0.041754
0.000000
0.000000
0.000000
0.025648
0.000000
0.000000
0.000000
0.015342
0.00000
0.00000
0.00000
Quintana, J.R.
Lipanov, A.A.
Dickerson, R.E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
23.950
38.990
65.180
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
H2 O
18.015
WATER
non-polymer
C25 H24 N6 O
424.498
2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE
HOECHST 33258
non-polymer
Mg 2
24.305
MAGNESIUM ION
non-polymer
N
1
N
O
N
2
N
P
N
3
N
O
N
4
N
O
N
5
N
O
N
6
N
C
N
7
R
C
N
8
N
O
N
9
S
C
N
10
N
O
N
11
N
C
N
12
R
C
Y
13
N
N
Y
14
N
C
Y
15
N
N
Y
16
N
C
Y
17
N
C
N
18
N
N
Y
19
N
N
Y
20
N
C
Y
21
N
N
Y
22
N
C
N
23
N
H
N
24
N
H
N
25
N
H
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
O
N
38
N
P
N
39
N
O
N
40
N
O
N
41
N
O
N
42
N
C
N
43
R
C
N
44
N
O
N
45
S
C
N
46
N
O
N
47
N
C
N
48
R
C
N
49
N
N
N
50
N
C
N
51
N
O
N
52
N
N
N
53
N
C
N
54
N
N
N
55
N
C
N
56
N
C
N
57
N
H
N
58
N
H
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
O
N
72
N
P
N
73
N
O
N
74
N
O
N
75
N
O
N
76
N
C
N
77
R
C
N
78
N
O
N
79
S
C
N
80
N
O
N
81
N
C
N
82
R
C
Y
83
N
N
Y
84
N
C
Y
85
N
N
Y
86
N
C
N
87
N
C
N
88
N
O
N
89
N
N
N
90
N
C
N
91
N
N
N
92
N
N
Y
93
N
C
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
O
N
109
N
P
N
110
N
O
N
111
N
O
N
112
N
O
N
113
N
C
N
114
R
C
N
115
N
O
N
116
S
C
N
117
N
O
N
118
N
C
N
119
R
C
N
120
N
N
N
121
N
C
N
122
N
O
N
123
N
N
N
124
N
C
N
125
N
O
N
126
N
C
N
127
N
C
N
128
N
C
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
O
N
145
N
H
N
146
N
H
N
147
N
O
Y
148
N
C
Y
149
N
C
Y
150
N
C
Y
151
N
C
Y
152
N
C
Y
153
N
C
Y
154
N
C
Y
155
N
N
Y
156
N
C
Y
157
N
C
Y
158
N
N
Y
159
N
C
Y
160
N
C
Y
161
N
C
Y
162
N
C
Y
163
N
C
Y
164
N
N
Y
165
N
C
Y
166
N
C
Y
167
N
N
Y
168
N
C
Y
169
N
C
Y
170
N
C
Y
171
N
C
N
172
N
N
N
173
N
C
N
174
N
C
N
175
N
N
N
176
N
C
N
177
N
C
N
178
N
C
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
MG
N
1
N
sing
N
2
N
sing
N
3
N
doub
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
Y
24
N
sing
Y
25
N
sing
Y
26
N
doub
N
27
N
sing
Y
28
N
sing
Y
29
N
sing
Y
30
N
doub
N
31
N
sing
Y
32
N
doub
N
33
N
sing
N
34
N
sing
Y
35
N
sing
Y
36
N
doub
N
37
N
sing
Y
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
doub
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
doub
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
doub
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
Y
97
N
sing
Y
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
sing
N
102
N
sing
Y
103
N
doub
N
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
doub
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
doub
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
doub
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
Y
154
N
doub
Y
155
N
sing
Y
156
N
sing
N
157
N
sing
Y
158
N
doub
N
159
N
sing
Y
160
N
sing
Y
161
N
sing
Y
162
N
doub
N
163
N
sing
N
164
N
sing
Y
165
N
sing
Y
166
N
doub
Y
167
N
sing
N
168
N
sing
Y
169
N
doub
Y
170
N
sing
Y
171
N
sing
Y
172
N
sing
Y
173
N
doub
N
174
N
sing
Y
175
N
sing
N
176
N
sing
Y
177
N
doub
Y
178
N
sing
N
179
N
sing
Y
180
N
sing
Y
181
N
doub
Y
182
N
sing
N
183
N
sing
Y
184
N
doub
Y
185
N
sing
Y
186
N
sing
Y
187
N
sing
Y
188
N
doub
N
189
N
sing
Y
190
N
sing
N
191
N
sing
Y
192
N
doub
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
30
10294
10306
10.1021/bi00106a030
1718416
Low-temperature crystallographic analyses of the binding of Hoechst 33258 to the double-helical DNA dodecamer C-G-C-G-A-A-T-T-C-G-C-G.
