1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Mao, B.
Gu, Z.
Gorin, A.A.
Hingerty, B.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
C13 H11 N
181.233
2-AMINOFLUORENE
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
14491
14501
10.1021/bi972206r
9398168
Solution structure of the aminofluorene-stacked conformer of the syn [AF]-C8-dG adduct positioned at a template-primer junction.
1997
10.2210/pdb1ax7/pdb
pdb_00001ax7
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
N ATOM OF AF-GROUP LINKED TO C8 ATOM OF DG4
3880.552
DNA DUPLEX D(AAC-[AF]G-CTACCATCC)D(GGATGGTAG)
1
syn
polymer
N ATOM OF AF-GROUP LINKED TO C8 ATOM OF DG4
2835.871
DNA DUPLEX D(AAC-[AF]G-CTACCATCC)D(GGATGGTAG)
1
syn
polymer
181.233
2-AMINOFLUORENE
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)
GGATGGTAG
B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
-6.034
1
19
A
5
B
22
11.090
A_DC5:DG22_B
1
-11.288
1.475
-0.419
-0.465
7.724
1
20
A
6
B
21
-3.534
A_DT6:DA21_B
2
-9.694
-0.521
-0.166
-0.130
22.096
1
20
A
7
B
20
0.664
A_DA7:DT20_B
3
-14.887
0.470
0.557
-0.105
20.164
1
19
A
8
B
19
1.712
A_DC8:DG19_B
4
-16.795
0.862
-0.577
-0.192
-14.842
1
19
A
9
B
18
0.945
A_DC9:DG18_B
5
-6.351
0.863
0.287
-0.358
4.896
1
20
A
10
B
17
1.545
A_DA10:DT17_B
6
-6.549
0.488
0.298
-0.192
13.716
1
20
A
11
B
16
3.980
A_DT11:DA16_B
7
-6.245
0.376
0.192
-0.175
21.830
1
19
A
12
B
15
-1.520
A_DC12:DG15_B
8
-10.623
1.260
0.002
-0.485
3.612
1
19
A
13
B
14
0.512
A_DC13:DG14_B
9
5.562
0.766
0.291
-0.280
3.263
19.185
A
A
5
6
4.388
B
B
22
21
3.227
1.460
-0.818
0.054
AA_DC5DT6:DA21DG22_BB
1
-1.092
3.281
19.099
-0.575
1.906
2.774
40.759
A
A
6
7
16.358
B
B
21
20
3.013
11.202
-0.038
-0.354
AA_DT6DA7:DT20DA21_BB
2
-7.103
10.372
38.628
-1.635
-0.660
3.213
45.642
A
A
7
8
-0.533
B
B
20
19
3.177
-0.411
0.475
-0.255
AA_DA7DC8:DG19DT20_BB
3
8.524
-11.047
44.879
-0.293
0.123
4.556
36.589
A
A
8
9
-8.335
B
B
19
18
4.379
-5.216
0.757
-1.668
AA_DC8DC9:DG18DG19_BB
4
-0.562
0.898
36.223
-1.671
-1.312
2.470
29.111
A
A
9
10
8.168
B
B
18
17
2.596
4.092
-0.689
-0.788
AA_DC9DA10:DT17DG18_BB
5
-0.343
0.684
28.826
-2.265
1.313
2.901
30.734
A
A
10
11
3.082
B
B
17
16
2.918
1.632
-0.500
-0.603
AA_DA10DT11:DA16DT17_BB
6
-1.293
2.441
30.665
-1.422
0.718
2.953
43.346
A
A
11
12
5.597
B
B
16
15
2.983
4.125
0.123
-0.214
AA_DT11DC12:DG15DA16_BB
7
2.973
-4.033
43.061
-0.656
0.097
3.736
42.801
A
A
12
13
9.190
B
B
15
14
3.835
6.682
0.125
-0.367
AA_DC12DC13:DG14DG15_BB
8
-0.540
0.743
42.297
-1.280
-0.234
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
1997-10-30
REL
REL
AF
2-AMINOFLUORENE
ALL CONFORMERS PRESENTED
6
6
NOESY
COSY
TOCSY
7.0
322
