0.033802
0.000000
0.000000
0.000000
0.018505
0.000000
0.000000
0.000000
0.024866
0.000000
0.000000
0.000000
Yang, X.-L.
Robinson, H.
Gao, Y.-G.
Wang, A.H.-J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.00
90.00
90.00
29.584
54.038
40.215
C46 H58 N8 O2 S2
819.135
MACROCYCLIC-BIS-9-AMINO-ACRIDINE
non-polymer
Co 2
58.933
COBALT (II) ION
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
H2 O
18.015
WATER
non-polymer
Mg 2
24.305
MAGNESIUM ION
non-polymer
Y
1
N
C
Y
2
N
C
Y
3
N
C
Y
4
N
C
Y
5
N
C
Y
6
N
C
Y
7
N
C
Y
8
N
C
Y
9
N
C
N
10
N
N
Y
11
N
N
Y
12
N
C
Y
13
N
C
Y
14
N
C
Y
15
N
C
N
16
N
C
N
17
N
C
N
18
N
C
N
19
N
N
N
20
N
C
N
21
N
C
N
22
N
C
N
23
N
C
N
24
N
N
N
25
N
C
N
26
N
C
N
27
N
C
N
28
N
C
N
29
N
S
N
30
N
C
N
31
N
C
N
32
N
N
N
33
N
C
N
34
N
O
N
35
N
C
N
36
N
C
N
37
N
C
N
38
N
O
N
39
N
N
N
40
N
C
N
41
N
C
N
42
N
S
N
43
N
C
Y
44
N
C
Y
45
N
C
Y
46
N
C
Y
47
N
C
Y
48
N
C
Y
49
N
C
Y
50
N
C
Y
51
N
C
Y
52
N
C
Y
53
N
N
Y
54
N
C
Y
55
N
C
Y
56
N
C
Y
57
N
C
N
58
N
N
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
H
N
72
N
H
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
H
N
79
N
H
N
80
N
H
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
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
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
CO
N
118
N
O
N
119
N
P
N
120
N
O
N
121
N
O
N
122
N
O
N
123
N
C
N
124
R
C
N
125
N
O
N
126
S
C
N
127
N
O
N
128
N
C
N
129
R
C
Y
130
N
N
Y
131
N
C
Y
132
N
N
Y
133
N
C
Y
134
N
C
N
135
N
N
Y
136
N
N
Y
137
N
C
Y
138
N
N
Y
139
N
C
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
O
N
155
N
P
N
156
N
O
N
157
N
O
N
158
N
O
N
159
N
C
N
160
R
C
N
161
N
O
N
162
S
C
N
163
N
O
N
164
N
C
N
165
R
C
N
166
N
N
N
167
N
C
N
168
N
O
N
169
N
N
N
170
N
C
N
171
N
N
N
172
N
C
N
173
N
C
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
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
O
N
189
N
P
N
190
N
O
N
191
N
O
N
192
N
O
N
193
N
C
N
194
R
C
N
195
N
O
N
196
S
C
N
197
N
O
N
198
N
C
N
199
R
C
Y
200
N
N
Y
201
N
C
Y
202
N
N
Y
203
N
C
N
204
N
C
N
205
N
O
N
206
N
N
N
207
N
C
N
208
N
N
N
209
N
N
Y
210
N
C
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
O
N
226
N
P
N
227
N
O
N
228
N
O
N
229
N
O
N
230
N
C
N
231
R
C
N
232
N
O
N
233
S
C
N
234
N
O
N
235
N
C
N
236
R
C
N
237
N
N
N
238
N
C
N
239
N
O
N
240
N
N
N
241
N
C
N
242
N
O
N
243
N
C
N
244
N
C
N
245
N
C
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
O
N
262
N
H
N
263
N
H
N
264
N
MG
Y
1
N
doub
Y
2
N
sing
N
3
N
sing
Y
4
N
sing
N
5
N
sing
Y
6
N
doub
N
7
N
sing
Y
8
N
sing
N
9
N
sing
Y
10
N
doub
Y
11
N
sing
N
12
N
sing
Y
13
N
sing
N
14
N
sing
Y
15
N
doub
N
16
N
sing
Y
17
N
sing
N
18
N
sing
N
19
N
sing
Y
20
N
doub
Y
21
N
sing
N
22
N
sing
N
23
N
sing
Y
24
N
doub
Y
25
N
sing
Y
26
N
sing
Y
27
N
doub
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