1991
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
16
2671
2690
The Molecular Structure of the Complex of Hoechst 33258 and the DNA Dodecamer d(CGCGAATTCGCG)
1988
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
196
257
271
Binding of Hoechst 33258 to the Minor Groove of B-DNA
1987
US
J.Med.Chem.
JMCMAR
0151
0022-2623
29
727
733
Isohelical Analysis of DNA Groove-Binding Drugs
1986
10.2210/pdb1d43/pdb
pdb_00001d43
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
273.00
1
DIFFRACTOMETER
RIGAKU AFC-5R
x-ray
1
1.0
ROTATING ANODE
3663.392
DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3')
2
syn
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
424.498
2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE
1
syn
non-polymer
18.015
water
67
nat
water
no
no
(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)
CGCGAATTCGCG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
2.08
40.77
VAPOR DIFFUSION, SITTING DROP
6.90
pH 6.90, VAPOR DIFFUSION, SITTING DROP, temperature 277.00K
277.00
WATER
1
MPD
1
MG ACETATE
1
SPERMINE_HCL
1
WATER
2
MPD
2
1.607
1
19
A
1
B
24
2.239
A_DC1:DG24_B
1
-17.157
0.480
0.349
-0.290
-2.300
1
19
A
2
B
23
6.883
A_DG2:DC23_B
2
-16.709
-0.684
0.355
-0.115
-3.387
1
19
A
3
B
22
0.145
A_DC3:DG22_B
3
-7.577
0.271
0.142
-0.015
17.386
1
19
A
4
B
21
-0.735
A_DG4:DC21_B
4
-5.842
-0.388
0.195
-0.012
8.137
1
20
A
5
B
20
6.455
A_DA5:DT20_B
5
-23.627
0.279
-0.122
-0.260
6.362
1
20
A
6
B
19
3.985
A_DA6:DT19_B
6
-20.001
0.157
0.251
-0.139
-3.931
1
20
A
7
B
18
4.345
A_DT7:DA18_B
7
-27.389
0.404
-0.090
-0.233
-6.690
1
20
A
8
B
17
3.668
A_DT8:DA17_B
8
-15.870
-0.471
-0.068
-0.260
-8.606
1
19
A
9
B
16
-5.884
A_DC9:DG16_B
9
-9.588
0.524
-0.077
-0.113
13.882
1
19
A
10
B
15
-2.951
A_DG10:DC15_B
10
5.399
0.136
0.334
-0.417
7.913
1
19
A
11
B
14
-9.717
A_DC11:DG14_B
11
-26.109
0.182
0.167
-0.352
10.868
1
19
A
12
B
13
-3.095
A_DG12:DC13_B
12
10.351
-0.390
-0.058
-0.424
3.318
29.684
A
A
1
2
16.226
B
B
24
23
3.380
8.209
0.017
0.238
AA_DC1DG2:DC23DG24_BB
1
-0.078
0.155
28.551
-1.339
-0.050
3.196
46.195
A
A
2
3
-9.181
B
B
23
22
3.319
-7.160
0.459
0.809
AA_DG2DC3:DG22DC23_BB
2
5.823
-7.467
45.314
1.646
-0.085
3.010
26.410
A
A
3
4
22.998
B
B
22
21
2.964
10.220
0.231
0.689
AA_DC3DG4:DC21DG22_BB
3
2.840
-6.390
24.221
-1.091
0.216
3.494
42.007
A
A
4
5
3.378
B
B
21
20
3.484
2.418
0.071
0.351
AA_DG4DA5:DT20DC21_BB
4
3.377
-4.717
41.811
0.222
0.276
3.001
37.750
A
A
5
6
9.222
B
B
20
19
3.114
5.929
-0.078
-0.423
AA_DA5DA6:DT19DT20_BB
5
-4.648
7.229
37.017
-1.377
-0.446
3.443
34.655
A
A
6