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
AF
23
3
AF
AF
23
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
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
6
A
A
O3'
H6
DA
DC
2
3
1.59
1
-4.03
0.40
104.50
100.47
A
A
A
O4'
C4'
C3'
DA
DA
DA
2
2
2
N
1
17.27
2.00
112.30
129.57
A
A
A
C4'
C3'
O3'
DA
DA
DA
2
2
2
N
1
-4.68
0.70
102.20
97.52
A
A
A
C4'
C3'
C2'
DA
DA
DA
2
2
2
N
1
-4.84
0.80
105.90
101.06
A
A
A
O4'
C1'
C2'
DA
DA
DA
2
2
2
N
1
12.26
0.30
108.30
120.56
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
1
-6.20
0.80
105.90
99.70
A
A
A
O4'
C1'
C2'
DC
DC
DC
3
3
3
N
1
2.74
0.30
108.30
111.04
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
3.63
0.50
113.10
116.73
A
A
A
N7
C8
N9
DG
DG
DG
4
4
4
N
1
5.22
0.70
120.20
125.42
A
A
A
C5
C4
N4
DC
DC
DC
5
5
5
N
1
-7.53
0.80
105.90
98.37
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
1
-5.77
0.70
102.20
96.43
A
A
A
C4'
C3'
C2'
DC
DC
DC
8
8
8
N
1
-9.03
0.80
105.90
96.87
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
1
-5.16
0.80
102.40
97.24
A
A
A
C3'
C2'
C1'
DA
DA
DA
10
10
10
N
1
-4.91
0.70
108.00
103.09
A
A
A
O4'
C1'
N9
DA
DA
DA
10
10
10
N
1
-6.86
1.00
110.10
103.24
A
A
A
C1'
O4'
C4'
DT
DT
DT
11
11
11
N
1
2.46
0.30
108.30
110.76
A
A
A
O4'
C1'
N1
DC
DC
DC
12
12
12
N
1
3.76
0.60
118.90
122.66
A
A
A
N1
C2
O2
DC
DC
DC
12
12
12
N
1
-5.18
0.80
102.40
97.22
B
B
B
C3'
C2'
C1'
DG
DG
DG
15
15
15
N
1
3.99
0.30
108.30
112.29
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
1
-4.87
0.80
105.90
101.03
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
1
-7.12
0.80
102.40
95.28
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
1
3.31
0.30
108.30
111.61
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
1
4.46
0.30
108.30
112.76
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
1
3.96
0.30
108.30
112.26
B
B
B
O4'
C1'
N1
DT
DT
DT
20
20
20
N
1
-4.38
0.70
108.00
103.62
B
B
B
O4'
C1'
N9
DA
DA
DA
21
21
21
N
1
2.64
0.40
105.40
108.04
B
B
B
N9
C4
C5
DG
DG
DG
22
22
22
N
2
-5.75
0.70
102.20
96.45
A
A
A
C4'
C3'
C2'
DA
DA
DA
1
1
1
N
2
-2.55
0.40
104.50
101.95
A
A
A
O4'
C4'
C3'
DA
DA
DA
2
2
2
N
2
14.14
2.00
112.30
126.44
A
A
A
C4'
C3'
O3'
DA
DA
DA
2
2
2
N
2
7.32
0.30
108.30
115.62
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
2
2.49
0.40
105.80
108.29
A
A
A
N9
C4
C5
DA
DA
DA
2
2
2
N
2
-5.56
0.80
105.90
100.34
A
A
A
O4'
C1'
C2'
DC
DC
DC
3
3
3
N
2
2.87
0.30
108.30
111.17
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
2
-4.99
0.70
102.20
97.21
A
A
A
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
2
3.38
0.50
113.10
116.48
A
A
A
N7
C8
N9
DG
DG
DG
4
4
4
N
2
9.55
1.20
119.70
129.25
A
A
A
C3'
O3'
P
DG
DG
DC
4
4
