0.026631
0.015376
0.000000
0.000000
0.030751
0.000000
0.000000
0.000000
0.018392
0.00000
0.00000
0.00000
Cook, D.S.
Hall, J.P.
Cardin, C.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
37.550
37.550
54.371
C42 H26 N8 Ru
743.779
Delta-Ru(phen)2(dppz) complex
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
K 1
39.098
POTASSIUM ION
non-polymer
C42 H26 N8 Ru
743.779
Lambda-Ru(phen)2(dppz) complex
non-polymer
N
1
N
RU
Y
2
N
C
Y
3
N
N
Y
4
N
C
Y
5
N
N
Y
6
N
C
Y
7
N
N
Y
8
N
C
Y
9
N
N
Y
10
N
C
Y
11
N
N
Y
12
N
C
Y
13
N
C
Y
14
N
C
Y
15
N
N
Y
16
N
C
Y
17
N
N
Y
18
N
C
Y
19
N
C
Y
20
N
C
Y
21
N
N
Y
22
N
C
Y
23
N
C
Y
24
N
C
Y
25
N
C
Y
26
N
C
Y
27
N
C
Y
28
N
C
Y
29
N
C
Y
30
N
C
Y
31
N
C
Y
32
N
C
Y
33
N
C
Y
34
N
C
Y
35
N
C
Y
36
N
C
Y
37
N
C
Y
38
N
C
Y
39
N
C
Y
40
N
C
Y
41
N
C
Y
42
N
C
Y
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
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
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
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
O
N
79
N
P
N
80
N
O
N
81
N
O
N
82
N
O
N
83
N
C
N
84
R
C
N
85
N
O
N
86
S
C
N
87
N
O
N
88
N
C
N
89
R
C
Y
90
N
N
Y
91
N
C
Y
92
N
N
Y
93
N
C
Y
94
N
C
N
95
N
N
Y
96
N
N
Y
97
N
C
Y
98
N
N
Y
99
N
C
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
O
N
115
N
P
N
116
N
O
N
117
N
O
N
118
N
O
N
119
N
C
N
120
R
C
N
121
N
O
N
122
S
C
N
123
N
O
N
124
N
C
N
125
R
C
N
126
N
N
N
127
N
C
N
128
N
O
N
129
N
N
N
130
N
C
N
131
N
N
N
132
N
C
N
133
N
C
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
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
O
N
149
N
P
N
150
N
O
N
151
N
O
N
152
N
O
N
153
N
C
N
154
R
C
N
155
N
O
N
156
S
C
N
157
N
O
N
158
N
C
N
159
R
C
Y
160
N
N
Y
161
N
C
Y
162
N
N
Y
163
N
C
N
164
N
C
N
165
N
O
N
166
N
N
N
167
N
C
N
168
N
N
N
169
N
N
Y
170
N
C
N
171
N
H
N
172
N
H
N
173
N
H
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
O
N
186
N
P
N
187
N
O
N
188
N
O
N
189
N
O
N
190
N
C
N
191
R
C
N
192
N
O
N
193
S
C
N
194
N
O
N
195
N
C
N
196
R
C
N
197
N
N
N
198
N
C
N
199
N
O
N
200
N
N
N
201
N
C
N
202
N
O
N
203
N
C
N
204
N
C
N
205
N
C
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
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
O
N
222
N
H
N
223
N
H
N
224
N
K
N
225
N
RU
Y
226
N
C
Y
227
N
N
Y
228
N
C
Y
229
N
N
Y
230
N
C
Y
231
N
N
Y
232
N
C
Y
233
N
N
Y
234
N
C
Y
235
N
N
Y
236
N
C
Y
237
N
C
Y
238
N
C
Y
239
N
N
Y
240
N
C
Y
241
N
N
Y
242
N
C
Y
243
N
C
Y
244
N
C
Y
245
N
N
Y
246
N
C
Y
247
N
C
Y
248
N
C
Y
249
N
C
Y
250
N
C
Y
251
N
C
Y
252
N
C
Y
253
N
C
Y
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
Y
261
N
C
Y
262
N
C
Y
263
N
C
Y
264
N
C
Y
265
N
C
Y
266
N
C
Y
267
N
C
Y
268
N
C
Y
269
N
C
Y
270
N
C
Y
271
N
C
Y
272
N
C
Y
273
N
C
Y
274
N
C
Y
275
N
C
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
H
Y
1
N
doub
Y
2
N
sing
Y