7
4.284
B
B
19
18
3.494
2.545
0.070
-0.429
AA_DA6DT7:DA18DT19_BB
6
3.657
-6.155
34.376
-1.137
0.480
3.256
32.322
A
A
7
8
2.516
B
B
18
17
3.265
1.400
-0.056
-0.095
AA_DT7DT8:DA17DA18_BB
7
0.848
-1.524
32.282
-0.417
0.249
3.534
40.767
A
A
8
9
6.410
B
B
17
16
3.494
4.457
-0.070
0.581
AA_DT8DC9:DG16DA17_BB
8
0.662
-0.952
40.527
0.304
0.179
3.094
27.172
A
A
9
10
8.108
B
B
16
15
2.964
3.779
0.119
1.608
AA_DC9DG10:DC15DG16_BB
9
-4.646
9.969
26.516
2.532
-1.350
3.277
42.477
A
A
10
11
-15.686
B
B
15
14
3.570
-11.236
-1.064
0.884
AA_DG10DC11:DG14DC15_BB
10
-2.140
2.988
40.976
2.437
1.237
3.464
38.521
A
A
11
12
-14.387
B
B
14
13
3.645
-9.376
1.345
0.940
AA_DC11DG12:DC13DG14_BB
11
5.095
-7.818
37.067
2.713
-1.339
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Atomic model
Data collection
Database references
Derived calculations
1
0
1992-04-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2011-08-24
1
4
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1991-06-04
REL
REL
MG
MAGNESIUM ION
HT
2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE
HOH
water
MO6
26
2
MG
MG
26
A
HT
25
3
HT
HT
25
B
HOH
27
4
HOH
HOH
27
A
HOH
28
4
HOH
HOH
28
A
HOH
30
4
HOH
HOH
30
A
HOH
31
4
HOH
HOH
31
A
HOH
33
4
HOH
HOH
33
A
HOH
35
4
HOH
HOH
35
A
HOH
38
4
HOH
HOH
38
A
HOH
39
4
HOH
HOH
39
A
HOH
42
4
HOH
HOH
42
A
HOH
44
4
HOH
HOH
44
A
HOH
46
4
HOH
HOH
46
A
HOH
50
4
HOH
HOH
50
A
HOH
51
4
HOH
HOH
51
A
HOH
52
4
HOH
HOH
52
A
HOH
54
4
HOH
HOH
54
A
HOH
56
4
HOH
HOH
56
A
HOH
58
4
HOH
HOH
58
A
HOH
60
4
HOH
HOH
60
A
HOH
61
4
HOH
HOH
61
A
HOH
62
4
HOH
HOH
62
A
HOH
63
4
HOH
HOH
63
A
HOH
66
4
HOH
HOH
66
A
HOH
70
4
HOH
HOH
70
A
HOH
71
4
HOH
HOH
71
A
HOH
72
4
HOH
HOH
72
A
HOH
73
4
HOH
HOH
73
A
HOH
75
4
HOH
HOH
75
A
HOH
76
4
HOH
HOH
76
A
HOH
77
4
HOH
HOH
77
A
HOH
79
4
HOH
HOH
79
A
HOH
80
4
HOH
HOH
80
A
HOH
84
4
HOH
HOH
84
A
HOH
86
4
HOH
HOH
86
A
HOH
87
4
HOH
HOH
87
A
MO6
26
4
HOH
HOH
89
A
MO6
26
4
HOH
HOH
90
A
MO6
26
4
HOH
HOH
91
A
MO6
26
4
HOH
HOH
93
A
HOH
29
4
HOH
HOH
29
B
HOH
32
4
HOH
HOH
32
B
HOH
34
4
HOH
HOH
34
B
HOH
36
4
HOH
HOH
36
B
HOH
37
4
HOH
HOH
37
B
HOH
40
4
HOH
HOH
40
B
HOH
41
4
HOH
HOH
41
B
HOH
43
4
HOH
HOH
43
B
HOH
45
4
HOH
HOH
45
B
HOH
47
4
HOH
HOH
47
B
HOH
48
4
HOH
HOH
48
B
HOH
49
4
HOH
HOH
49
B
HOH
53
4
HOH
HOH
53
B
HOH
55
4
HOH
HOH
55
B
HOH
57
4
HOH
HOH
57
B
HOH
59
4
HOH
HOH
59
B
HOH
64
4
HOH
HOH
64
B
HOH
65
4
HOH
HOH
65
B
HOH
67
4
HOH
HOH
67
B
HOH
68
4
HOH
HOH
68
B
HOH
69
4
HOH
HOH
69
B
HOH
74
4
HOH
HOH
74
B
HOH
78
4
HOH
HOH
78
B
HOH
81
4
HOH
HOH
81
B
HOH
82
4
HOH
HOH
82
B
HOH
83
4
HOH
HOH
83
B
HOH
85
4
HOH
HOH
85