5
Y
2
-4.47
0.70
102.20
97.73
A
A
A
C4'
C3'
C2'
DC
DC
DC
5
5
5
N
2
4.80
0.30
108.30
113.10
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
2
5.50
0.70
120.20
125.70
A
A
A
C5
C4
N4
DC
DC
DC
5
5
5
N
2
-5.14
0.70
108.00
102.86
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
2
-6.64
0.80
105.90
99.26
A
A
A
O4'
C1'
C2'
DA
DA
DA
7
7
7
N
2
-5.32
0.70
102.20
96.88
A
A
A
C4'
C3'
C2'
DC
DC
DC
8
8
8
N
2
-7.67
0.80
105.90
98.23
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
2
3.82
0.60
118.90
122.72
A
A
A
N1
C2
O2
DC
DC
DC
9
9
9
N
2
-8.10
1.00
110.10
102.00
A
A
A
C1'
O4'
C4'
DT
DT
DT
11
11
11
N
2
-4.95
0.60
122.90
117.95
A
A
A
C6
C5
C7
DT
DT
DT
11
11
11
N
2
7.83
1.20
115.70
123.53
A
A
A
C5'
C4'
C3'
DC
DC
DC
12
12
12
N
2
-5.53
0.70
102.20
96.67
A
A
A
C4'
C3'
C2'
DC
DC
DC
12
12
12
N
2
2.06
0.30
108.30
110.36
A
A
A
O4'
C1'
N1
DC
DC
DC
12
12
12
N
2
-4.47
0.70
108.00
103.53
A
A
A
O4'
C1'
N1
DC
DC
DC
13
13
13
N
2
-6.16
0.80
102.40
96.24
B
B
B
C3'
C2'
C1'
DG
DG
DG
15
15
15
N
2
-6.03
1.00
110.10
104.07
B
B
B
C1'
O4'
C4'
DT
DT
DT
17
17
17
N
2
-5.26
0.80
102.40
97.14
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
2
-5.98
0.80
105.90
99.92
B
B
B
O4'
C1'
C2'
DG
DG
DG
18
18
18
N
2
-5.75
0.80
105.90
100.15
B
B
B
O4'
C1'
C2'
DT
DT
DT
20
20
20
N
2
-4.16
0.60
122.90
118.74
B
B
B
C6
C5
C7
DT
DT
DT
20
20
20
N
2
-3.56
0.40
104.50
100.94
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
2
2.09
0.30
108.30
110.39
B
B
B
O4'
C1'
N9
DG
DG
DG
22
22
22
N
2
3.10
0.40
105.40
108.50
B
B
B
N9
C4
C5
DG
DG
DG
22
22
22
N
2
-4.24
0.60
126.00
121.76
B
B
B
N3
C4
N9
DG
DG
DG
22
22
22
N
3
-4.76
0.70
102.20
97.44
A
A
A
C4'
C3'
C2'
DA
DA
DA
1
1
1
N
3
16.08
2.00
112.30
128.38
A
A
A
C4'
C3'
O3'
DA
DA
DA
2
2
2
N
3
7.29
0.30
108.30
115.59
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
3
-6.33
0.80
105.90
99.57
A
A
A
O4'
C1'
C2'
DC
DC
DC
3
3
3
N
3
3.45
0.30
108.30
111.75
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
3
-5.12
0.70
102.20
97.08
A
A
A
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
3
3.61
0.30
108.30
111.91
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
3
4.01
0.50
113.10
117.11
A
A
A
N7
C8
N9
DG
DG
DG
4
4
4
N
3
-2.40
0.40
106.40
104.00
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
3
2.04
0.30
108.30
110.34
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
3
-6.12
0.70
118.00
111.88
A
A
A
N3
C4
N4
DC
DC
DC
5
5
5
N
3
6.58
0.70
120.20
126.78
A
A
A
C5
C4
N4
DC
DC
DC
5
5
5
N
3
-6.04
0.80
105.90
99.86
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
3
2.50
0.30
108.30
110.80
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
3
10.65
1.20
115.70
126.35
A
A
A