3
N
sing
Y
4
N
doub
Y
5
N
doub
Y
6
N
sing
Y
7
N
doub
Y
8
N
sing
Y
9
N
doub
Y
10
N
sing
Y
11
N
sing
Y
12
N
sing
Y
13
N
sing
Y
14
N
doub
Y
15
N
sing
Y
16
N
sing
Y
17
N
doub
Y
18
N
doub
Y
19
N
sing
Y
20
N
doub
Y
21
N
sing
Y
22
N
sing
Y
23
N
sing
Y
24
N
doub
Y
25
N
sing
Y
26
N
doub
Y
27
N
sing
Y
28
N
sing
Y
29
N
doub
Y
30
N
doub
N
31
N
sing
Y
32
N
sing
Y
33
N
doub
Y
34
N
sing
Y
35
N
doub
N
36
N
sing
Y
37
N
sing
Y
38
N
sing
Y
39
N
sing
N
40
N
sing
Y
41
N
doub
Y
42
N
doub
Y
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
Y
47
N
doub
Y
48
N
sing
Y
49
N
doub
Y
50
N
sing
Y
51
N
sing
Y
52
N
doub
Y
53
N
sing
Y
54
N
sing
Y
55
N
doub
Y
56
N
doub
Y
57
N
sing
Y
58
N
sing
Y
59
N
doub
Y
60
N
sing
Y
61
N
doub
Y
62
N
sing
Y
63
N
doub
Y
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
sing
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
doub
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
Y
114
N
sing
Y
115
N
sing
Y
116
N
doub
N
117
N
sing
Y
118
N
sing
Y
119
N
sing
Y
120
N
doub
N
121
N
sing
Y
122
N
doub
N
123
N
sing
N
124
N
sing
Y
125
N
sing
Y
126
N
doub
N
127
N
sing
Y
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
doub
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
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
N
154
N
doub
N
155
N
sing
N
156
N
doub
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
doub
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
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
sing
Y
187
N
sing
Y
188
N
sing
Y
189
N
doub
N
190
N
sing
Y
191
N
sing
N
192
N
sing
Y
193
N
doub
N
194
N
doub
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
doub
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
doub
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
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
doub
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
doub
N
233
N
sing
N
234
N
sing
N
235
N
doub
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
Y
242
N
sing
Y
243
N
doub
Y
244
N
sing
Y
245
N
sing
Y
246
N
doub
Y
247
N
doub
Y
248
N
sing
Y
249
N
doub
Y
250
N
sing
Y
251
N
doub
Y
252
N
sing
Y
253
N
sing
Y
254
N
doub
Y
255
N
sing
Y
256
N
sing
Y
257
N
doub
Y
258
N
doub
Y
259
N
sing
Y
260
N
sing
Y
261
N
doub
Y
262
N
sing
Y
263
N
doub
Y
264
N
doub
Y
265
N
sing
Y
266
N
doub
Y
267
N
sing
Y
268
N
sing
Y
269
N
doub
Y
270
N
sing
Y
271
N
sing
Y
272
N
doub
Y
273
N
sing
Y
274
N
doub
Y
275
N
sing
Y
276
N
doub
Y
277
N
sing
Y
278
N
sing
Y
279
N
doub
Y
280
N
sing
Y
281
N
sing
Y
282
N
doub
Y
283
N
sing
Y
284
N
doub
Y
285
N
sing
Y
286
N
sing
Y
287
N
doub
Y
288
N
doub
Y
289
N
sing
Y
290
N
sing
Y
291
N
doub
Y
292
N
sing
Y
293
N
sing
Y
294
N
doub
Y
295
N
sing
Y
296
N
doub
Y
297
N
sing
Y
298
N
sing
Y
299
N
doub
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
US
J.Am.Chem.Soc.
