1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Kim, H.-Y.H.
Wilkinson, A.S.
Harris, C.M.
Harris, T.M.
Stone, M.P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C18 H16 O3
280.318
1S,2R,3S,4R-TETRAHYDRO-BENZO[A]ANTHRACENE-2,3,4-TRIOL
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
42
2328
2338
10.1021/bi020462k
12600200
Minor Groove Orientation for the (1S,2R,3S,4R)-N2-[1-(1,2,3,4-tetrahydro-2,3,4-trihydroxy-benz[a]anthracenyl)]-2'-deoxyguanosyl Adduct in the N-ras Codon 12 sequence
2003
10.2210/pdb1mxj/pdb
pdb_00001mxj
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
3470.257
5'-D(*GP*GP*CP*AP*GP*GP*TP*GP*GP*TP*G)-3'
1
syn
polymer
3239.127
5'-D(*CP*AP*CP*CP*AP*CP*CP*TP*GP*CP*C)-3'
1
syn
polymer
280.318
1S,2R,3S,4R-TETRAHYDRO-BENZO[A]ANTHRACENE-2,3,4-TRIOL
1
syn
non-polymer
no
no
(DG)(DG)(DC)(DA)(DG)(DG)(DT)(DG)(DG)(DT)(DG)
GGCAGGTGGTG
A
polydeoxyribonucleotide
no
no
(DC)(DA)(DC)(DC)(DA)(DC)(DC)(DT)(DG)(DC)(DC)
CACCACCTGCC
B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
-8.176
1
19
A
1
B
22
0.331
A_DG1:DC22_B
1
-5.369
-0.261
-0.391
-0.218
-7.116
1
19
A
2
B
21
-6.197
A_DG2:DC21_B
2
1.003
-0.043
-0.092
-0.083
-7.104
1
19
A
3
B
20
1.902
A_DC3:DG20_B
3
-4.964
-0.281
0.072
-0.063
-0.444
1
20
A
4
B
19
0.380
A_DA4:DT19_B
4
-8.065
0.169
0.154
-0.063
-1.005
1
19
A
5
B
18
-2.280
A_DG5:DC18_B
5
-0.857
-0.716
0.023
-0.353
5.965
1
19
A
6
B
17
3.103
A_DG6:DC17_B
6
0.081
-0.781
0.218
-0.208
-3.104
1
20
A
7
B
16
2.311
A_DT7:DA16_B
7
-8.023
-0.199
0.208
-0.112
8.908
1
19
A
8
B
15
-3.540
A_DG8:DC15_B
8
-5.758
-0.684
0.253
-0.301
2.775
1
19
A
9
B
14
-2.787
A_DG9:DC14_B
9
-9.204
-0.604
-0.077
-0.297
14.633
1
20
A
10
B
13
-5.772
A_DT10:DA13_B
10
-19.080
-0.289
-0.410
-0.039
13.027
1
19
A
11
B
12
2.196
A_DG11:DC12_B
11
2.409
-0.940
0.253
-0.277
3.418
36.669
A
A
1
2
-16.078
B
B
22
21
3.247
-9.995
-0.043
-1.083
AA_DG1DG2:DC21DC22_BB
1
0.141
-0.227
35.325
-0.298
0.088
2.606
36.622
A
A
2
3
20.447
B
B
21
20
2.926
12.598
0.461
-0.390
AA_DG2DC3:DG20DC21_BB
2
-1.587
2.575
34.421
-2.132
-0.924
2.913
37.230
A
A
3
4
6.914
B
B
20
19
2.982
4.397
-0.374
-0.631
AA_DC3DA4:DT19DG20_BB
3
-3.863
6.074
36.783
-1.517
0.121
3.449
32.593
A
A
4
5
-6.823
B
B
19
18
3.385
-3.821
-0.252
-0.787
AA_DA4DG5:DC18DT19_BB
4
0.537
-0.958
32.370
-0.706
0.546
2.731
36.322
A
A
5
6
9.311
B
B
18
17
2.927
5.779
0.768
-0.774
AA_DG5DG6:DC17DC18_BB
5
-1.863
3.001
35.828
-1.944
-1.459
3.544
35.044
A
A
6
7
9.885
B
B
17
16
3.785
5.923
-0.034
-1.134
AA_DG6DT7:DA16DC17_BB
6
1.510
-2.520
34.523
-2.888
0.313
2.888
37.272
A
A
7
8
-9.699
B
B
16
15
2.774
-6.172
-0.326
-0.922
AA_DT7DG8:DC15DA16_BB
7
-0.290
0.455
36.775
-0.729
0.476
3.046
35.269
A
A
8
9
13.833
B
B
15
14
3.355
8.287
-0.138
-0.783
AA_DG8DG9:DC14DC15_BB
8
4.362
-7.281
34.041
-2.518
0.873
2.443
34.163
A
A
9
10
14.523
B
B
14
13
2.633
8.448
-0.034
-0.466
AA_DG9DT10:DA13DC14_BB
9
0.231
-0.397
33.132
-1.847
0.088
2.964
33.923
A
A
10
11
9.873
B
B
13
12
3.183
5.695
0.024
-0.639
AA_DT10DG11:DC12DA13_BB
10
-7.044
12.212
32.726
-1.971
-1.124
database_2
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
1
0
2003-03-11
1
1
2008-04-28