C5'
C4'
C3'
DC
DC
DC
8
8
8
N
3
-4.79
0.70
108.00
103.21
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
3
-6.49
0.80
105.90
99.41
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
3
-6.84
1.00
110.10
103.26
A
A
A
C1'
O4'
C4'
DT
DT
DT
11
11
11
N
3
-4.93
0.70
108.00
103.07
A
A
A
O4'
C1'
N1
DC
DC
DC
12
12
12
N
3
3.79
0.60
118.90
122.69
A
A
A
N1
C2
O2
DC
DC
DC
13
13
13
N
3
-4.32
0.70
102.20
97.88
B
B
B
C4'
C3'
C2'
DG
DG
DG
15
15
15
N
3
3.18
0.30
108.30
111.48
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
3
-4.81
0.80
105.90
101.09
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
3
-6.00
0.80
102.40
96.40
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
3
6.47
0.30
108.30
114.77
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
3
3.52
0.30
108.30
111.82
B
B
B
O4'
C1'
N1
DT
DT
DT
20
20
20
N
3
-5.83
0.80
105.90
100.07
B
B
B
O4'
C1'
C2'
DA
DA
DA
21
21
21
N
3
2.72
0.30
108.30
111.02
B
B
B
O4'
C1'
N9
DA
DA
DA
21
21
21
N
3
2.45
0.40
105.40
107.85
B
B
B
N9
C4
C5
DG
DG
DG
22
22
22
N
4
6.92
0.30
108.30
115.22
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
4
3.13
0.40
105.80
108.93
A
A
A
N9
C4
C5
DA
DA
DA
2
2
2
N
4
-4.94
0.80
127.40
122.46
A
A
A
N3
C4
N9
DA
DA
DA
2
2
2
N
4
4.41
0.30
108.30
112.71
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
4
3.06
0.30
108.30
111.36
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
4
10.27
1.20
119.70
129.97
A
A
A
C3'
O3'
P
DG
DG
DC
4
4
5
Y
4
-2.97
0.40
104.50
101.53
A
A
A
O4'
C4'
C3'
DC
DC
DC
5
5
5
N
4
3.13
0.30
108.30
111.43
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
4
-5.88
0.70
118.00
112.12
A
A
A
N3
C4
N4
DC
DC
DC
5
5
5
N
4
6.88
0.70
120.20
127.08
A
A
A
C5
C4
N4
DC
DC
DC
5
5
5
N
4
-4.51
0.60
122.90
118.39
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
4
-6.96
1.00
110.10
103.14
A
A
A
C1'
O4'
C4'
DA
DA
DA
7
7
7
N
4
-7.04
0.80
105.90
98.86
A
A
A
O4'
C1'
C2'
DA
DA
DA
7
7
7
N
4
4.58
0.30
108.30
112.88
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
4
3.96
0.60
118.90
122.86
A
A
A
N1
C2
O2
DC
DC
DC
8
8
8
N
4
-8.86
0.80
105.90
97.04
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
4
2.71
0.30
108.30
111.01
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
4
4.29
0.60
118.90
123.19
A
A
A
N1
C2
O2
DC
DC
DC
9
9
9
N
4
-4.89
0.80
102.40
97.51
A
A
A
C3'
C2'
C1'
DA
DA
DA
10
10
10
N
4
-8.36
1.00
110.10
101.74
A
A
A
C1'
O4'
C4'
DT
DT
DT
11
11
11
N
4
-5.15
0.80
105.90
100.75
B
B
B
O4'
C1'
C2'
DG
DG
DG
14
14
14
N
4
3.56
0.30
108.30
111.86
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
4
-9.78
1.00
110.10
100.32
B
B
B
C1'
O4'
C4'
DT
DT
DT
17
17
17
N
4
4.19
0.30
108.30
112.49
B
B
B
O4'
C1'
