1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Feng, B.
Gorin, A.A.
Hingerty, B.E.
Geacintov, N.E.
Broyde, S.
Patel, D.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C20 H16 O3
304.339
1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE
non-polymer
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
US
Biochemistry
BICHAW
0033
0006-2960
36
13769
13779
10.1021/bi970069s
9374853
Structural alignment of the (+)-trans-anti-benzo[a]pyrene-dG adduct positioned opposite dC at a DNA template-primer junction.
1997
10.2210/pdb1axo/pdb
pdb_00001axo
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
DCC10 ATOM OF BP LINKED TO N2 ATOM OF DG4
3880.552
DNA DUPLEX D(AAC-[BP]G-CTACCATCC)D(GGATGGTAGC)
1
syn
polymer
DCC10 ATOM OF BP LINKED TO N2 ATOM OF DG4
3125.052
DNA DUPLEX D(AAC-[BP]G-CTACCATCC)D(GGATGGTAGC)
1
syn
polymer
304.339
1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE
1
syn
non-polymer
no
no
(DA)(DA)(DC)(DG)(DC)(DT)(DA)(DC)(DC)(DA)(DT)(DC)(DC)
AACGCTACCATCC
A
polydeoxyribonucleotide
no
no
(DG)(DG)(DA)(DT)(DG)(DG)(DT)(DA)(DG)(DC)
GGATGGTAGC
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
-24.197
1
19
A
4
B
23
0.040
A_DG4:DC23_B
1
-19.320
-1.309
-0.638
-0.396
-11.555
1
19
A
5
B
22
-0.866
A_DC5:DG22_B
2
3.004
1.109
0.317
-0.567
16.822
1
20
A
6
B
21
3.080
A_DT6:DA21_B
3
-14.101
-0.195
-0.325
-0.105
20.739
1
20
A
7
B
20
6.293
A_DA7:DT20_B
4
-18.574
0.570
0.266
-0.057
30.600
1
19
A
8
B
19
6.601
A_DC8:DG19_B
5
-30.085
0.516
-0.728
0.006
-14.488
1
19
A
9
B
18
1.454
A_DC9:DG18_B
6
-4.333
0.789
0.002
-0.230
-0.521
1
20
A
10
B
17
3.969
A_DA10:DT17_B
7
-11.918
0.269
0.147
-0.146
15.770
1
20
A
11
B
16
2.872
A_DT11:DA16_B
8
-13.675
-0.044
-0.182
-0.118
18.645
1
19
A
12
B
15
0.812
A_DC12:DG15_B
9
-6.189
0.929
-0.694
-0.344
-4.297
1
19
A
13
B
14
-0.492
A_DC13:DG14_B
10
16.811
1.122
0.133
-0.527
2.827
45.084
A
A
4
5
3.996
B
B
23
22
2.920
3.025
0.048
0.490
AA_DG4DC5:DG22DC23_BB
1
-12.598
16.642
43.276
0.395
-1.079
2.238
20.488
A
A
5
6
8.572
B
B
22
21
2.340
3.017
0.465
-0.838
AA_DC5DT6:DA21DG22_BB
2
4.136
-11.751
19.845
-3.309
-0.001
3.494
31.184
A
A
6
7
0.106
B
B
21
20
3.445
0.057
0.990
-1.181
AA_DT6DA7:DT20DA21_BB
3
1.825
-3.396
31.132
-2.208
-1.472
2.774
39.023
A
A
7
8
-2.641
B
B
20
19
2.819
-1.754
-0.094
-0.490
AA_DA7DC8:DG19DT20_BB
4
7.288
-10.973
38.324
-0.551
0.899
4.778
43.839
A
A
8
9
3.774
B
B
19
18
4.874
2.814
-0.105
-1.351
AA_DC8DC9:DG18DG19_BB
5
-3.259
4.371
43.637
-2.205
-0.317
3.270
30.143
A
A
9
10
1.817
B
B
18
17
3.375
0.944
-0.990
-0.464
AA_DC9DA10:DT17DG18_BB
6
2.452
-4.721
30.031
-1.088
2.412
2.777
32.907
A
A
10
11
-10.342
B
B
17
16
2.874
-5.826
0.100
0.243
AA_DA10DT11:DA16DT17_BB
7
-2.059
3.655
32.338
1.295
-0.484
3.337
44.839
A
A
11
12
-0.799
B
B
16
15
3.303
-0.609
0.464
-0.408
AA_DT11DC12:DG15DA16_BB
8
4.313
-5.662
44.637
-0.479
-0.210
3.181
37.712
A
A
12
13
23.863
B
B
15
14
4.061
15.021
0.106
-1.466
AA_DC12DC13:DG14DG15_BB
9
1.475
-2.342
34.660
-4.519
0.057
database_2
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
1
0
1998-07-01
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1997-10-16
REL
REL
BAP
1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE
ALL CONFORMERS WERE INCLUDED
6
6
NOESY
COSY
TOCSY
DQF-COSY
7.0
317
K
REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE.