B
MO6
26
4
HOH
HOH
88
B
MO6
26
4
HOH
HOH
92
B
C
1
n
1
DC
1
A
G
2
n
2
DG
2
A
C
3
n
3
DC
3
A
G
4
n
4
DG
4
A
A
5
n
5
DA
5
A
A
6
n
6
DA
6
A
T
7
n
7
DT
7
A
T
8
n
8
DT
8
A
C
9
n
9
DC
9
A
G
10
n
10
DG
10
A
C
11
n
11
DC
11
A
G
12
n
12
DG
12
A
C
13
n
1
DC
13
B
G
14
n
2
DG
14
B
C
15
n
3
DC
15
B
G
16
n
4
DG
16
B
A
17
n
5
DA
17
B
A
18
n
6
DA
18
B
T
19
n
7
DT
19
B
T
20
n
8
DT
20
B
C
21
n
9
DC
21
B
G
22
n
10
DG
22
B
C
23
n
11
DC
23
B
G
24
n
12
DG
24
B
author_defined_assembly
2
dimeric
A
HOH
89
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
A
HOH
90
E
O
HOH
1_555
91.9
A
HOH
89
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
A
HOH
91
E
O
HOH
1_555
87.4
A
HOH
90
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
A
HOH
91
E
O
HOH
1_555
177.5
A
HOH
89
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
A
HOH
93
E
O
HOH
1_555
89.8
A
HOH
90
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
A
HOH
93
E
O
HOH
1_555
92.9
A
HOH
91
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
A
HOH
93
E
O
HOH
1_555
89.6
A
HOH
89
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
88
F
O
HOH
1_555
177.0
A
HOH
90
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
88
F
O
HOH
1_555
90.6
A
HOH
91
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
88
F
O
HOH
1_555
90.2
A
HOH
93
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
88
F
O
HOH
1_555
88.3
A
HOH
89
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
92
F
O
HOH
1_555
94.1
A
HOH
90
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
92
F
O
HOH
1_555
91.3
A
HOH
91
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
92
F
O
HOH
1_555
86.3
A
HOH
93
E
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
92
F
O
HOH
1_555
174.2
B
HOH
88
F
O
HOH
1_555
A
MG
26
C
MG
MG
1_555
B
HOH
92
F
O
HOH
1_555
87.6
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
7.13
1.10
109.80
116.93
A
A
A
C5'
C4'
O4'
DC
DC
DC
1
1
1
N
1
4.08
0.50
119.90
123.98
A
A
A
C2
N3
C4
DC
DC
DC
1
1
1
N
1
-3.42
0.40
121.90
118.48
A
A
A
N3
C4
C5
DC
DC
DC
1
1
1
N
1
5.53
0.70
118.00
123.53
A
A
A
N3
C4
N4
DC
DC
DC
1
1
1
N
1
-15.25
1.50
119.60
104.35
A
A
A
OP1
P
OP2
DG
DG
DG
2
2
2
N
1
12.04
1.20
110.70
122.74
A
A
A
O5'
P
OP2
DG
DG
DG
2
2
2
N
1
-11.68
1.50
119.60
107.92
A
A
A
OP1
P
OP2
DC
DC
DC
3
3
3
N
1
12.59
1.20
110.70
123.29
A
A
A
O5'
P
OP1
DC
DC
DC
3
3
3
N
1
15.68
1.60
120.90
136.58
A
A
A
P
O5'
C5'
DC
DC
DC
3
3
3
N
1
-4.58
0.40
104.50
99.92
A
A
A
O4'
C4'
C3'
DC
DC
DC
3
3
3
N
1
2.47
0.40
120.30
122.77
A
A
A
C6
N1
C2
DC
DC
DC
3
3
3
N
1
18.45
1.20
119.70
138.15
A
A
A
C3'
O3'
P
DC
DC