N1
DT
DT
DT
17
17
17
N
4
-3.99
0.60
122.90
118.91
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
4
-6.65
0.80
102.40
95.75
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
4
3.33
0.30
108.30
111.63
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
4
7.95
1.20
119.70
127.65
B
B
B
C3'
O3'
P
DG
DG
DG
18
18
19
Y
4
2.76
0.30
108.30
111.06
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
4
-7.35
0.80
105.90
98.55
B
B
B
O4'
C1'
C2'
DT
DT
DT
20
20
20
N
4
-5.05
0.70
108.00
102.95
B
B
B
O4'
C1'
N1
DT
DT
DT
20
20
20
N
4
4.34
0.70
124.90
129.24
B
B
B
C5
C4
O4
DT
DT
DT
20
20
20
N
4
-4.86
0.60
122.90
118.04
B
B
B
C6
C5
C7
DT
DT
DT
20
20
20
N
4
-6.65
0.80
105.90
99.25
B
B
B
O4'
C1'
C2'
DA
DA
DA
21
21
21
N
4
1.92
0.30
108.30
110.22
B
B
B
O4'
C1'
N9
DA
DA
DA
21
21
21
N
4
10.22
1.20
119.70
129.92
B
B
B
C3'
O3'
P
DA
DA
DG
21
21
22
Y
4
3.04
0.40
105.40
108.44
B
B
B
N9
C4
C5
DG
DG
DG
22
22
22
N
4
-3.65
0.60
126.00
122.35
B
B
B
N3
C4
N9
DG
DG
DG
22
22
22
N
5
-5.21
0.70
102.20
96.99
A
A
A
C4'
C3'
C2'
DA
DA
DA
1
1
1
N
5
-3.25
0.40
104.50
101.25
A
A
A
O4'
C4'
C3'
DA
DA
DA
2
2
2
N
5
13.61
2.00
112.30
125.91
A
A
A
C4'
C3'
O3'
DA
DA
DA
2
2
2
N
5
7.22
0.30
108.30
115.52
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
5
-6.50
0.80
105.90
99.40
A
A
A
O4'
C1'
C2'
DC
DC
DC
3
3
3
N
5
3.55
0.30
108.30
111.85
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
5
-5.58
0.70
102.20
96.62
A
A
A
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
5
3.64
0.30
108.30
111.94
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
5
7.89
1.20
115.70
123.59
A
A
A
C5'
C4'
C3'
DC
DC
DC
5
5
5
N
5
3.78
0.30
108.30
112.08
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
5
-4.34
0.70
118.00
113.66
A
A
A
N3
C4
N4
DC
DC
DC
5
5
5
N
5
5.71
0.70
120.20
125.91
A
A
A
C5
C4
N4
DC
DC
DC
5
5
5
N
5
9.40
1.20
115.70
125.10
A
A
A
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
5
-4.47
0.70
108.00
103.53
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
5
-5.47
0.80
105.90
100.43
A
A
A
O4'
C1'
C2'
DA
DA
DA
7
7
7
N
5
-8.37
0.80
105.90
97.53
A
A
A
O4'
C1'
C2'
DC
DC
DC
8
8
8
N
5
-4.56
0.70
102.20
97.64
A
A
A
C4'
C3'
C2'
DC
DC
DC
9
9
9
N
5
2.68
0.30
108.30
110.98
A
A
A
O4'
C1'
N9
DA
DA
DA
10
10
10
N
5
-4.82
0.80
105.90
101.08
A
A
A
O4'
C1'
C2'
DC
DC
DC
12
12
12
N
5
3.20
0.30
108.30
111.50
A
A
A
O4'
C1'
N1
DC
DC
DC
12
12
12
N
5
-5.97
0.70
108.00
102.03
A
A
A
O4'
C1'
N1
DC
DC
DC
13
13
13
N
5
3.78
0.60
118.90
122.68
A
A
A
N1
C2
O2
DC
DC
DC
13
13
13
N
5
2.41
0.30
108.30
110.71
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
5
5.79
0.30
108.30
114.09
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
5
2.76