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
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
doub
N
75
N
sing
N
76
N
sing
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
N
97
N
sing
Y
98
N
doub
Y
99
N
sing
N
100
N
sing
Y
101
N
sing
N
102
N
sing
Y
103
N
doub
N
104
N
sing
Y
105
N
sing
N
106
N
sing
Y
107
N
doub
Y
108
N
sing
Y
109
N
sing
N
110
N
sing
Y
111
N
doub
N
112
N
sing
Y
113
N
sing
N
114
N
sing
Y
115
N
doub
Y
116
N
sing
N
117
N
sing
Y
118
N
doub
Y
119
N
sing
Y
120
N
sing
Y
121
N
doub
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
doub
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
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
Y
146
N
sing
Y
147
N
sing
Y
148
N
doub
N
149
N
sing
Y
150
N
sing
Y
151
N
sing
Y
152
N
doub
N
153
N
sing
Y
154
N
doub
N
155
N
sing
N
156
N
sing
Y
157
N
sing
Y
158
N
doub
N
159
N
sing
Y
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
doub
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
doub
N
187
N
sing
N
188
N
doub
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
doub
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
doub
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
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
Y
219
N
sing
Y
220
N
sing
Y
221
N
doub
N
222
N
sing
Y
223
N
sing
N
224
N
sing
Y
225
N
doub
N
226
N
doub
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
doub
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
doub
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
doub
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
doub
N
265
N
sing
N
266
N
sing
N
267
N
doub
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
39
10950
10957
10.1021/bi001319z
10998231
Binding of a macrocyclic bisacridine and ametantrone to CGTACG involves similar unusual intercalation platforms.
2000
10.2210/pdb1fd5/pdb
pdb_00001fd5
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
110
1
110
1
CCD
1999-08-28
CUSTOM-MADE
CCD
2000-02-05
CUSTOM-MADE
MAD
M
x-ray
1
0.7251
1.0
0.9199
1.0
0.9200
1.0
0.8856
1.0
19-ID
APS
0.7251, 0.9199, 0.9200,0.8856
SYNCHROTRON
APS BEAMLINE 19-ID
19-ID
APS
SYNCHROTRON
APS BEAMLINE 19-ID
1809.217
DNA (5'-D(*CP*GP*TP*AP*CP*G)-3')
2
syn
polymer
synthetic compound
58.933
COBALT (II) ION
2
syn
non-polymer
819.135
MACROCYCLIC-BIS-9-AMINO-ACRIDINE
1
syn
non-polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
74
nat
water
no
no
(DC)(DG)(DT)(DA)(DC)(DG)
CGTACG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
2
2.13
42.17
VAPOR DIFFUSION, SITTING DROP
6.0
MPD, sodium cacodylate buffer, magnesium chloride, cobalt chloride, spermine, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
298
-10.994
1
19
A
2
B
11
0.218
A_DG2:DC11_B
1
4.846
-0.311
-0.081
-0.109
-1.294
1
20
A
3
B
10
2.890
A_DT3:DA10_B
2
-1.748
0.096
0.189
-0.107
-0.156
1
20
A
4
