1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Setayesh, F.R.
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
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
C18 H22 N5 O8 P
467.370
n
2'-DEOXY-N2-(S)STYRENE OXIDE GUANOSINE MONOPHOSPHATE
DNA linking
US
Chem.Res.Toxicol.
CRTOEC
2140
0893-228X
11
766
777
10.1021/tx9800147
9671539
Styrene oxide adducts in an oligodeoxynucleotide containing the human N-ras codon 12: minor groove structures of the R(12,1)- and S(12,1)-alpha-(N2-guanyl) stereoisomers determined by 1H nuclear magnetic resonance.
1998
10.2210/pdb1ap1/pdb
pdb_00001ap1
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
HUMAN N-RAS PROTOONCOGENE
3590.406
DNA (5'-D(*GP*GP*CP*AP*GSSP*GP*TP*GP*GP*TP*G)-3')
1
syn
polymer
HUMAN N-RAS PROTOONCOGENE
3239.127
DNA (5'-D(*CP*AP*CP*CP*AP*CP*CP*TP*GP*CP*C)-3')
1
syn
polymer
no
yes
(DG)(DG)(DC)(DA)(GSS)(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
-8.098
1
19
A
1
B
22
-1.861
A_DG1:DC22_B
1
-14.521
-0.517
-0.112
-0.364
-0.788
1
19
A
2
B
21
-0.247
A_DG2:DC21_B
2
-4.618
-0.520
0.149
-0.189
-0.650
1
19
A
3
B
20
-0.793
A_DC3:DG20_B
3
-8.975
0.484
0.121
-0.209
2.117
1
20
A
4
B
19
-6.330
A_DA4:DT19_B
4
-2.778
0.235
0.287
-0.167
10.432
1
19
A
5
B
18
-2.430
A_GSS5:DC18_B
5
5.340
-0.671
0.548
-0.177
2.519
1
19
A
6
B
17
4.552
A_DG6:DC17_B
6
-16.987
-0.938
-0.155
-0.315
8.220
1
20
A
7
B
16
2.628
A_DT7:DA16_B
7
-19.636
-0.415
-0.362
-0.201
2.770
1
19
A
8
B
15
-0.341
A_DG8:DC15_B
8
-10.940
-0.559
0.088
-0.263
1.386
1
19
A
9
B
14
-2.536
A_DG9:DC14_B
9
-5.141
-0.549
0.216
-0.243
4.529
1
20
A
10
B
13
-1.729
A_DT10:DA13_B
10
-8.317
-0.315
0.171
-0.155
12.665
1
19
A
11
B
12
-2.813
A_DG11:DC12_B
11
-3.134
-0.657
0.421
-0.377
2.969
36.010
A
A
1
2
0.104
B
B
22
21
2.971
0.064
0.067
-0.128
AA_DG1DG2:DC21DC22_BB
1
-0.455
0.736
36.007
-0.216
-0.168
3.231
38.855
A
A
2
3
-3.999
B
B
21
20
3.224
-2.657
0.110
-0.194
AA_DG2DC3:DG20DC21_BB
2
2.122
-3.194
38.712
0.028
0.090
3.204
38.513
A
A
3
4
-1.505
B
B
20
19
3.117
-0.990
-0.950
0.130
AA_DC3DA4:DT19DG20_BB
3
-4.754
7.225
38.218
0.315
0.869
3.160
28.973
A
A
4
5
10.835
B
B
19
18
3.260
5.390
0.432
-0.178
AA_DA4GSS5:DC18DT19_BB
4
-0.757
1.521
28.468
-1.536
-1.029
3.554
34.387
A
A
5
6
9.253
B
B
18
17
3.630
5.446
0.175
-0.239
AA_GSS5DG6:DC17DC18_BB
5
1.906
-3.238
33.914
-1.345
0.032
2.999
38.364
A
A
6
7
0.076
B
B
17
16
3.002
0.050
0.081
0.263
AA_DG6DT7:DA16DC17_BB
6
3.041
-4.633
38.248
0.395
0.226
3.535
37.816
A
A
7
8
13.862
B
B
16
15
3.517
8.900
-0.100
0.486
AA_DT7DG8:DC15DA16_BB
7
-2.314
3.605
36.721
-0.504
-0.172
3.148
36.354
A
A
8
9
3.427
B
B
15
14
3.163
2.137
-0.043
-0.172
AA_DG8DG9:DC14DC15_BB
8
-1.181
1.894
36.274
-0.563
-0.090
3.131
36.530
A
A
9
10
-7.172
B
B
14
13
3.130
-4.484
0.161
-0.167
AA_DG9DT10:DA13DC14_BB
9
1.219
-1.949
36.243
0.328
-0.096
2.929
35.410
A
A
10
11
-4.482
B
B
13
12
2.935
-2.722
-0.056
-0.053
AA_DT10DG11:DC12DA13_BB
10
-2.326
3.830
35.235
0.272
-0.215
database_2
pdbx_database_status
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
Other
1
0
1998-07-22
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
_pdbx_nmr_software.name
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_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_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
Y
BNL
1997-07-22
REL
THIS STRUCTURE PROVIDED THE BEST-FIT FOR THE NOE DATA BASED ON THE RELAXATION MATRIX ANALYSIS USING CORMA
1
1
NOESY
2QF-COSY
TOCSY
6.9
303
K
REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE.