RELAXATION MATRIX REFINEMENT
BRUNGER
refinement
X-PLOR
3.1
structure solution
VNMR
structure solution
DUPLEX
structure solution
X-PLOR
500
Varian
VARIAN UNITY PLUS
600
Varian
VARIAN UNITY PLUS
BP
4
3
BAP
BAP
14
A
A
1
n
1
DA
1
A
A
2
n
2
DA
2
A
C
3
n
3
DC
3
A
G
4
n
4
DG
4
A
C
5
n
5
DC
5
A
T
6
n
6
DT
6
A
A
7
n
7
DA
7
A
C
8
n
8
DC
8
A
C
9
n
9
DC
9
A
A
10
n
10
DA
10
A
T
11
n
11
DT
11
A
C
12
n
12
DC
12
A
C
13
n
13
DC
13
A
G
14
n
1
DG
14
B
G
15
n
2
DG
15
B
A
16
n
3
DA
16
B
T
17
n
4
DT
17
B
G
18
n
5
DG
18
B
G
19
n
6
DG
19
B
T
20
n
7
DT
20
B
A
21
n
8
DA
21
B
G
22
n
9
DG
22
B
C
23
n
10
DC
23
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
A
A
H5'
O2'
DT
BAP
6
14
1.49
1
A
A
N2
C6
DG
BAP
4
14
2.12
2
A
A
N2
C6
DG
BAP
4
14
2.14
3
A
A
N2
C6
DG
BAP
4
14
2.17
4
A
A
N2
C6
DG
BAP
4
14
2.09
5
A
A
N2
C6
DG
BAP
4
14
2.18
6
A
A
H5'
O2'
DT
BAP
6
14
1.58
6
A
A
N2
C6
DG
BAP
4
14
2.09
1
-4.39
0.70
102.20
97.81
A
A
A
C4'
C3'
C2'
DA
DA
DA
1
1
1
N
1
-8.63
0.80
105.90
97.27
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
1
-4.87
0.70
102.20
97.33
A
A
A
C4'
C3'
C2'
DA
DA
DA
2
2
2
N
1
-6.18
0.70
108.00
101.82
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
1
12.32
1.20
115.70
128.02
A
A
A
C5'
C4'
C3'
DG
DG
DG
4
4
4
N
1
11.55
1.40
114.30
125.85
A
A
A
N9
C1'
C2'
DG
DG
DG
4
4
4
N
1
-13.38
0.70
108.00
94.62
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
4.93
0.70
119.90
124.83
A
A
A
N3
C2
N2
DG
DG
DG
4
4
4
N
1
7.89
1.30
127.00
134.89
A
A
A
C8
N9
C1'
DG
DG
DG
4
4
4
N
1
9.70
1.20
119.70
129.40
A
A
A
C3'
O3'
P
DG
DG
DC
4
4
5
Y
1
-7.57
1.00
110.10
102.53
A
A
A
C1'
O4'
C4'
DC
DC
DC
5
5
5
N
1
-5.43
0.80
105.90
100.47
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
1
5.61
0.30
108.30
113.91
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
1
10.98
1.20
115.70
126.68
A
A
A
C5'
C4'
C3'
DC
DC
DC
8
8
8
N
1
4.94
0.30
108.30
113.24
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
1
-4.53
0.70
102.20
97.67
A
A
A
C4'
C3'
C2'
DC
DC
DC
9
9
9
N
1
3.54
0.30
108.30
111.84
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
-6.47
0.80
105.90
99.43
A
A
A
O4'
C1'
C2'
DA
DA
DA
10
10
10
N
1
-4.27
0.70
108.00
103.73
A
A
A
O4'
C1'
N9
DA
DA
DA
10
10
10
N
1
-6.62
1.00
110.10
103.48
A
A
A
C1'
O4'
C4'
DT
DT
DT
11
11
11
N
1
6.18
0.30
108.30
114.48
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
1
-5.36
0.60
122.90
117.54
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
1
2.89
0.30
108.30
111.19
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
1
-5.92
0.70
102.20
96.28
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
1
4.94
0.30
108.30
113.24
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
1
2.94
0.30
108.30
111.24
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
1
-7.46
0.80
105.90
98.44
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
1
-3.78
0.60
122.90