B
9
-2.017
A_DA4:DT9_B
3
0.704
0.105
-0.045
-0.090
21.847
1
19
A
5
B
8
0.419
A_DC5:DG8_B
4
-2.049
0.307
-0.067
-0.096
3.022
26.652
A
A
2
3
10.178
B
B
11
10
3.145
4.663
-0.067
-0.408
AA_DG2DT3:DA10DC11_BB
1
-2.284
4.985
26.150
-2.045
-0.424
3.136
37.413
A
A
3
4
3.526
B
B
10
9
3.182
2.258
-0.057
-0.490
AA_DT3DA4:DT9DA10_BB
2
2.792
-4.358
37.246
-1.051
0.444
2.705
27.447
A
A
4
5
9.344
B
B
9
8
2.894
4.412
0.896
-0.543
AA_DA4DC5:DG8DT9_BB
3
-1.882
3.987
27.033
-2.081
-2.289
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
entity
pdbx_entity_src_syn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Refinement description
Data collection
Database references
Derived calculations
Source and taxonomy
Structure summary
1
0
2000-08-07
1
1
2008-04-27
1
2
2011-07-13
1
3
2019-07-24
1
4
2024-02-07
1
5
2024-03-13
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr1_symmetry
_pdbx_struct_conn_angle.ptnr2_auth_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.ptnr3_symmetry
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_asym_id
_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.ptnr1_symmetry
_struct_conn.ptnr2_auth_asym_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_conn.ptnr2_symmetry
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_entity.details
RCSB
Y
RCSB
2000-07-19
REL
REL
CO
COBALT (II) ION
B9A
MACROCYCLIC-BIS-9-AMINO-ACRIDINE
MG
MAGNESIUM ION
HOH
water
synthetic DNA moleclue
sample
CO5
21
2
CO
CO
21
A
TMR
13
3
B9A
B9A
13
A
COS
22
2
CO
CO
22
B
MG2
23
4
MG
MG
23
B
HOH
103
5
HOH
HOH
103
A
HOH
105
5
HOH
HOH
105
A
HOH
106
5
HOH
HOH
106
A
HOH
108
5
HOH
HOH
108
A
HOH
109
5
HOH
HOH
109
A
HOH
110
5
HOH
HOH
110
A
HOH
118
5
HOH
HOH
118
A
HOH
119
5
HOH
HOH
119
A
HOH
122
5
HOH
HOH
122
A
HOH
124
5
HOH
HOH
124
A
HOH
126
5
HOH
HOH
126
A
HOH
127
5
HOH
HOH
127
A
HOH
128
5
HOH
HOH
128
A
HOH
130
5
HOH
HOH
130
A
HOH
132
5
HOH
HOH
132
A
HOH
134
5
HOH
HOH
134
A
HOH
135
5
HOH
HOH
135
A
HOH
136
5
HOH
HOH
136
A
HOH
138
5
HOH
HOH
138
A
HOH
141
5
HOH
HOH
141
A
HOH
143
5
HOH
HOH
143
A
HOH
144
5
HOH
HOH
144
A
HOH
145
5
HOH
HOH
145
A
HOH
146
5
HOH
HOH
146
A
HOH
152
5
HOH
HOH
152
A
HOH
153
5
HOH
HOH
153
A
HOH
155
5
HOH
HOH
155
A
HOH
157
5
HOH
HOH
157
A
HOH
160
5
HOH
HOH
160
A
HOH
161
5
HOH
HOH
161
A
HOH
162
5
HOH
HOH
162
A
HOH
165
5
HOH
HOH
165
A
HOH
169
5
HOH
HOH
169
A
CO5
21
5
HOH
HOH
174
A
CO5
21
5
HOH
HOH
175
A
CO5
21
5
HOH
HOH
176
A
CO5
21
5
HOH
HOH
177
A
CO5
21
5
HOH
HOH
178
A
HOH
101
5
HOH
HOH
101
B
HOH
102
5
HOH
HOH
102
B
HOH
104
5
HOH
HOH
104
B
HOH
107
5
HOH
HOH
107
B
HOH
111
5
HOH
HOH
111
B
HOH
112
5
HOH
HOH
112
B
HOH
113
5
HOH
HOH
113
B
HOH
114
5
HOH
HOH
114
B
HOH
115
5
HOH
HOH
115
B
HOH
116
5
HOH
HOH
116
B
HOH
117
5
HOH
HOH
117
B
HOH
120
5
HOH
HOH
120
B
HOH
123
5
HOH
HOH
123
B
HOH
125
5
HOH
HOH
125
B
HOH
129
5
HOH
HOH
129
B
HOH
131
5
HOH
HOH
131