0.30
108.30
111.06
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
5
-5.61
0.80
102.40
96.79
B
B
B
C3'
C2'
C1'
DG
DG
DG
18
18
18
N
5
4.37
0.30
108.30
112.67
B
B
B
O4'
C1'
N9
DG
DG
DG
18
18
18
N
5
7.23
1.20
119.70
126.93
B
B
B
C3'
O3'
P
DG
DG
DG
18
18
19
Y
5
6.58
0.30
108.30
114.88
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
5
-4.38
0.70
108.00
103.62
B
B
B
O4'
C1'
N9
DA
DA
DA
21
21
21
N
5
-3.21
0.40
104.50
101.29
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
5
2.58
0.40
105.40
107.98
B
B
B
N9
C4
C5
DG
DG
DG
22
22
22
N
6
-5.39
0.70
102.20
96.81
A
A
A
C4'
C3'
C2'
DA
DA
DA
1
1
1
N
6
-6.22
0.40
104.50
98.28
A
A
A
O4'
C4'
C3'
DA
DA
DA
2
2
2
N
6
17.77
2.00
112.30
130.07
A
A
A
C4'
C3'
O3'
DA
DA
DA
2
2
2
N
6
9.15
0.30
108.30
117.45
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
6
-6.47
0.80
105.90
99.43
A
A
A
O4'
C1'
C2'
DC
DC
DC
3
3
3
N
6
4.72
0.30
108.30
113.02
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
6
10.86
1.60
120.90
131.76
A
A
A
P
O5'
C5'
DG
DG
DG
4
4
4
N
6
-5.36
0.40
104.50
99.14
A
A
A
O4'
C4'
C3'
DG
DG
DG
4
4
4
N
6
3.57
0.50
113.10
116.67
A
A
A
N7
C8
N9
DG
DG
DG
4
4
4
N
6
-6.04
0.40
104.50
98.46
A
A
A
O4'
C4'
C3'
DC
DC
DC
5
5
5
N
6
-5.11
0.80
102.40
97.29
A
A
A
C3'
C2'
C1'
DC
DC
DC
5
5
5
N
6
-6.84
0.80
105.90
99.06
A
A
A
O4'
C1'
C2'
DT
DT
DT
6
6
6
N
6
-7.36
1.00
110.10
102.74
A
A
A
C1'
O4'
C4'
DA
DA
DA
7
7
7
N
6
-5.14
0.80
105.90
100.76
A
A
A
O4'
C1'
C2'
DA
DA
DA
7
7
7
N
6
9.15
0.30
108.30
117.45
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
6
8.49
1.20
119.70
128.19
A
A
A
C3'
O3'
P
DA
DA
DC
7
7
8
Y
6
3.80
0.60
118.90
122.70
A
A
A
N1
C2
O2
DC
DC
DC
8
8
8
N
6
-6.08
0.80
105.90
99.82
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
6
7.53
0.30
108.30
115.83
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
6
-4.42
0.70
108.00
103.58
A
A
A
O4'
C1'
N1
DT
DT
DT
11
11
11
N
6
4.07
0.60
118.90
122.97
A
A
A
N1
C2
O2
DC
DC
DC
12
12
12
N
6
-4.35
0.70
102.20
97.85
B
B
B
C4'
C3'
C2'
DG
DG
DG
14
14
14
N
6
2.06
0.30
108.30
110.36
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
6
-5.02
0.80
102.40
97.38
B
B
B
C3'
C2'
C1'
DG
DG
DG
15
15
15
N
6
4.05
0.30
108.30
112.35
B
B
B
O4'
C1'
N9
DG
DG
DG
15
15
15
N
6
8.27
1.20
115.70
123.97
B
B
B
C5'
C4'
C3'
DG
DG
DG
18
18
18
N
6
-6.07
0.80
105.90
99.83
B
B
B
O4'
C1'
C2'
DG
DG
DG
18
18
18
N
6
11.14
1.20
115.70
126.84
B
B
B
C5'
C4'
C3'
DG
DG
DG
19
19
19
N
6
5.18
0.30
108.30
113.48
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
6
9.53
1.20
119.70
129.23
B
B
B
C3'
O3'
P
DA
DA
DG
21
21
22
Y
6
-5.39
0.40
104.50
99.11
B
B
B
O4'
C4'
C3'
DG
DG
DG
22
22
22
N
6
2.90
0.30
108.30
111.20
B
B
B
O4'
C1'
