C4
N4
DC
DC
11
11
0.094
0.009
1.335
1.429
N
5
A
A
C6
N6
DA
DA
12
12
0.093
0.008
1.335
1.428
N
5
A
A
C4
N4
DC
DC
13
13
0.094
0.009
1.335
1.429
N
5
B
B
C2
N2
DG
DG
14
14
0.079
0.010
1.341
1.420
N
5
B
B
C2
N2
DG
DG
16
16
0.084
0.010
1.341
1.425
N
5
B
B
C4
N4
DC
DC
17
17
0.094
0.009
1.335
1.429
N
5
B
B
C5
C7
DT
DT
19
19
0.036
0.006
1.496
1.532
N
5
B
B
C2
N2
DG
DG
20
20
0.080
0.010
1.341
1.421
N
5
B
B
C5
C7
DT
DT
22
22
0.041
0.006
1.496
1.537
N
5
B
B
C2
N2
DG
DG
24
24
0.085
0.010
1.341
1.426
N
5
B
B
C2
N2
DG
DG
26
26
0.087
0.010
1.341
1.428
N
6
A
A
C4
N4
DC
DC
1
1
0.097
0.009
1.335
1.432
N
6
A
A
C6
N6
DA
DA
2
2
0.087
0.008
1.335
1.422
N
6
A
A
C4
N4
DC
DC
3
3
0.096
0.009
1.335
1.431
N
6
A
A
C6
N6
DA
DA
4
4
0.098
0.008
1.335
1.433
N
6
A
A
C6
N6
DA
DA
5
5
0.096
0.008
1.335
1.431
N
6
A
A
C6
N6
DA
DA
6
6
0.094
0.008
1.335
1.429
N
6
A
A
C4
N4
DC
DC
7
7
0.093
0.009
1.335
1.428
N
6
A
A
C6
N6
DA
DA
8
8
0.097
0.008
1.335
1.432
N
6
A
A
C2
N2
DG
DG
10
10
0.085
0.010
1.341
1.426
N
6
A
A
C4
N4
DC
DC
11
11
0.096
0.009
1.335
1.431
N
6
A
A
C6
N6
DA
DA
12
12
0.094
0.008
1.335
1.429
N
6
A
A
C4
N4
DC
DC
13
13
0.092
0.009
1.335
1.427
N
6
B
B
C2
N2
DG
DG
14
14
0.080
0.010
1.341
1.421
N
6
B
B
C5
C7
DT
DT
15
15
0.037
0.006
1.496
1.533
N
6
B
B
C2
N2
DG
DG
16
16
0.085
0.010
1.341
1.426
N
6
B
B
C4
N4
DC
DC
17
17
0.093
0.009
1.335
1.428
N
6
B
B
C2
N2
DG
DG
20
20
0.085
0.010
1.341
1.426
N
6
B
B
C5
C7
DT
DT
21
21
0.037
0.006
1.496
1.533
N
6
B
B
C5
C7
DT
DT
22
22
0.041
0.006
1.496
1.537
N
6
B
B
C2
N2
DG
DG
24
24
0.086
0.010
1.341
1.427
N
6
B
B
C5
C7
DT
DT
25
25
0.038
0.006
1.496
1.534
N
6
B
B
C2
N2
DG
DG
26
26
0.083
0.010
1.341
1.424
N
DNA WITH PYRENE PAIRED AT ABASIC SITES
1
N
N
2
N
N
covale
1.619
one
A
DA
8
A
O3'
DA
8
1_555
A
PYP
9
A
P
PYP
9
1_555
covale
1.618
one
A
PYP
9
A
O3'
PYP
9
1_555
A
DG
10
A
P
DG
10
1_555
covale
1.621
both
B
DC
17
B
O3'
DC
4
1_555
B
3DR
18
B
P
3DR
5
1_555
covale
1.618
both
B
3DR
18
B
O3'
3DR
5
1_555
B
DT
19
B
P
DT
6
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
26
B
N1
DG
13
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
26
B
O6
DG
13
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
26
B
N2
DG
13
1_555
hydrog
WATSON-CRICK
A
DA
2
A
N1
DA
2
1_555
B
DT
25
B
N3
DT
12
1_555
hydrog
WATSON-CRICK
A
DA
2
A
N6
DA
2
1_555
B
DT
25
B
O4
DT
12
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
B
DG
24
B
N1
DG
11
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
B
DG
24
B
O6
DG
11
1_555
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
B
DG
24
B
N2
DG
11
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
B
DT
23
B
N3
DT
10
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
B
DT
23
B
O4
DT
10
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
DT
22
B
N3
DT
9
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
DT
22
B
O4
DT
9
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
DT
21
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
DT
21
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
DC
7
A
N3
DC
7
1_555
B
DG
20
B
N1
DG
7
1_555
hydrog
WATSON-CRICK
A
DC
7
A
N4
DC
7
1_555
B
DG
20
B
O6
DG
7
1_555
hydrog
WATSON-CRICK
A
DC
7
A
O2
DC
7
1_555
B
DG
20
B
N2
DG
7
1_555
hydrog
WATSON-CRICK
A
DA
8
A
N1
DA
8
1_555
B
DT
19
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
A
DA
8
A
N6
DA
8
1_555
B
DT
19
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
17
B
N3
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
17
B
O2
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
17
B
N4
DC
4
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N3
DC
11
1_555
B
DG
16
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N4
DC
11
1_555
B
DG
16
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
11
A
O2
DC
11
1_555
B
DG
16
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DA
12
A
N1
DA
12
1_555
B
DT
15
B
N3
DT
2
1_555
hydrog
WATSON-CRICK
A
DA
12
A
N6
DA
12
1_555
B
DT
15
B
O4
DT
2
1_555
hydrog
WATSON-CRICK
A
DC
13
A
N3
DC
13
1_555
B
DG
14
B
N1
DG
1
1_555
hydrog
WATSON-CRICK
A
DC
13
A
N4
DC
13
1_555
B
DG
14
B
O6
DG
1
1_555
hydrog
WATSON-CRICK
A
DC
13
A
O2
DC
13
1_555
B
DG
14
B
N2
DG
1
1_555
DNA
pyrene, tetrahydrofuran, non-hydrogen bonded DNA base pair, DNA
1FZL
PDB
1
1FZL
1FZL
PDB
2
1FZL
1
13
1FZL
1
13
1FZL
A
1
1
13
14
26
1FZL
14
26
1FZL
B
2
1
13
1
P 1