119.12
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
1
-6.23
0.80
102.40
96.17
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
1
-6.11
0.80
102.40
96.29
B
B
B
C3'
C2'
C1'
DA
DA
DA
21
21
21
N
1
-3.24
0.40
104.50
101.26
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
1
4.95
0.30
108.30
113.25
B
B
B
O4'
C1'
N9
DG
DG
DG
22
22
22
N
1
8.13
1.20
119.70
127.83
B
B
B
C3'
O3'
P
DG
DG
DC
22
22
23
Y
1
4.24
0.60
118.90
123.14
B
B
B
N1
C2
O2
DC
DC
DC
23
23
23
N
2
-9.81
0.80
105.90
96.09
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
2
7.92
1.20
119.70
127.62
A
A
A
C3'
O3'
P
DA
DA
DA
1
1
2
Y
2
7.59
1.20
115.70
123.29
A
A
A
C5'
C4'
C3'
DA
DA
DA
2
2
2
N
2
-4.56
0.70
102.20
97.64
A
A
A
C4'
C3'
C2'
DA
DA
DA
2
2
2
N
2
-6.16
0.80
102.40
96.24
A
A
A
C3'
C2'
C1'
DC
DC
DC
3
3
3
N
2
5.75
0.30
108.30
114.05
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
2
9.03
1.20
115.70
124.73
A
A
A
C5'
C4'
C3'
DG
DG
DG
4
4
4
N
2
10.22
1.40
114.30
124.52
A
A
A
N9
C1'
C2'
DG
DG
DG
4
4
4
N
2
-3.50
0.40
106.40
102.90
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
2
4.44
0.70
119.90
124.34
A
A
A
N3
C2
N2
DG
DG
DG
4
4
4
N
2
8.88
1.20
119.70
128.58
A
A
A
C3'
O3'
P
DG
DG
DC
4
4
5
Y
2
-2.96
0.40
104.50
101.54
A
A
A
O4'
C4'
C3'
DC
DC
DC
5
5
5
N
2
-7.12
1.00
110.10
102.98
A
A
A
C1'
O4'
C4'
DC
DC
DC
5
5
5
N
2
-5.59
0.80
105.90
100.31
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
2
-4.81
0.80
105.90
101.09
A
A
A
O4'
C1'
C2'
DA
DA
DA
7
7
7
N
2
3.85
0.30
108.30
112.15
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
2
8.58
1.20
115.70
124.28
A
A
A
C5'
C4'
C3'
DC
DC
DC
8
8
8
N
2
2.60
0.30
108.30
110.90
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
2
3.79
0.60
118.90
122.69
A
A
A
N1
C2
O2
DC
DC
DC
8
8
8
N
2
11.24
1.20
119.70
130.94
A
A
A
C3'
O3'
P
DC
DC
DA
9
9
10
Y
2
-6.55
0.80
105.90
99.35
A
A
A
O4'
C1'
C2'
DA
DA
DA
10
10
10
N
2
-5.06
0.70
108.00
102.94
A
A
A
O4'
C1'
N9
DA
DA
DA
10
10
10
N
2
3.81
0.30
108.30
112.11
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
2
3.76
0.60
119.00
122.76
A
A
A
C4
C5
C7
DT
DT
DT
11
11
11
N
2
-6.79
0.60
122.90
116.11
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
2
4.26
0.60
118.90
123.16
A
A
A
N1
C2
O2
DC
DC
DC
13
13
13
N
2
-5.03
0.70
102.20
97.17
B
B
B
C4'
C3'
C2'
DG
DG
DG
14
14
14
N
2
-5.10
0.80
105.90
100.80
B
B
B
O4'
C1'
C2'
DG
DG
DG
14
14
14
N
2
9.37
1.20
119.70
129.07
B
B
B
C3'
O3'
P
DG
DG
DG
14
14
15
Y
2
-4.53
0.70
102.20
97.67
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
2
1.83
0.30
108.30
110.13
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
2
-6.65
0.80
105.90
99.25
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
2
-5.73
0.60
122.90
117.17
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
2
-6.56
0.80
102.40
95.84
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
2
-5.63
0.80