NOE-RESTRAINED MOLECULAR DYNAMICS/SIMULATED ANNEALING
BRUNGER
refinement
X-PLOR
3.1
structure solution
Felix
structure solution
X-PLOR
structure solution
MARDIGRAS
structure solution
CORMA
500
Bruker
AMX500
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
GSS
5
n
5
GSS
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
A
GSS
5
A
GSS
5
DG
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
2.66
0.30
108.30
110.96
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
4.51
0.50
113.10
117.61
A
A
A
N7
C8
N9
DG
DG
DG
1
1
1
N
1
-2.79
0.40
106.40
103.61
A
A
A
C8
N9
C4
DG
DG
DG
1
1
1
N
1
3.16
0.30
108.30
111.46
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
1
4.50
0.50
113.10
117.60
A
A
A
N7
C8
N9
DG
DG
DG
2
2
2
N
1
-2.79
0.40
106.40
103.61
A
A
A
C8
N9
C4
DG
DG
DG
2
2
2
N
1
2.97
0.30
108.30
111.27
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
1
2.33
0.30
108.30
110.63
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
1
3.83
0.50
113.80
117.63
A
A
A
N7
C8
N9
DA
DA
DA
4
4
4
N
1
2.89
0.30
108.30
111.19
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
1
4.50
0.50
113.10
117.60
A
A
A
N7
C8
N9
DG
DG
DG
6
6
6
N
1
-2.69
0.40
106.40
103.71
A
A
A
C8
N9
C4
DG
DG
DG
6
6
6
N
1
2.63
0.30
108.30
110.93
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
2.74
0.30
108.30
111.04
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
1
4.46
0.50
113.10
117.56
A
A
A
N7
C8
N9
DG
DG
DG
8
8
8
N
1
-2.77
0.40
106.40
103.63
A
A
A
C8
N9
C4
DG
DG
DG
8
8
8
N
1
2.66
0.30
108.30
110.96
A
A
A
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
4.51
0.50
113.10
117.61
A
A
A
N7
C8
N9
DG
DG
DG
9
9
9
N
1
-2.77
0.40
106.40
103.63
A
A
A
C8
N9
C4
DG
DG
DG
9
9
9
N
1
2.94
0.30
108.30
111.24
A
A
A
O4'
C1'
N1
DT
DT
DT
10
10
10
N
1
2.39
0.30
108.30
110.69
A
A
A
O4'
C1'
N9
DG
DG
DG
11
11
11
N
1
4.56
0.50
113.10
117.66
A
A
A
N7
C8
N9
DG
DG
DG
11
11
11
N
1
-2.79
0.40
106.40
103.61
A
A
A
C8
N9
C4
DG
DG
DG
11
11
11
N
1
2.48
0.30
108.30
110.78
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
1
2.48
0.30
108.30
110.78
B
B
B
O4'
C1'
N9
DA
DA
DA
13
13
13
N
1
3.64
0.50
113.80
117.44
B
B
B
N7
C8
N9
DA
DA
DA
13
13
13
N
1
2.18
0.30
108.30
110.48
B
B
B
O4'
C1'
N1
DC
DC
DC
14
14
14
N
1
2.50
0.30
108.30
110.80
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