JACSAT
0004
0002-7863
135
12652
12659
10.1021/ja403590e
23875832
X-ray Crystal Structure of rac-[Ru(phen)2dppz](2+) with d(ATGCAT)2 Shows Enantiomer Orientations and Water Ordering.
2013
10.2210/pdb4jd8/pdb
pdb_00004jd8
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
PIXEL
2012-10-07
DECTRIS PILATUS 6M
DUAL SI (111)
SINGLE WAVELENGTH
M
x-ray
1
0.9795
1.0
I02
Diamond
0.9795
SYNCHROTRON
DIAMOND BEAMLINE I02
1808.229
DNA (5'-D(*AP*TP*GP*CP*AP*T)-3')
2
syn
polymer
743.779
Delta-Ru(phen)2(dppz) complex
1
syn
non-polymer
743.779
Lambda-Ru(phen)2(dppz) complex
1
syn
non-polymer
39.098
POTASSIUM ION
1
syn
non-polymer
18.015
water
95
nat
water
no
no
(DA)(DT)(DG)(DC)(DA)(DT)
ATGCAT
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
1
3.06
59.80
6.3
1UL, 1mM D(ATGCAT)2 1UL, 3mM RAC-[RU(PHEN)2DPPZ]2CL 6UL, 40mM SPERMINE, 40mM SODIUM CACODYLATE PH 6.3, 10% MPD (V/V), 80 mM KCL, 20 mM BaCL2, 1ML OF 35% MPD, VAPOR DIFFUSION, SITTING DROP, temperature 293K
293
-10.207
1
20
A
1
B
6
1.755
A_DA1:DT6_B
1
7.445
0.109
-0.010
-0.160
11.815
1
20
A
2
B
5
2.394
A_DT2:DA5_B
2
9.408
-0.127
-0.009
-0.120
-1.886
1
19
A
3
B
4
0.747
A_DG3:DC4_B
3
10.615
-0.163
-0.204
-0.108
16.740
1
19
A
4
B
3
-0.624
A_DC4:DG3_B
4
1.365
0.361
-0.330
-0.149
-6.629
1
20
A
5
B
2
7.784
A_DA5:DT2_B
5
14.314
0.028
0.038
-0.108
9.947
1
20
A
6
B
1
2.259
A_DT6:DA1_B
6
7.483
0.033
-0.085
-0.146
2.844
26.654
A
A
1
2
11.116
B
B
6
5
2.939
5.093
0.841
-0.096
AA_DA1DT2:DA5DT6_BB
1
-0.746
1.627
26.161
-1.398
-1.998
6.698
31.692
A
A
2
3
3.235
B
B
5
4
6.876
1.741
0.089
1.866
AA_DT2DG3:DC4DA5_BB
2
9.373
-17.419
30.259
2.735
3.507
2.714
21.099
A
A
3
4
16.493
B
B
4
3
2.880
5.955
-0.345
-0.086
AA_DG3DC4:DG3DC4_BB
3
1.299
-3.597
20.209
-2.414
1.416
6.942
26.836
A
A
4
5
13.699
B
B
3
2
6.734
6.033
-1.698
1.875
AA_DC4DA5:DT2DG3_BB
4
-13.114
29.780
22.684
0.501
-4.034
2.815
17.436
A
A
5
6
14.945
B
B
2
1
3.017
4.475
-0.473
-0.217
AA_DA5DT6:DA1DT2_BB
5
1.408
-4.703
16.797
-3.212
2.347
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
Refinement description
1
0
2013-04-24
1
1
2013-09-18
1
2
2023-09-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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.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.value
_struct_conn.pdbx_dist_value
_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_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