105.90
100.27
B
B
B
O4'
C1'
C2'
DG
DG
DG
18
18
18
N
2
8.79
1.20
119.70
128.49
B
B
B
C3'
O3'
P
DG
DG
DG
18
18
19
Y
2
-4.91
0.80
105.90
100.99
B
B
B
O4'
C1'
C2'
DG
DG
DG
19
19
19
N
2
-4.80
0.70
102.20
97.40
B
B
B
C4'
C3'
C2'
DT
DT
DT
20
20
20
N
2
2.88
0.30
108.30
111.18
B
B
B
O4'
C1'
N1
DT
DT
DT
20
20
20
N
2
-4.08
0.60
122.30
118.22
B
B
B
N3
C2
O2
DT
DT
DT
20
20
20
N
2
-6.97
0.70
108.00
101.03
B
B
B
O4'
C1'
N9
DA
DA
DA
21
21
21
N
2
-3.46
0.40
104.50
101.04
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
3
-7.15
0.80
105.90
98.75
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
3
8.63
1.20
119.70
128.33
A
A
A
C3'
O3'
P
DA
DA
DA
1
1
2
Y
3
8.35
1.20
115.70
124.05
A
A
A
C5'
C4'
C3'
DC
DC
DC
3
3
3
N
3
7.65
1.20
119.70
127.35
A
A
A
C3'
O3'
P
DC
DC
DG
3
3
4
Y
3
-4.01
0.40
104.50
100.49
A
A
A
O4'
C4'
C3'
DG
DG
DG
4
4
4
N
3
16.05
1.20
115.70
131.75
A
A
A
C5'
C4'
C3'
DG
DG
DG
4
4
4
N
3
-9.00
0.70
108.00
99.00
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
3
-2.43
0.40
106.40
103.97
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
3
4.82
0.70
119.90
124.72
A
A
A
N3
C2
N2
DG
DG
DG
4
4
4
N
3
9.55
1.30
127.00
136.55
A
A
A
C8
N9
C1'
DG
DG
DG
4
4
4
N
3
9.31
1.20
115.70
125.01
A
A
A
C5'
C4'
C3'
DC
DC
DC
5
5
5
N
3
-6.06
1.00
110.10
104.04
A
A
A
C1'
O4'
C4'
DC
DC
DC
5
5
5
N
3
-6.49
0.80
105.90
99.41
A
A
A
O4'
C1'
C2'
DC
DC
DC
5
5
5
N
3
-5.44
0.80
105.90
100.46
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
3
1.80
0.30
108.30
110.10
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
3
-3.62
0.60
122.90
119.28
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
3
8.94
1.20
115.70
124.64
A
A
A
C5'
C4'
C3'
DC
DC
DC
8
8
8
N
3
-4.97
0.80
102.40
97.43
A
A
A
C3'
C2'
C1'
DC
DC
DC
9
9
9
N
3
-5.11
0.80
105.90
100.79
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
3
-4.41
0.70
102.20
97.79
A
A
A
C4'
C3'
C2'
DA
DA
DA
10
10
10
N
3
-4.98
0.80
105.90
100.92
A
A
A
O4'
C1'
C2'
DA
DA
DA
10
10
10
N
3
3.09
0.30
108.30
111.39
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
3
-4.29
0.60
122.90
118.61
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
3
-4.92
0.80
105.90
100.98
B
B
B
O4'
C1'
C2'
DG
DG
DG
14
14
14
N
3
2.70
0.30
108.30
111.00
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
3
-5.57
0.70
102.20
96.63
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
3
4.57
0.30
108.30
112.87
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
3
2.36
0.30
108.30
110.66
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
3
-5.12
0.80
105.90
100.78
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
3
-4.72
0.60
122.90
118.18
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
3
-5.37
0.80
102.40
97.03
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
3
4.63
0.30
108.30
112.93
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
3
3.02
0.30
108.30