1
3.60
0.50
113.80
117.40
B
B
B
N7
C8
N9
DA
DA
DA
16
16
16
N
1
2.79
0.30
108.30
111.09
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
1
3.37
0.30
108.30
111.67
B
B
B
O4'
C1'
N1
DC
DC
DC
18
18
18
N
1
-36.54
1.90
104.00
67.46
B
B
B
O3'
P
O5'
DC
DT
DT
18
19
19
Y
1
17.10
1.10
110.50
127.60
B
B
B
O3'
P
OP2
DC
DT
DT
18
19
19
Y
1
-30.25
2.20
105.20
74.95
B
B
B
O3'
P
OP1
DC
DT
DT
18
19
19
Y
1
-20.39
1.50
119.60
99.21
B
B
B
OP1
P
OP2
DT
DT
DT
19
19
19
N
1
23.80
1.20
110.70
134.50
B
B
B
O5'
P
OP1
DT
DT
DT
19
19
19
N
1
-20.89
0.90
105.70
84.81
B
B
B
O5'
P
OP2
DT
DT
DT
19
19
19
N
1
2.39
0.30
108.30
110.69
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
1
2.52
0.30
108.30
110.82
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
1
4.42
0.50
113.10
117.52
B
B
B
N7
C8
N9
DG
DG
DG
20
20
20
N
1
-2.45
0.40
106.40
103.95
B
B
B
C8
N9
C4
DG
DG
DG
20
20
20
N
1
2.55
0.30
108.30
110.85
B
B
B
O4'
C1'
N1
DC
DC
DC
21
21
21
N
1
-35.99
1.90
104.00
68.01
B
B
B
O3'
P
O5'
DC
DC
DC
21
22
22
Y
1
-22.33
2.20
105.20
82.87
B
B
B
O3'
P
OP2
DC
DC
DC
21
22
22
Y
1
20.56
1.10
110.50
131.06
B
B
B
O3'
P
OP1
DC
DC
DC
21
22
22
Y
1
-21.33
1.50
119.60
98.27
B
B
B
OP1
P
OP2
DC
DC
DC
22
22
22
N
1
-29.51
0.90
105.70
76.19
B
B
B
O5'
P
OP1
DC
DC
DC
22
22
22
N
1
21.19
1.20
110.70
131.89
B
B
B
O5'
P
OP2
DC
DC
DC
22
22
22
N
1
2.28
0.30
108.30
110.58
B
B
B
O4'
C1'
N1
DC
DC
DC
22
22
22
N
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
phasing
X-PLOR
3.1
THE SOLUTION NMR STRUCTURE OF AN S-STYRENE OXIDE ADDUCT AT THE N2 POSITION OF GUANINE OF AN 11 BASE-PAIR OLIGONUCLEOTIDE SEQUENCE CODING FOR AMINO ACIDS 11-13 OF THE PRODUCT OF THE N-RAS PROTOONCOGENE, MINIMIZED AVERAGE STRUCTURE
1
N
N
2
N
N
covale
1.610
both
A
DA
4
A
O3'
DA
4
1_555
A
GSS
5
A
P
GSS
5
1_555
covale
1.614
both
A
GSS
5
A
O3'
GSS
5
1_555
A
DG
6
A
P
DG
6
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
GSS
5
A
N1
GSS
5
1_555
B
DC
18
B
N3
DC
7
1_555
hydrog
WATSON-CRICK
A
GSS
5
A
N2
GSS
5
1_555
B
DC
18
B
O2
DC
7
1_555
hydrog
WATSON-CRICK
A
GSS
5
A
O6
GSS
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 DUPLEX, HUMAN N-RAS GENE, CODON 12 SEQUENCE, S-STYRENE OXIDE, MINOR GROOVE ADDUCT, DEOXYRIBONUCLEIC ACID, DNA
1AP1
PDB
1
1AP1
1AP1
PDB
2
1AP1
1
11
1AP1
1
11
1AP1
A
1
1
11
12
22
1AP1
12
22
1AP1
B
2
1
11
1
P 1