DG
3
3
4
Y
1
-7.43
0.90
105.70
98.27
A
A
A
O5'
P
OP1
DG
DG
DG
4
4
4
N
1
9.43
1.20
110.70
120.13
A
A
A
O5'
P
OP2
DG
DG
DG
4
4
4
N
1
-8.28
0.80
109.40
101.12
A
A
A
O5'
C5'
C4'
DG
DG
DG
4
4
4
N
1
-6.02
0.80
102.40
96.38
A
A
A
C3'
C2'
C1'
DG
DG
DG
4
4
4
N
1
4.33
0.60
118.60
122.93
A
A
A
C6
N1
C2
DA
DA
DA
5
5
5
N
1
-3.62
0.50
129.30
125.68
A
A
A
N1
C2
N3
DA
DA
DA
5
5
5
N
1
16.39
1.20
119.70
136.09
A
A
A
C3'
O3'
P
DA
DA
DA
5
5
6
Y
1
-3.90
0.50
129.30
125.40
A
A
A
N1
C2
N3
DA
DA
DA
6
6
6
N
1
8.58
1.20
119.70
128.28
A
A
A
C3'
O3'
P
DA
DA
DT
6
6
7
Y
1
-5.49
0.80
109.40
103.91
A
A
A
O5'
C5'
C4'
DT
DT
DT
7
7
7
N
1
-4.47
0.60
127.20
122.73
A
A
A
C2
N3
C4
DT
DT
DT
7
7
7
N
1
3.80
0.60
115.20
119.00
A
A
A
N3
C4
C5
DT
DT
DT
7
7
7
N
1
13.20
1.20
119.70
132.90
A
A
A
C3'
O3'
P
DT
DT
DT
7
7
8
Y
1
12.97
1.20
110.70
123.67
A
A
A
O5'
P
OP2
DT
DT
DT
8
8
8
N
1
-5.10
0.60
127.20
122.10
A
A
A
C2
N3
C4
DT
DT
DT
8
8
8
N
1
3.83
0.60
115.20
119.03
A
A
A
N3
C4
C5
DT
DT
DT
8
8
8
N
1
-4.68
0.60
119.90
115.22
A
A
A
N3
C4
O4
DT
DT
DT
8
8
8
N
1
20.69
1.20
119.70
140.39
A
A
A
C3'
O3'
P
DT
DT
DC
8
8
9
Y
1
3.29
0.50
121.00
124.29
A
A
A
C5
C6
N1
DC
DC
DC
9
9
9
N
1
4.27
0.60
118.90
123.17
A
A
A
N1
C2
O2
DC
DC
DC
9
9
9
N
1
-4.82
0.80
102.40
97.58
A
A
A
C3'
C2'
C1'
DG
DG
DG
10
10
10
N
1
4.96
0.30
108.30
113.26
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
-4.93
0.70
119.90
114.97
A
A
A
N3
C2
N2
DG
DG
DG
10
10
10
N
1
-4.13
0.60
128.60
124.47
A
A
A
C5
C6
O6
DG
DG
DG
10
10
10
N
1
14.95
1.20
110.70
125.65
A
A
A
O5'
P
OP2
DC
DC
DC
11
11
11
N
1
-5.82
0.70
108.00
102.18
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
3.85
0.30
108.30
112.15
A
A
A
O4'
C1'
N9
DG
DG
DG
12
12
12
N
1
4.21
0.50
119.90
124.11
B
B
B
C2
N3
C4
DC
DC
DC
13
13
13
N
1
-3.29
0.40
121.90
118.61
B
B
B
N3
C4
C5
DC
DC
DC
13
13
13
N
1
3.33
0.50
111.50
114.83
B
B
B
C5
C6
N1
DG
DG
DG
14
14
14
N
1
8.06
1.20
110.70
118.76
B
B
B
O5'
P
OP1
DC
DC
DC
15
15
15
N
1
-5.17
0.80
109.40
104.23
B
B
B
O5'
C5'
C4'
DC
DC
DC
15
15
15
N
1
3.05
0.50
106.80
109.85
B
B
B
O4'
C1'
C2'
DC
DC
DC
15
15
15
N
1
-5.10
0.70
108.00
102.90
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
13.41
1.20
119.70
133.11
B
B
B
C3'
O3'
P
DC
DC
DG
15
15
16
Y
1
4.70
0.30
108.30
113.00
B
B
B
O4'
C1'
N9
DG
DG
DG
16
16
16
N
1
16.14
1.20
119.70
135.84
B
B
B
C3'
O3'
P
DG
DG
DA
16
16
17
Y
1
-9.71
0.80
109.40
99.69
B
B
B
O5'
C5'
C4'
DA
DA
DA
17
17
17
N
1
3.58
0.30
108.30
111.88
B
B
B
O4'
C1'
N9
DA
DA
DA
17
17
17
N
1
-9.89
1.50
119.60
109.71
B
B
B
OP1
P
OP2
DA
DA
DA
18
18
18
N
1
6.68
0.60
118.60
125.28
B
B
B
C6
N1