111.32
B
B
B
O4'
C1'
N1
DT
DT
DT
20
20
20
N
3
-3.09
0.40
104.50
101.41
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
3
3.78
0.60
118.90
122.68
B
B
B
N1
C2
O2
DC
DC
DC
23
23
23
N
4
-6.78
0.80
105.90
99.12
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
4
-4.84
0.70
102.20
97.36
A
A
A
C4'
C3'
C2'
DA
DA
DA
2
2
2
N
4
-8.46
0.70
108.00
99.54
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
4
2.80
0.30
108.30
111.10
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
4
-4.22
0.70
102.20
97.98
A
A
A
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
4
-4.80
0.80
105.90
101.10
A
A
A
O4'
C1'
C2'
DG
DG
DG
4
4
4
N
4
9.56
1.40
114.30
123.86
A
A
A
N9
C1'
C2'
DG
DG
DG
4
4
4
N
4
-9.19
0.70
108.00
98.81
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
4
-2.91
0.40
106.40
103.49
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
4
-6.07
0.90
116.20
110.13
A
A
A
N1
C2
N2
DG
DG
DG
4
4
4
N
4
4.56
0.70
119.90
124.46
A
A
A
N3
C2
N2
DG
DG
DG
4
4
4
N
4
7.96
1.30
127.00
134.96
A
A
A
C8
N9
C1'
DG
DG
DG
4
4
4
N
4
-7.67
0.80
105.90
98.23
A
A
A
O4'
C1'
C2'
DC
DC
DC
5
5
5
N
4
-7.15
0.80
105.90
98.75
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
4
-3.67
0.60
122.30
118.63
A
A
A
N3
C2
O2
DT
DT
DT
6
6
6
N
4
-5.54
0.80
105.90
100.36
A
A
A
O4'
C1'
C2'
DA
DA
DA
7
7
7
N
4
2.52
0.30
108.30
110.82
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
4
-6.46
0.80
105.90
99.44
A
A
A
O4'
C1'
C2'
DC
DC
DC
8
8
8
N
4
2.34
0.30
108.30
110.64
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
4
-6.29
0.80
105.90
99.61
A
A
A
O4'
C1'
C2'
DA
DA
DA
10
10
10
N
4
4.07
0.30
108.30
112.37
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
4
-6.37
0.60
122.90
116.53
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
4
-4.21
0.70
108.00
103.79
A
A
A
O4'
C1'
N1
DC
DC
DC
13
13
13
N
4
-5.23
0.80
102.40
97.17
B
B
B
C3'
C2'
C1'
DG
DG
DG
14
14
14
N
4
-4.91
0.80
105.90
100.99
B
B
B
O4'
C1'
C2'
DG
DG
DG
14
14
14
N
4
2.71
0.30
108.30
111.01
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
4
-4.42
0.70
102.20
97.78
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
4
-4.94
0.60
122.90
117.96
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
4
-5.41
0.80
102.40
96.99
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
4
-5.74
0.80
105.90
100.16
B
B
B
O4'
C1'
C2'
DG
DG
DG
18
18
18
N
4
3.40
0.30
108.30
111.70
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
4
-3.76
0.60
122.90
119.14
B
B
B
C6
C5
C7
DT
DT
DT
20
20
20
N
4
-5.63
0.80
105.90
100.27
B
B
B
O4'
C1'
C2'
DA
DA
DA
21
21
21
N
4
-4.86
0.70
108.00
103.14
B
B
B
O4'
C1'
N9
DG
DG
DG
22
22
22
N
4
3.71
0.60
118.90
122.61
B
B
B
N1
C2
O2
DC
DC
DC
23
23
23
N
5
9.10
1.20
115.70
124.80
A
A
A
C5'
C4'
C3'
DA
DA
DA
1
1
1
N
5
-6.26
0.80
105.90
99.64
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
5
7.85
1.20
115.70
123.55