2013-04-24
SPRSDE
Lower resolution model
RCSB
Y
RCSB
2013-02-24
REL
REL
0TN
Delta-Ru(phen)2(dppz) complex
RKP
Lambda-Ru(phen)2(dppz) complex
K
POTASSIUM ION
HOH
water
DNA Purchased from ATDBio
sample
4E87
PDB
experimental model
0TN
1
2
0TN
0TN
101
B
RKP
1
3
RKP
RKP
102
B
K
2
4
K
K
103
B
HOH
3
5
HOH
HOH
101
A
HOH
4
5
HOH
HOH
102
A
HOH
6
5
HOH
HOH
103
A
HOH
8
5
HOH
HOH
104
A
HOH
11
5
HOH
HOH
105
A
HOH
15
5
HOH
HOH
106
A
HOH
17
5
HOH
HOH
107
A
HOH
18
5
HOH
HOH
108
A
HOH
19
5
HOH
HOH
109
A
HOH
21
5
HOH
HOH
110
A
HOH
22
5
HOH
HOH
111
A
HOH
25
5
HOH
HOH
112
A
HOH
28
5
HOH
HOH
113
A
HOH
29
5
HOH
HOH
114
A
HOH
30
5
HOH
HOH
115
A
HOH
31
5
HOH
HOH
116
A
HOH
32
5
HOH
HOH
117
A
HOH
36
5
HOH
HOH
118
A
HOH
38
5
HOH
HOH
119
A
HOH
39
5
HOH
HOH
120
A
HOH
40
5
HOH
HOH
121
A
HOH
42
5
HOH
HOH
122
A
HOH
44
5
HOH
HOH
123
A
HOH
45
5
HOH
HOH
124
A
HOH
47
5
HOH
HOH
125
A
HOH
50
5
HOH
HOH
126
A
HOH
51
5
HOH
HOH
127
A
HOH
53
5
HOH
HOH
128
A
HOH
54
5
HOH
HOH
129
A
HOH
57
5
HOH
HOH
130
A
HOH
59
5
HOH
HOH
131
A
HOH
61
5
HOH
HOH
132
A
HOH
64
5
HOH
HOH
133
A
HOH
66
5
HOH
HOH
134
A
HOH
71
5
HOH
HOH
135
A
HOH
73
5
HOH
HOH
136
A
HOH
77
5
HOH
HOH
137
A
HOH
78
5
HOH
HOH
138
A
HOH
79
5
HOH
HOH
139
A
HOH
82
5
HOH
HOH
140
A
HOH
84
5
HOH
HOH
141
A
HOH
85
5
HOH
HOH
142
A
HOH
1
5
HOH
HOH
201
B
HOH
2
5
HOH
HOH
202
B
HOH
5
5
HOH
HOH
203
B
HOH
7
5
HOH
HOH
204
B
HOH
9
5
HOH
HOH
205
B
HOH
10
5
HOH
HOH
206
B
HOH
12
5
HOH
HOH
207
B
HOH
13
5
HOH
HOH
208
B
HOH
14
5
HOH
HOH
209
B
HOH
16
5
HOH
HOH
210
B
HOH
20
5
HOH
HOH
211
B
HOH
23
5
HOH
HOH
212
B
HOH
24
5
HOH
HOH
213
B
HOH
26
5
HOH
HOH
214
B
HOH
27
5
HOH
HOH
215
B
HOH
33
5
HOH
HOH
216
B
HOH
34
5
HOH
HOH
217
B
HOH
35
5
HOH
HOH
218
B
HOH
37
5
HOH
HOH
219
B
HOH
41
5
HOH
HOH
220
B
HOH
43
5
HOH
HOH
221
B
HOH
46
5
HOH
HOH
222
B
HOH
48
5
HOH
HOH
223
B
HOH
49
5
HOH
HOH
224
B
HOH
52
5
HOH
HOH
225
B
HOH
55
5
HOH
HOH
226
B
HOH
56
5
HOH
HOH
227
B
HOH
58
5
HOH
HOH
228
B
HOH
60
5
HOH
HOH
229
B
HOH
62
5
HOH
HOH
230
B
HOH
63
5
HOH
HOH
231
B
HOH
65
5
HOH
HOH
232
B
HOH
67
5
HOH
HOH
233
B
HOH
68
5
HOH
HOH
234
B
HOH
69
5
HOH
HOH
235
B
HOH
70
5
HOH
HOH
236
B
HOH
72
5
HOH
HOH
237
B
HOH
74
5
HOH
HOH
238
B
HOH
75
5
HOH
HOH
239
B
HOH
76
5
HOH
HOH
240
B
HOH
80
5
HOH
HOH
241
B
HOH
81
5
HOH
HOH
242
B
HOH
83
5
HOH
HOH
243
B
HOH
86
5
HOH
HOH
244
B
HOH
87
5
HOH
HOH
245
B
HOH
88
5