B
HOH
133
5
HOH
HOH
133
B
HOH
137
5
HOH
HOH
137
B
HOH
139
5
HOH
HOH
139
B
HOH
140
5
HOH
HOH
140
B
HOH
142
5
HOH
HOH
142
B
HOH
147
5
HOH
HOH
147
B
HOH
148
5
HOH
HOH
148
B
HOH
149
5
HOH
HOH
149
B
HOH
150
5
HOH
HOH
150
B
HOH
151
5
HOH
HOH
151
B
HOH
154
5
HOH
HOH
154
B
HOH
156
5
HOH
HOH
156
B
HOH
158
5
HOH
HOH
158
B
HOH
163
5
HOH
HOH
163
B
HOH
164
5
HOH
HOH
164
B
HOH
166
5
HOH
HOH
166
B
COS
22
5
HOH
HOH
170
B
COS
22
5
HOH
HOH
171
B
MG2
23
5
HOH
HOH
172
B
MG2
23
5
HOH
HOH
173
B
C
1
n
1
DC
1
A
G
2
n
2
DG
2
A
T
3
n
3
DT
3
A
A
4
n
4
DA
4
A
C
5
n
5
DC
5
A
G
6
n
6
DG
6
A
C
7
n
1
DC
7
B
G
8
n
2
DG
8
B
T
9
n
3
DT
9
B
A
10
n
4
DA
10
B
C
11
n
5
DC
11
B
G
12
n
6
DG
12
B
author_defined_assembly
2
dimeric
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
174
G
O
HOH
1_555
95.6
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
175
G
O
HOH
1_555
89.9
A
HOH
174
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
175
G
O
HOH
1_555
89.6
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
176
G
O
HOH
1_555
94.1
A
HOH
174
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
176
G
O
HOH
1_555
89.0
A
HOH
175
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
176
G
O
HOH
1_555
175.8
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
177
G
O
HOH
1_555
86.0
A
HOH
174
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
177
G
O
HOH
1_555
178.1
A
HOH
175
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
177
G
O
HOH
1_555
89.5
A
HOH
176
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
177
G
O
HOH
1_555
91.8
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
178
G
O
HOH
1_555
175.4
A
HOH
174
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
178
G
O
HOH
1_555
88.7
A
HOH
175
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
178
G
O
HOH
1_555
88.7
A
HOH
176
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
178
G
O
HOH
1_555
87.3
A
HOH
177
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
178
G
O
HOH
1_555
89.6
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
DG
8
B
OP2
DG
2
4_556
97.3
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
1_555
88.1
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
1_555
173.6
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
4_556
173.5
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
4_556
88.1
B
HOH
172
H
O
HOH
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
4_556
86.8
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
3_656
89.7
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
3_656
151.2
B
HOH
172
H
O
HOH
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
3_656
31.6
B
HOH
172
H
O
HOH
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
3_656
83.9
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
2_655
151.3
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