C2
DA
DA
DA
18
18
18
N
1
-6.68
0.50
129.30
122.62
B
B
B
N1
C2
N3
DA
DA
DA
18
18
18
N
1
3.03
0.50
110.60
113.63
B
B
B
C2
N3
C4
DA
DA
DA
18
18
18
N
1
-4.22
0.50
117.70
113.48
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
1
13.72
1.20
119.70
133.42
B
B
B
C3'
O3'
P
DA
DA
DT
18
18
19
Y
1
1.87
0.30
108.30
110.17
B
B
B
O4'
C1'
N1
DT
DT
DT
19
19
19
N
1
-4.98
0.60
127.20
122.22
B
B
B
C2
N3
C4
DT
DT
DT
19
19
19
N
1
-3.64
0.60
122.90
119.26
B
B
B
C6
C5
C7
DT
DT
DT
19
19
19
N
1
8.85
1.20
119.70
128.55
B
B
B
C3'
O3'
P
DT
DT
DC
20
20
21
Y
1
7.25
1.10
110.50
117.75
B
B
B
O3'
P
OP1
DT
DC
DC
20
21
21
Y
1
-6.51
0.80
109.40
102.89
B
B
B
O5'
C5'
C4'
DC
DC
DC
21
21
21
N
1
-6.72
0.70
108.00
101.28
B
B
B
O4'
C1'
N1
DC
DC
DC
21
21
21
N
1
3.46
0.50
119.90
123.36
B
B
B
C2
N3
C4
DC
DC
DC
21
21
21
N
1
-3.37
0.40
121.90
118.53
B
B
B
N3
C4
C5
DC
DC
DC
21
21
21
N
1
10.62
1.20
119.70
130.32
B
B
B
C3'
O3'
P
DC
DC
DG
21
21
22
Y
1
11.31
1.60
120.90
132.21
B
B
B
P
O5'
C5'
DG
DG
DG
22
22
22
N
1
-6.06
0.80
102.40
96.34
B
B
B
C3'
C2'
C1'
DG
DG
DG
22
22
22
N
1
8.80
1.20
110.70
119.50
B
B
B
O5'
P
OP1
DC
DC
DC
23
23
23
N
1
7.76
1.20
115.70
123.46
B
B
B
C5'
C4'
C3'
DC
DC
DC
23
23
23
N
1
-9.78
1.50
119.60
109.82
B
B
B
OP1
P
OP2
DG
DG
DG
24
24
24
N
1
4.54
0.30
108.30
112.84
B
B
B
O4'
C1'
N9
DG
DG
DG
24
24
24
N
1
3.25
0.50
111.50
114.75
B
B
B
C5
C6
N1
DG
DG
DG
24
24
24
N
1
-4.71
0.60
119.90
115.19
B
B
B
N1
C6
O6
DG
DG
DG
24
24
24
N
1
A
A
O4'
C4'
DC
DC
1
1
-0.063
0.010
1.446
1.383
N
1
B
B
O4'
C4'
DC
DC
21
21
-0.068
0.010
1.446
1.378
N
1
A
B
O
O
HOH
HOH
31
85
1.87
1_555
1_655
1
A
B
C5'
O
DG
HOH
12
55
1.90
1_555
2_664
1
B
B
N3
O3'
DG
DG
16
24
2.10
1_555
2_664
0.1570000
2.000
8.000
2540
1
2.000
TR
isotropic
TR
isotropic
2.000
8.000
67
586
33
486
0
fix
fix
refinement
NUCLSQ
DNA DODECAMER C-G-C-G-A-A-T-T-C-G-C-G/HOECHST 33258 COMPLEX: 0 DEGREES C, PIPERAZINE UP
1
N
N
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
metalc
1.928
A
MG
26
C
MG
MG
1_555
A
HOH
89
E
O
HOH
1_555
metalc
1.951
A
MG
26
C
MG
MG
1_555
A
HOH
90
E
O
HOH
1_555
metalc
2.029
A
MG
26
C
MG
MG
1_555
A
HOH
91
E
O
HOH
1_555
metalc
1.958
A
MG
26
C
MG
MG
1_555
A
HOH
93
E
O
HOH
1_555
metalc
1.985
A
MG
26
C
MG
MG
1_555
B
HOH
88
F
O
HOH
1_555
metalc
1.980
A
MG
26
C
MG
MG
1_555
B
HOH
92
F
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
24
B
N1
DG
12
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
24
B
O6
DG
12
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
24
B
N2
DG
12
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
23
B
N3
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