HOH
HOH
246
B
HOH
89
5
HOH
HOH
247
B
HOH
248
5
HOH
HOH
248
B
HOH
91
5
HOH
HOH
249
B
HOH
92
5
HOH
HOH
250
B
HOH
93
5
HOH
HOH
251
B
HOH
94
5
HOH
HOH
252
B
HOH
95
5
HOH
HOH
253
B
DA
1
n
1
DA
1
A
DT
2
n
2
DT
2
A
DG
3
n
3
DG
3
A
DC
4
n
4
DC
4
A
DA
5
n
5
DA
5
A
DT
6
n
6
DT
6
A
DA
1
n
1
DA
1
B
DT
2
n
2
DT
2
B
DG
3
n
3
DG
3
B
DC
4
n
4
DC
4
B
DA
5
n
5
DA
5
B
DT
6
n
6
DT
6
B
author_defined_assembly
2
dimeric
B
DC
4
B
OP1
DC
4
1_555
B
K
103
E
K
K
1_555
B
HOH
216
G
O
HOH
1_555
83.5
B
DC
4
B
OP1
DC
4
1_555
B
K
103
E
K
K
1_555
B
HOH
241
G
O
HOH
1_555
70.8
B
HOH
216
G
O
HOH
1_555
B
K
103
E
K
K
1_555
B
HOH
241
G
O
HOH
1_555
63.5
B
DC
4
B
OP1
DC
4
1_555
B
K
103
E
K
K
1_555
B
HOH
245
G
O
HOH
1_555
80.0
B
HOH
216
G
O
HOH
1_555
B
K
103
E
K
K
1_555
B
HOH
245
G
O
HOH
1_555
72.7
B
HOH
241
G
O
HOH
1_555
B
K
103
E
K
K
1_555
B
HOH
245
G
O
HOH
1_555
129.1
B
DC
4
B
OP1
DC
4
1_555
B
K
103
E
K
K
1_555
B
HOH
248
G
O
HOH
1_555
142.7
B
HOH
216
G
O
HOH
1_555
B
K
103
E
K
K
1_555
B
HOH
248
G
O
HOH
1_555
70.5
B
HOH
241
G
O
HOH
1_555
B
K
103
E
K
K
1_555
B
HOH
248
G
O
HOH
1_555
116.8
B
HOH
245
G
O
HOH
1_555
B
K
103
E
K
K
1_555
B
HOH
248
G
O
HOH
1_555
67.3
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
K
103
E
K
1
B
HOH
248
G
HOH
1
B
B
O
O
HOH
HOH
240
243
1.61
1
A
A
O
O
HOH
HOH
110
141
1.87
1
-7.37
0.90
105.70
98.33
A
A
A
O5'
P
OP2
DT
DT
DT
2
2
2
N
1
11.02
1.20
110.70
121.72
A
A
A
O5'
P
OP1
DT
DT
DT
6
6
6
N
1
-8.28
0.90
105.70
97.42
A
A
A
O5'
P
OP2
DT
DT
DT
6
6
6
N
1
-7.95
1.00
110.10
102.15
A
A
A
C1'
O4'
C4'
DT
DT
DT
6
6
6
N
1
3.27
0.30
108.30
111.57
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
1
4.09
0.30
108.30
112.39
B
B
B
O4'
C1'
N1
DC
DC
DC
4
4
4
N
1
A
B
O
O
HOH
HOH
137
243
2.08
1_555
3_454
0.162
0.138
0.139
1.16
32.52
789
15894
15678
5.030
98.1
0.110
1
1.340
MOLECULAR REPLACEMENT
18.350
0.90
1.11
4E87
ML
FLAT BULK SOLVENT MODEL
1.16
32.52
95
438
103
240
0
0.015
396
2.966
628
32.509
122
0.091
46
0.029
18
0.2602
0.2298
1.2295
142
2420
98.00
0.2273
0.1852
1.3244
125
2431
98.00
0.1811
0.1332
1.4577
134
2440
98.00
0.1515
0.1050
1.6687
128
2488
99.00
0.1346
0.1230
2.1023
137
2505
99.00
0.1607
0.1404
32.5319
123
2605
97.00
1.160
32.520
4JD8
15712
1.500
1
98.6
1.16
1.18
1
98.8
data collection
GDA
phasing
PHASER
refinement
PHENIX
(phenix.refine: 1.8.1_1168)
data reduction
MOSFLM
data scaling
Aimless