2_655
89.7
B
HOH
172
H
O
HOH
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
2_655
83.9
B
HOH
172
H
O
HOH
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
2_655
31.6
B
HOH
172
H
O
HOH
3_656
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
2_655
97.5
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
98.2
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
81.2
B
HOH
172
H
O
HOH
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
94.5
B
HOH
172
H
O
HOH
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
86.1
B
HOH
172
H
O
HOH
3_656
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
125.5
B
HOH
172
H
O
HOH
2_655
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
55.2
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
81.2
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
98.2
B
HOH
172
H
O
HOH
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
86.1
B
HOH
172
H
O
HOH
4_556
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
94.5
B
HOH
172
H
O
HOH
3_656
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
55.2
B
HOH
172
H
O
HOH
2_655
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
125.5
B
HOH
173
H
O
HOH
1_555
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
179.1
B
DG
12
B
N7
DG
6
1_555
B
CO
22
E
CO
CO
1_555
B
DG
12
B
N7
DG
6
3_755
178.7
B
DG
12
B
N7
DG
6
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
1_555
86.7
B
DG
12
B
N7
DG
6
3_755
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
1_555
92.3
B
DG
12
B
N7
DG
6
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
3_755
92.3
B
DG
12
B
N7
DG
6
3_755
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
3_755
86.7
B
HOH
170
H
O
HOH
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
3_755
85.4
B
DG
12
B
N7
DG
6
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
1_555
91.7
B
DG
12
B
N7
DG
6
3_755
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
1_555
89.1
B
HOH
170
H
O
HOH
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
1_555
88.4
B
HOH
170
H
O
HOH
3_755
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
1_555
172.3
B
DG
12
B
N7
DG
6
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
3_755
89.1
B
DG
12
B
N7
DG
6
3_755
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
3_755
91.7
B
HOH
170
H
O
HOH
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
3_755
172.3
B
HOH
170
H
O
HOH
3_755
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
3_755
88.4
B
HOH
171
H
O
HOH
1_555
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
3_755
98.2
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
B
CO
22
E
CO
1
B
MG
23
F
MG
1
A
HOH
134
G
HOH
1
B
HOH
102
H
HOH
1
B
HOH
149
H
HOH
1
B
HOH
158
H
HOH
1
A
O5'
DC
1
A
O5'
DC
1
1
Y
1
A
C5'
DC
1
A
C5'
DC
1
1
Y
1
A
C4'
DC
1
A
C4'
DC
1
1
Y
1
A
O4'
DC
1
A
O4'
DC
1
1
Y
1
A
C3'
DC
1
A
C3'
DC