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2002-10-02
REL
BZR
1S,2R,3S,4R-TETRAHYDRO-BENZO[A]ANTHRACENE-2,3,4-TRIOL
1
DQF-COSY
7.0
ambient
298
K
distance geometry, simulated annealing, molecular dynamics, matrix relaxation, torsion angle dynamics
minimized average structure
1.7 mM DNA, 10 mM sodium phosphate buffer, pH=7.0
99.99% D2O
90 % H2O, 10% D2O
600
Bruker
AMX
BZR
26
3
BZR
BZR
26
A
G
1
n
1
DG
1
A
G
2
n
2
DG
2
A
C
3
n
3
DC
3
A
A
4
n
4
DA
4
A
G
5
n
5
DG
5
A
G
6
n
6
DG
6
A
T
7
n
7
DT
7
A
G
8
n
8
DG
8
A
G
9
n
9
DG
9
A
T
10
n
10
DT
10
A
G
11
n
11
DG
11
A
C
12
n
1
DC
12
B
A
13
n
2
DA
13
B
C
14
n
3
DC
14
B
C
15
n
4
DC
15
B
A
16
n
5
DA
16
B
C
17
n
6
DC
17
B
C
18
n
7
DC
18
B
T
19
n
8
DT
19
B
G
20
n
9
DG
20
B
C
21
n
10
DC
21
B
C
22
n
11
DC
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
1
A
A
O4'
H3
DT
BZR
7
26
1.31
1
A
A
N2
C9C
DG
BZR
6
26
2.13
1
3.36
0.30
108.30
111.66
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
4.45
0.50
113.10
117.55
A
A
A
N7
C8
N9
DG
DG
DG
1
1
1
N
1
-2.43
0.40
106.40
103.97
A
A
A
C8
N9
C4
DG
DG
DG
1
1
1
N
1
2.51
0.30
108.30
110.81
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
1
4.57
0.50
113.10
117.67
A
A
A
N7
C8
N9
DG
DG
DG
2
2
2
N
1
-2.69
0.40
106.40
103.71
A
A
A
C8
N9
C4
DG
DG
DG
2
2
2
N
1
2.44
0.30
108.30
110.74
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
1
2.48
0.30
108.30
110.78
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
1
3.75
0.50
113.80
117.55
A
A
A
N7
C8
N9
DA
DA
DA
4
4
4
N
1
2.63
0.30
108.30
110.93
A
A
A
O4'
C1'
N9
DG
DG
DG
5
5
5
N
1
4.52
0.50
113.10
117.62
A
A
A
N7
C8
N9
DG
DG
DG
5
5
5
N
1
-2.65
0.40
106.40
103.75
A
A
A
C8
N9
C4
DG
DG
DG
5
5
5
N
1
3.47
0.30
108.30
111.77
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
1
4.57
0.50
113.10
117.67
A
A
A
N7
C8
N9
DG
DG
DG
6
6
6
N
1
-2.63
0.40
106.40
103.77
A
A
A
C8
N9
C4
DG
DG
DG
6
6
6
N
1
2.67
0.30
108.30
110.97
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
2.57
0.30
108.30
110.87
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
1
4.67
0.50
113.10
117.77
A
A
A
N7
C8
N9
DG
DG
DG
8
8
8
N
1
-2.44
0.40
106.40
103.96
A
A
A
C8
N9
C4
DG
DG
DG
8
8
8
N
1
3.02
0.30
108.30
111.32
A
A
A
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
4.62
0.50
113.10
117.72
A
A
A
N7
C8
N9
DG
DG
DG
9
9
9
N
1
-2.43
0.40
106.40
103.97
A
A
A
C8
N9
C4
DG
DG
DG
9
9
9
N
1
3.05
0.30
108.30
111.35
A
A
A
O4'
C1'
N1
DT
DT
DT
10
10
10
N
1
3.25
0.30
108.30
111.55
A
A
A
O4'
C1'
N9
DG
DG
DG
11
11
11
N
1
4.54
0.50
113.10
117.64
A
A
A
N7
C8
N9
DG
DG
DG
11
11
11
N
1
-2.72
0.40
106.40
103.68
A
A
A
C8
N9
C4
DG
DG
DG
11
11
11
N
1
2.83
0.30
108.30
111.13
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
1
2.41
0.30
108.30
110.71
B
B
B
O4'
C1'
N9
DA
DA
DA
13
13
13
N
1
3.75
0.50
113.80
117.55
B
B
B
N7
C8
N9
DA
DA
DA
13
13
13
N
1
4.41
0.30
108.30
112.71
B
B
B
O4'
C1'
N1
DC
DC
DC
14
14
14
N
1
3.09
0.30
108.30
111.39
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
2.49
0.30
108.30
110.79
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
1
3.73
0.50
113.80
117.53
B
B
B
N7
C8
N9
DA
DA
DA
16
16
16
N
1
2.33
0.30
108.30
110.63