A
A
A
C5'
C4'
C3'
DA
DA
DA
2
2
2
N
5
-4.96
0.70
102.20
97.24
A
A
A
C4'
C3'
C2'
DA
DA
DA
2
2
2
N
5
8.29
1.20
115.70
123.99
A
A
A
C5'
C4'
C3'
DG
DG
DG
4
4
4
N
5
10.65
1.40
114.30
124.95
A
A
A
N9
C1'
C2'
DG
DG
DG
4
4
4
N
5
-9.97
0.70
108.00
98.03
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
5
-2.55
0.40
106.40
103.85
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
5
-5.66
0.90
116.20
110.54
A
A
A
N1
C2
N2
DG
DG
DG
4
4
4
N
5
5.60
0.70
119.90
125.50
A
A
A
N3
C2
N2
DG
DG
DG
4
4
4
N
5
-5.55
0.80
105.90
100.35
A
A
A
O4'
C1'
C2'
DC
DC
DC
5
5
5
N
5
7.54
1.20
115.70
123.24
A
A
A
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
5
-4.92
0.70
108.00
103.08
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
5
11.06
1.20
115.70
126.76
A
A
A
C5'
C4'
C3'
DC
DC
DC
8
8
8
N
5
2.93
0.30
108.30
111.23
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
5
-4.24
0.70
102.20
97.96
A
A
A
C4'
C3'
C2'
DC
DC
DC
9
9
9
N
5
4.05
0.30
108.30
112.35
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
5
-5.85
0.80
105.90
100.05
A
A
A
O4'
C1'
C2'
DA
DA
DA
10
10
10
N
5
-7.42
0.70
108.00
100.58
A
A
A
O4'
C1'
N9
DA
DA
DA
10
10
10
N
5
-7.53
1.00
110.10
102.57
A
A
A
C1'
O4'
C4'
DT
DT
DT
11
11
11
N
5
3.61
0.30
108.30
111.91
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
5
4.27
0.60
119.00
123.27
A
A
A
C4
C5
C7
DT
DT
DT
11
11
11
N
5
-6.89
0.60
122.90
116.01
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
5
-5.11
0.70
102.20
97.09
B
B
B
C4'
C3'
C2'
DG
DG
DG
14
14
14
N
5
-4.76
0.70
102.20
97.44
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
5
-5.81
0.80
105.90
100.09
B
B
B
O4'
C1'
C2'
DG
DG
DG
18
18
18
N
5
3.43
0.30
108.30
111.73
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
5
9.17
1.20
119.70
128.87
B
B
B
C3'
O3'
P
DG
DG
DG
18
18
19
Y
5
-4.35
0.70
108.00
103.65
B
B
B
O4'
C1'
N1
DT
DT
DT
20
20
20
N
5
-6.26
0.70
108.00
101.74
B
B
B
O4'
C1'
N9
DA
DA
DA
21
21
21
N
5
-3.47
0.40
104.50
101.03
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
5
4.91
0.30
108.30
113.21
B
B
B
O4'
C1'
N9
DG
DG
DG
22
22
22
N
6
-5.87
0.80
105.90
100.03
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
6
9.30
1.20
119.70
129.00
A
A
A
C3'
O3'
P
DA
DA
DA
1
1
2
Y
6
10.73
1.60
120.90
131.63
A
A
A
P
O5'
C5'
DA
DA
DA
2
2
2
N
6
14.43
1.20
115.70
130.13
A
A
A
C5'
C4'
C3'
DG
DG
DG
4
4
4
N
6
8.47
1.40
114.30
122.77
A
A
A
N9
C1'
C2'
DG
DG
DG
4
4
4
N
6
-7.72
0.70
108.00
100.28
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
6
-3.41
0.40
106.40
102.99
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
6
4.46
0.70
119.90
124.36
A
A
A
N3
C2
N2
DG
DG
DG
4
4
4
N
6
8.75
1.30
127.00
135.75
A
A
A
C8
N9
C1'
DG
DG
DG
4
4
4
N
6
11.44
1.20
119.70
131.14
A
A
A
C3'
O3'
P
DG
DG
DC
4
4
5
Y
6
-3.46
0.40
104.50
101.04
A
A
A
O4'
C4'
C3'
DC
DC
DC
5
5
5
N
6
-6.54
1.00
110.10
103.56
A
A
A
C1'
O4'
C4'