1
1
Y
1
A
C2'
DC
1
A
C2'
DC
1
1
Y
1
A
C1'
DC
1
A
C1'
DC
1
1
Y
1
A
N1
DC
1
A
N1
DC
1
1
Y
1
A
C2
DC
1
A
C2
DC
1
1
Y
1
A
O2
DC
1
A
O2
DC
1
1
Y
1
A
N3
DC
1
A
N3
DC
1
1
Y
1
A
C4
DC
1
A
C4
DC
1
1
Y
1
A
N4
DC
1
A
N4
DC
1
1
Y
1
A
C5
DC
1
A
C5
DC
1
1
Y
1
A
C6
DC
1
A
C6
DC
1
1
Y
1
A
C16
B9A
13
D
C16
B9A
1
1
N
1
A
C17
B9A
13
D
C17
B9A
1
1
N
1
A
N18
B9A
13
D
N18
B9A
1
1
N
1
A
C19
B9A
13
D
C19
B9A
1
1
N
1
A
C20
B9A
13
D
C20
B9A
1
1
N
1
A
C21
B9A
13
D
C21
B9A
1
1
N
1
A
C22
B9A
13
D
C22
B9A
1
1
N
1
A
N23
B9A
13
D
N23
B9A
1
1
N
1
A
C24
B9A
13
D
C24
B9A
1
1
N
1
A
C25
B9A
13
D
C25
B9A
1
1
N
1
A
C26
B9A
13
D
C26
B9A
1
1
N
1
A
C28
B9A
13
D
C28
B9A
1
1
N
1
A
S29
B9A
13
D
S29
B9A
1
1
N
1
A
C30
B9A
13
D
C30
B9A
1
1
N
1
A
C31
B9A
13
D
C31
B9A
1
1
N
1
A
N32
B9A
13
D
N32
B9A
1
1
N
1
A
C33
B9A
13
D
C33
B9A
1
1
N
1
A
O34
B9A
13
D
O34
B9A
1
1
N
1
A
C35
B9A
13
D
C35
B9A
1
1
N
1
A
C36
B9A
13
D
C36
B9A
1
1
N
1
A
C37
B9A
13
D
C37
B9A
1
1
N
1
A
O38
B9A
13
D
O38
B9A
1
1
N
1
A
N39
B9A
13
D
N39
B9A
1
1
N
1
A
C40
B9A
13
D
C40
B9A
1
1
N
1
A
C41
B9A
13
D
C41
B9A
1
1
N
1
A
S42
B9A
13
D
S42
B9A
1
1
N
1
A
C43
B9A
13
D
C43
B9A
1
1
N
1
A
C1B
B9A
13
D
C1B
B9A
1
1
N
1
A
C2B
B9A
13
D
C2B
B9A
1
1
N
1
A
C3B
B9A
13
D
C3B
B9A
1
1
N
1
A
C4B
B9A
13
D
C4B
B9A
1
1
N
1
A
C5B
B9A
13
D
C5B
B9A
1
1
N
1
A
C6B
B9A
13
D
C6B
B9A
1
1
N
1
A
C7B
B9A
13
D
C7B
B9A
1
1
N
1
A
C8B
B9A
13
D
C8B
B9A
1
1
N
1
A
C9B
B9A
13
D
C9B
B9A
1
1
N
1
A
NAB
B9A
13
D
NAB
B9A
1
1
N
1
A
CBB
B9A
13
D
CBB
B9A
1
1
N
1
A
CCB
B9A
13
D
CCB
B9A
1
1
N
1
A
CDB
B9A
13
D
CDB
B9A
1
1
N
1
A
CEB
B9A
13
D
CEB
B9A
1
1
N
1
A
N9B
B9A
13
D
N9B
B9A
1
1
N
1
B
DG
8
0.067
SIDE CHAIN
1
B
DG
12
0.064
SIDE CHAIN
1
-4.95
0.50
129.30
124.35
A
A
A
N1
C2
N3
DA
DA
DA
4
4
4
N
1
3.62
0.50
110.60
114.22
A
A
A
C2
N3
C4
DA
DA
DA
4
4
4
N
1
-5.37
0.80
109.40
104.03
A
A
A
O5'
C5'
C4'
DG
DG
DG
6
6
6
N
1
-4.20
0.70
119.90
115.70
A
A
A
N3
C2
N2
DG
DG
DG
6
6
6
N
1
-5.45
0.70
108.00
102.55
B
B
B
O4'
C1'
N1
DC
DC
DC
7
7
7
N
1
3.09
0.50
103.90
106.99
B
B
B
C5
N7
C8
DA
DA
DA
10
10
10
N
1
-3.42
0.50
113.80
110.38
B
B
B
N7
C8
N9
DA
DA
DA
10
10
10
N
1
2.24
0.30
108.30
110.54
B
B
B
O4'
C1'
N9
DG
DG
DG
12
12
12
N
1
-3.95
0.60
119.90
115.95
B
B
B
N1
C6
O6
DG
DG
DG
12
12
12
N
0.2030000
0.1630000
0.1680000
1.1
10
544
12702
10911
random
1
4
2
G.PARKINSON, J.VOJTECHOVSKY, L.CLOWNEY, A.T.BRUNGER, H.M.BERMAN
1.1
10
65
318
28
225
0
0.014
2.0
23.0
1.1
100
1FD5
196823
196823
0
0
0.0570000
1
40.5
9.4
99.9
0.5970000
1.10
1.14
1293
7.2
100
refinement
SHELXL-97
refinement
CNS
data reduction
d*TREK
data scaling
HKL-2000
phasing
CNS
BINDING OF A MACROCYCLIC BISACRIDINE AND AMETANTRONE TO CGTACG INVOLVES SIMILAR UNUSUAL INTERCALATION PLATFORMS (BISACRIDINE COMPLEX)
1
N
N
1
N
N
2
N
N
3
N
N
2
N
N
4
N
N
5
N
N
5
N
N
metalc
2.124
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
metalc
1.997
A
CO
21
C
CO
CO