23
B
O2
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
23
B
N4
DC
11
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
B
DG
22
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
B
DG
22
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
B
DG
22
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
21
B
N3
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
21
B
O2
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
21
B
N4
DC
9
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
DT
20
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
DT
20
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
DT
19
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
DT
19
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
A
DT
7
A
N3
DT
7
1_555
B
DA
18
B
N1
DA
6
1_555
hydrog
WATSON-CRICK
A
DT
7
A
O4
DT
7
1_555
B
DA
18
B
N6
DA
6
1_555
hydrog
WATSON-CRICK
A
DT
8
A
N3
DT
8
1_555
B
DA
17
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
DT
8
A
O4
DT
8
1_555
B
DA
17
B
N6
DA
5
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N3
DC
9
1_555
B
DG
16
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N4
DC
9
1_555
B
DG
16
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
9
A
O2
DC
9
1_555
B
DG
16
B
N2
DG
4
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
15
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
15
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
15
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N3
DC
11
1_555
B
DG
14
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N4
DC
11
1_555
B
DG
14
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
11
A
O2
DC
11
1_555
B
DG
14
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
A
DG
12
A
N1
DG
12
1_555
B
DC
13
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
12
A
N2
DG
12
1_555
B
DC
13
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
12
A
O6
DG
12
1_555
B
DC
13
B
N4
DC
1
1_555
DNA
B-DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA
1D43
PDB
1
1D43
1
12
1D43
1
12
1D43
A
1
1
12
13
24
1D43
13
24
1D43
B
1
1
12
BINDING SITE FOR RESIDUE HT B 25
B
HT
25
Software
9
BINDING SITE FOR RESIDUE MG A 26
A
MG
26
Software
6
A
DA
6
A
DA
6
9
1_555
A
DT
7
A
DT
7
9
1_555
A
DT
8
A
DT
8
9
1_555
A
DC
9
A
DC
9
9
1_555
B
DA
18
B
DA
6
9
1_555
B
DT
19
B
DT
7
9
1_555
B
DT
20
B
DT
8
9
1_555
B
DC
21
B
DC
9
9
1_555
B
HOH
83
F
HOH
9
1_555
A
HOH
89
E
HOH
6
1_555
A
HOH
90
E
HOH
6
1_555
A
HOH
91
E
HOH
6
1_555
A
HOH
93
E
HOH
6
1_555
B
HOH
88
F
HOH
6
1_555
B
HOH
92
F
HOH
6
1_555
19
P 21 21 21