Racemic-[Ru(phen)2(dppz)]2+] bound to synthetic DNA at high resolution
1
N
N
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
5
N
N
metalc
2.705
B
DC
4
B
OP1
DC
4
1_555
B
K
103
E
K
K
1_555
metalc
2.884
B
K
103
E
K
K
1_555
B
HOH
216
G
O
HOH
1_555
metalc
2.986
B
K
103
E
K
K
1_555
B
HOH
241
G
O
HOH
1_555
metalc
2.605
B
K
103
E
K
K
1_555
B
HOH
245
G
O
HOH
1_555
metalc
2.791
B
K
103
E
K
K
1_555
B
HOH
248
G
O
HOH
1_555
hydrog
WATSON-CRICK
A
DA
1
A
N1
DA
1
1_555
B
DT
6
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
A
DA
1
A
N6
DA
1
1_555
B
DT
6
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
A
DT
2
A
N3
DT
2
1_555
B
DA
5
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
DT
2
A
O4
DT
2
1_555
B
DA
5
B
N6
DA
5
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
DC
4
B
N3
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
4
B
O2
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
4
B
N4
DC
4
1_555
hydrog
WATSON-CRICK
A
DC
4
A
N3
DC
4
1_555
B
DG
3
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
4
A
N4
DC
4
1_555
B
DG
3
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
4
A
O2
DC
4
1_555
B
DG
3
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
DT
2
B
N3
DT
2
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
DT
2
B
O4
DT
2
1_555
hydrog
WATSON-CRICK
A
DT
6
A
N3
DT
6
1_555
B
DA
1
B
N1
DA
1
1_555
hydrog
WATSON-CRICK
A
DT
6
A
O4
DT
6
1_555
B
DA
1
B
N6
DA
1
1_555
DNA
Intercalation, Racemic Ligand-DNA, DNA
4JD8
PDB
1
4JD8
ATGCAT
1
6
4JD8
1
6
4JD8
A
1
1
6
1
6
4JD8
1
6
4JD8
B
1
1
6
BINDING SITE FOR RESIDUE 0TN B 101
B
0TN
101
Software
8
BINDING SITE FOR RESIDUE RKP B 102
B
RKP
102
Software
8
BINDING SITE FOR RESIDUE K B 103
B
K
103
Software
10
A
DT
2
A
DT
2
8
1_555
A
DG
3
A
DG
3
8
1_555
A
DC
4
A
DC
4
8
1_555
A
DT
6
A
DT
6
8
5_564
B
DA
1
B
DA
1
8
5_564
B
DC
4
B
DC
4
8
1_555
B
DA
5
B
DA
5
8
1_555
B
DT
6
B
DT
6
8
1_555
A
DA
1
A
DA
1
8
2_565
A
DC
4
A
DC
4
8
1_555
A
DA
5
A
DA
5
8
1_555
A
DT
6
A
DT
6
8
1_555
B
DT
2
B
DT
2
8
1_555
B
DG
3
B
DG
3
8
1_555
B
DA
5
B
DA
5
8
2_565
B
DT
6
B
DT
6
8
2_565
B
DC
4
B
DC
4
10
1_555
B
DC
4
B
DC
4
10
5_554
B
HOH
216
G
HOH
10
1_555
B
HOH
216
G
HOH
10
5_554
B
HOH
241
G
HOH
10
1_555
B
HOH
241
G
HOH
10
5_554
B
HOH
245
G
HOH
10
1_555
B
HOH
245
G
HOH
10
5_554
B
HOH
248
G
HOH
10
5_554
B
HOH
248
G
HOH
10
1_555
152
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