1_555
A
HOH
174
G
O
HOH
1_555
metalc
2.034
A
CO
21
C
CO
CO
1_555
A
HOH
175
G
O
HOH
1_555
metalc
1.995
A
CO
21
C
CO
CO
1_555
A
HOH
176
G
O
HOH
1_555
metalc
2.024
A
CO
21
C
CO
CO
1_555
A
HOH
177
G
O
HOH
1_555
metalc
2.005
A
CO
21
C
CO
CO
1_555
A
HOH
178
G
O
HOH
1_555
metalc
2.096
B
DG
8
B
OP2
DG
2
1_555
B
MG
23
F
MG
MG
1_555
metalc
2.096
B
DG
8
B
OP2
DG
2
4_556
B
MG
23
F
MG
MG
1_555
metalc
2.173
B
DG
12
B
N7
DG
6
1_555
B
CO
22
E
CO
CO
1_555
metalc
2.173
B
DG
12
B
N7
DG
6
3_755
B
CO
22
E
CO
CO
1_555
metalc
2.089
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
1_555
metalc
2.089
B
CO
22
E
CO
CO
1_555
B
HOH
170
H
O
HOH
3_755
metalc
2.022
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
1_555
metalc
2.022
B
CO
22
E
CO
CO
1_555
B
HOH
171
H
O
HOH
3_755
metalc
2.041
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
1_555
metalc
2.041
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
4_556
metalc
1.865
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
3_656
metalc
1.865
B
MG
23
F
MG
MG
1_555
B
HOH
172
H
O
HOH
2_655
metalc
2.049
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
1_555
metalc
2.050
B
MG
23
F
MG
MG
1_555
B
HOH
173
H
O
HOH
4_556
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
11
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
11
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
11
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
A
DT
3
A
N3
DT
3
1_555
B
DA
10
B
N1
DA
4
1_555
hydrog
WATSON-CRICK
A
DT
3
A
O4
DT
3
1_555
B
DA
10
B
N6
DA
4
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
B
DT
9
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
B
DT
9
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
8
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
8
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
8
B
N2
DG
2
1_555
DNA
High resolution crystal structure, intercalation platform, MAD, anticancer drug, drug-DNA complex, metal ions, tertiary base pairs, DNA
1FD5
PDB
1
1FD5
1
6
1FD5
1
6
1FD5
A
1
1
6
7
12
1FD5
7
12
1FD5
B
1
1
6
BINDING SITE FOR RESIDUE CO B 22
B
CO
22
Software
6
BINDING SITE FOR RESIDUE MG B 23
B
MG
23
Software
8
BINDING SITE FOR RESIDUE CO A 21
A
CO
21
Software
6
BINDING SITE FOR RESIDUE B9A A 13
A
B9A
13
Software
4
B
DG
12
B
DG
6
6
3_755
B
DG
12
B
DG
6
6
1_555
B
HOH
170
H
HOH
6
3_755
B
HOH
170
H
HOH
6
1_555
B
HOH
171
H
HOH
6
3_755
B
HOH
171
H
HOH
6
1_555
B
DG
8
B
DG
2
8
4_556
B
DG
8
B
DG
2
8
1_555
B
HOH
172
H
HOH
8
1_555
B
HOH
172
H
HOH
8
3_656
B
HOH
172
H
HOH
8
2_655
B
HOH
172
H
HOH
8
4_556
B
HOH
173
H
HOH
8
4_556
B
HOH
173
H
HOH
8
1_555
A
DG
2
A
DG
2
6
1_555
A
HOH
174
G
HOH
6
1_555
A
HOH
175
G
HOH
6
1_555
A
HOH
176
G
HOH
6
1_555
A
HOH
177
G
HOH
6
1_555
A
HOH
178
G
HOH
6
1_555
A
DC
5
A
DC
5
4
1_555
A
DG
6
A
DG
6
4
1_555
B
DC
7
B
DC
1
4
3_656
B
DG
8
B
DG
2
4
1_555
21
C 2 2 2