N9
DG
DG
DG
22
22
22
N
1
A
A
C8
N9
DG
DG
4
4
-0.049
0.007
1.374
1.325
N
1
A
A
N1
C6
DC
DC
5
5
-0.039
0.006
1.367
1.328
N
1
A
A
C5
C7
DT
DT
6
6
0.043
0.006
1.496
1.539
N
1
A
A
C5'
C4'
DC
DC
8
8
0.049
0.007
1.512
1.561
N
1
A
A
C5
C7
DT
DT
11
11
0.040
0.006
1.496
1.536
N
1
B
B
C5
C7
DT
DT
17
17
0.040
0.006
1.496
1.536
N
2
A
A
N9
C4
DA
DA
2
2
-0.041
0.006
1.374
1.333
N
2
A
A
C8
N9
DG
DG
4
4
-0.046
0.007
1.374
1.328
N
2
A
A
N1
C6
DC
DC
5
5
-0.047
0.006
1.367
1.320
N
2
A
A
C5
C7
DT
DT
6
6
0.039
0.006
1.496
1.535
N
2
A
A
C5
C7
DT
DT
11
11
0.038
0.006
1.496
1.534
N
2
A
A
C5'
C4'
DC
DC
12
12
0.043
0.007
1.512
1.555
N
2
B
B
C5
C7
DT
DT
17
17
0.043
0.006
1.496
1.539
N
3
A
A
N9
C4
DA
DA
2
2
-0.040
0.006
1.374
1.334
N
3
A
A
C8
N9
DG
DG
4
4
-0.050
0.007
1.374
1.324
N
3
A
A
N1
C6
DC
DC
5
5
-0.044
0.006
1.367
1.323
N
3
A
A
C5
C7
DT
DT
6
6
0.040
0.006
1.496
1.536
N
3
A
A
C5
C7
DT
DT
11
11
0.042
0.006
1.496
1.538
N
3
B
B
C5
C7
DT
DT
17
17
0.046
0.006
1.496
1.542
N
3
B
B
C5
C7
DT
DT
20
20
0.038
0.006
1.496
1.534
N
4
A
A
N9
C4
DA
DA
2
2
-0.045
0.006
1.374
1.329
N
4
A
A
N1
C6
DC
DC
5
5
-0.046
0.006
1.367
1.321
N
4
A
A
C5
C7
DT
DT
6
6
0.046
0.006
1.496
1.542
N
4
A
A
C5
C7
DT
DT
11
11
0.043
0.006
1.496
1.539
N
4
B
B
C5
C7
DT
DT
20
20
0.042
0.006
1.496
1.538
N
5
A
A
N9
C4
DA
DA
2
2
-0.042
0.006
1.374
1.332
N
5
A
A
C8
N9
DG
DG
4
4
-0.053
0.007
1.374
1.321
N
5
A
A
N1
C6
DC
DC
5
5
-0.050
0.006
1.367
1.317
N
5
A
A
C5'
C4'
DT
DT
6
6
0.054
0.007
1.512
1.566
N
5
A
A
C5
C7
DT
DT
6
6
0.040
0.006
1.496
1.536
N
5
A
A
C5
C7
DT
DT
11
11
0.039
0.006
1.496
1.535
N
5
B
B
C5
C7
DT
DT
20
20
0.039
0.006
1.496
1.535
N
6
A
A
C8
N9
DG
DG
4
4
-0.046
0.007
1.374
1.328
N
6
A
A
C5'
C4'
DC
DC
5
5
0.050
0.007
1.512
1.562
N
6
A
A
C5
C7
DT
DT
6
6
0.047
0.006
1.496
1.543
N
6
B
B
P
O5'
DG
DG
19
19
0.065
0.010
1.593
1.658
N
6
B
B
C5'
C4'
DG
DG
19
19
0.048
0.007
1.512
1.560
N
6
B
B
C5
C7
DT
DT
20
20
0.039
0.006
1.496
1.535
N
6
B
B
C2'
C1'
DG
DG
22
22
0.062
0.010
1.519
1.581
N
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
phasing
X-PLOR
3.1
SOLUTION STRUCTURE OF THE [AF]-C8-DG ADDUCT POSITIONED AT A TEMPLATE-PRIMER JUNCTION, NMR, 6 STRUCTURES
1
N
N
2
N
N
3
N
N
covale
1.454
none
A
DG
4
A
C8
DG
4
1_555
A
AF
23
C
N
AF
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
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
DNA DUPLEX, AMINOFLUORENE ADDUCT, CARCINOGEN ADDUCT, TEMPLATE-PRIMER JUNCTION, DNA
1AX7
PDB
1
1AX7
1AX7
PDB
2
1AX7
1
13
1AX7
1
13
1AX7
A
1
1
13
14
22
1AX7
14
22
1AX7
B
2
1
9
BINDING SITE FOR RESIDUE AF A 23
A
AF
23
Software
4
A
DA
2
A
DA
2
4
1_555
A
DG
4
A
DG
4
4
1_555
A
DC
5
A
DC
5
4
1_555
B
DG
22
B
DG
9
4
1_555
1
P 1