DC
DC
DC
5
5
5
N
6
-6.55
0.80
105.90
99.35
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
6
4.38
0.30
108.30
112.68
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
6
9.18
1.20
115.70
124.88
A
A
A
C5'
C4'
C3'
DC
DC
DC
8
8
8
N
6
-5.43
0.80
102.40
96.97
A
A
A
C3'
C2'
C1'
DC
DC
DC
9
9
9
N
6
-7.70
0.80
105.90
98.20
A
A
A
O4'
C1'
C2'
DA
DA
DA
10
10
10
N
6
-5.13
0.80
105.90
100.77
A
A
A
O4'
C1'
C2'
DT
DT
DT
11
11
11
N
6
3.25
0.30
108.30
111.55
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
6
-6.28
0.60
122.90
116.62
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
6
7.35
1.20
119.70
127.05
B
B
B
C3'
O3'
P
DG
DG
DG
14
14
15
Y
6
-4.50
0.70
102.20
97.70
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
6
1.96
0.30
108.30
110.26
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
6
-5.74
0.80
105.90
100.16
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
6
-5.19
0.60
122.90
117.71
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
6
-5.20
0.80
102.40
97.20
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
6
-6.23
0.80
105.90
99.67
B
B
B
O4'
C1'
C2'
DG
DG
DG
18
18
18
N
6
-5.93
0.70
108.00
102.07
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
6
-5.18
0.80
105.90
100.72
B
B
B
O4'
C1'
C2'
DG
DG
DG
19
19
19
N
6
1.94
0.30
108.30
110.24
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
6
-4.43
0.70
102.20
97.77
B
B
B
C4'
C3'
C2'
DT
DT
DT
20
20
20
N
6
-4.22
0.70
102.20
97.98
B
B
B
C4'
C3'
C2'
DA
DA
DA
21
21
21
N
6
2.28
0.30
108.30
110.58
B
B
B
O4'
C1'
N1
DC
DC
DC
23
23
23
N
1
A
A
C5'
C4'
DG
DG
4
4
0.046
0.007
1.512
1.558
N
1
A
A
C8
N9
DG
DG
4
4
0.067
0.007
1.374
1.441
N
1
B
B
C5
C7
DT
DT
20
20
0.038
0.006
1.496
1.534
N
2
A
A
C2'
C1'
DG
DG
4
4
0.073
0.010
1.519
1.592
N
2
A
A
C8
N9
DG
DG
4
4
0.064
0.007
1.374
1.438
N
2
A
A
C5
C7
DT
DT
6
6
0.045
0.006
1.496
1.541
N
2
A
A
C5'
C4'
DC
DC
8
8
0.046
0.007
1.512
1.558
N
2
A
A
N1
C6
DC
DC
13
13
-0.037
0.006
1.367
1.330
N
2
B
B
C5
C7
DT
DT
20
20
0.046
0.006
1.496
1.542
N
3
A
A
P
O5'
DG
DG
4
4
0.067
0.010
1.593
1.660
N
3
A
A
C5'
C4'
DG
DG
4
4
0.058
0.007
1.512
1.570
N
3
A
A
C8
N9
DG
DG
4
4
0.075
0.007
1.374
1.449
N
3
A
A
C5
C7
DT
DT
6
6
0.038
0.006
1.496
1.534
N
3
A
A
C5'
C4'
DC
DC
8
8
0.057
0.007
1.512
1.569
N
3
B
B
C5
C7
DT
DT
17
17
0.040
0.006
1.496
1.536
N
3
B
B
C5
C7
DT
DT
20
20
0.048
0.006
1.496
1.544
N
4
A
A
C5'
C4'
DG
DG
4
4
0.048
0.007
1.512
1.560
N
4
A
A
C8
N9
DG
DG
4
4
0.067
0.007
1.374
1.441
N
4
A
A
C5
C7
DT
DT
6
6
0.038
0.006
1.496
1.534
N
4
B
B
C5
C7
DT
DT
17
17
0.052
0.006
1.496
1.548
N
4
B
B
C5
C7
DT
DT
20
20
0.036
0.006
1.496
1.532
N
5
A
A
C5'
C4'
DG
DG
4
4
0.060
0.007
1.512
1.572
N
5
A
A
C8
N9
DG
DG
4
4
0.063
0.007
1.374
1.437
N
5
A
A
C5
C7
DT
DT
6
6
0.054
0.006
1.496
1.550
N
5
A
A
C5'
C4'
DC
DC
8
8
0.045
0.007
1.512
1.557
N
5
B
B
C5
C7
DT
DT
17
17
0.062
0.006
1.496
1.558
N
5
B