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
1
2.62
0.30
108.30
110.92
B
B
B
O4'
C1'
N1
DC
DC
DC
18
18
18
N
1
2.38
0.30
108.30
110.68
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
1
3.86
0.30
108.30
112.16
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
1
4.69
0.50
113.10
117.79
B
B
B
N7
C8
N9
DG
DG
DG
20
20
20
N
1
2.82
0.30
108.30
111.12
B
B
B
O4'
C1'
N1
DC
DC
DC
22
22
22
N
minimized average
NMR solution structure of benz[a]anthracene-dG in ras codon 12,2; GGCAGXTGGTG
1
N
N
2
N
N
3
N
N
covale
1.315
none
A
DG
6
A
N2
DG
6
1_555
A
BZR
26
C
C4C
BZR
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
B
DC
22
B
N3
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
B
DC
22
B
O2
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
B
DC
22
B
N4
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
21
B
N3
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
21
B
O2
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
21
B
N4
DC
10
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
B
DG
20
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
B
DG
20
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
B
DG
20
B
N2
DG
9
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
B
DT
19
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
B
DT
19
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
DG
5
A
N1
DG
5
1_555
B
DC
18
B
N3
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
5
A
N2
DG
5
1_555
B
DC
18
B
O2
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
5
A
O6
DG
5
1_555
B
DC
18
B
N4
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
B
DC
17
B
N3
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
B
DC
17
B
O2
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
B
DC
17
B
N4
DC
6
1_555
hydrog
WATSON-CRICK
A
DT
7
A
N3
DT
7
1_555
B
DA
16
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
DT
7
A
O4
DT
7
1_555
B
DA
16
B
N6
DA
5
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N1
DG
8
1_555
B
DC
15
B
N3
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N2
DG
8
1_555
B
DC
15
B
O2
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
8
A
O6
DG
8
1_555
B
DC
15
B
N4
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
9
1_555
B
DC
14
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
9
1_555
B
DC
14
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
9
1_555
B
DC
14
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DT
10
A
N3
DT
10
1_555
B
DA
13
B
N1
DA
2
1_555
hydrog
WATSON-CRICK
A
DT
10
A
O4
DT
10
1_555
B
DA
13
B
N6
DA
2
1_555
hydrog
WATSON-CRICK
A
DG
11
A
N1
DG
11
1_555
B
DC
12
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
11
A
N2
DG
11
1_555
B
DC
12
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
11
A
O6
DG
11
1_555
B
DC
12
B
N4
DC
1
1_555
DNA
DNA adduct, B-like DNA, DNA
1MXJ
PDB
1
1MXJ
1MXJ
PDB
2
1MXJ
1
11
1MXJ
1
11
1MXJ
A
1
1
11
12
22
1MXJ
12
22
1MXJ
B
2
1
11
BINDING SITE FOR RESIDUE BZR A 26
A
BZR
26
Software
7
A
DG
5
A
DG
5
7
1_555
A
DG
6
A
DG
6
7
1_555
A
DT
7
A
DT
7
7
1_555
A
DG
8
A
DG
8
7
1_555
B
DC
17
B
DC
6
7
1_555
B
DC
18
B
DC
7
7
1_555
B
DT
19
B
DT
8
7
1_555
1
P 1