B
C5
C7
DT
DT
20
20
0.037
0.006
1.496
1.533
N
6
A
A
P
O5'
DG
DG
4
4
0.068
0.010
1.593
1.661
N
6
A
A
C5'
C4'
DG
DG
4
4
0.060
0.007
1.512
1.572
N
6
A
A
C2'
C1'
DG
DG
4
4
0.064
0.010
1.519
1.583
N
6
A
A
C8
N9
DG
DG
4
4
0.079
0.007
1.374
1.453
N
6
A
A
C5
C7
DT
DT
6
6
0.043
0.006
1.496
1.539
N
6
A
A
C5'
C4'
DC
DC
8
8
0.050
0.007
1.512
1.562
N
6
B
B
C5
C7
DT
DT
17
17
0.043
0.006
1.496
1.539
N
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
phasing
X-PLOR
3.1
STRUCTURAL ALIGNMENT OF THE (+)-TRANS-ANTI-[BP]DG ADDUCT POSITIONED OPPOSITE DC AT A DNA TEMPLATE-PRIMER JUNCTION, NMR, 6 STRUCTURES
1
N
N
2
N
N
3
N
N
covale
1.501
none
A
DG
4
A
N2
DG
4
1_555
A
BAP
14
C
C4'
BAP
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
23
B
N3
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
23
B
O2
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
23
B
N4
DC
10
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
22
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
22
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
22
B
N2
DG
9
1_555
hydrog
WATSON-CRICK
A
DT
6
A
N3
DT
6
1_555
B
DA
21
B
N1
DA
8
1_555
hydrog
WATSON-CRICK
A
DT
6
A
O4
DT
6
1_555
B
DA
21
B
N6
DA
8
1_555
hydrog
DT-DG MISPAIR
A
DT
6
A
O2
DT
6
1_555
B
DG
22
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N1
DA
7
1_555
B
DT
20
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N6
DA
7
1_555
B
DT
20
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
A
DC
8
A
N3
DC
8
1_555
B
DG
19
B
N1
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
8
A
N4
DC
8
1_555
B
DG
19
B
O6
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
8
A
O2
DC
8
1_555
B
DG
19
B
N2
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N3
DC
9
1_555
B
DG
18
B
N1
DG
5
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N4
DC
9
1_555
B
DG
18
B
O6
DG
5
1_555
hydrog
WATSON-CRICK
A
DC
9
A
O2
DC
9
1_555
B
DG
18
B
N2
DG
5
1_555
hydrog
WATSON-CRICK
A
DA
10
A
N1
DA
10
1_555
B
DT
17
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
10
A
N6
DA
10
1_555
B
DT
17
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
DT
11
A
N3
DT
11
1_555
B
DA
16
B
N1
DA
3
1_555
hydrog
WATSON-CRICK
A
DT
11
A
O4
DT
11
1_555
B
DA
16
B
N6
DA
3
1_555
hydrog
WATSON-CRICK
A
DC
12
A
N3
DC
12
1_555
B
DG
15
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
12
A
N4
DC
12
1_555
B
DG
15
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
12
A
O2
DC
12
1_555
B
DG
15
B
N2
DG
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
DEOXYRIBONUCLEIC ACID, DNA, BENZO[A]PYRENE, CARCINOGEN
1AXO
PDB
1
1AXO
1AXO
PDB
2
1AXO
1
13
1AXO
1
13
1AXO
A
1
1
13
14
23
1AXO
14
23
1AXO
B
2
1
10
BINDING SITE FOR RESIDUE BAP A 14
A
BAP
14
Software
6
A
DC
3
A
DC
3
6
1_555
A
DG
4
A
DG
4
6
1_555
A
DC
5
A
DC
5
6
1_555
A
DT
6
A
DT
6
6
1_555
B
DG
22
B
DG
9
6
1_555
B
DC
23
B
DC
10
6
1_555
1
P 1