0.035702
0.000000
0.000000
0.000000
0.035702
0.000000
0.000000
0.000000
0.018829
0.00000
0.00000
0.00000
Gao, Y.-G.
Liaw, Y.-C.
Li, Y.-K.
Van Der Marel, G.A.
Van Boom, J.H.
Wang, A.H.-J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
28.010
28.010
53.110
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
C33 H39 N O13
657.662
4'-EPI-4'-(2-DEOXYFUCOSE)DAUNOMYCIN
MAR70; DAUNOMYCIN DERIVATIVE
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
Y
147
N
C
Y
148
N
C
Y
149
N
C
Y
150
N
C
N
151
N
O
Y
152
N
C
N
153
N
C
N
154
N
O
Y
155
N
C
Y
156
N
C
N
157
N
O
Y
158
N
C
N
159
S
C
N
160
N
O
N
161
N
C
N
162
S
C
N
163
N
O
N
164
N
C
N
165
N
O
N
166
N
C
N
167
N
C
Y
168
N
C
Y
169
N
C
N
170
N
O
Y
171
N
C
N
172
N
C
N
173
N
O
Y
174
N
C
N
175
N
C
N
176
R
C
N
177
N
C
N
178
S
C
N
179
N
N
N
180
S
C
N
181
N
O
N
182
S
C
N
183
N
O
N
184
N
C
N
185
S
C
N
186
N
C
N
187
S
C
N
188
N
O
N
189
R
C
N
190
N
O
N
191
S
C
N
192
N
O
N
193
N
C
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
H
N
204
N
H
N
205
N
H
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
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
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
Y
152
N
doub
Y
153
N
sing
N
154
N
sing
Y
155
N
sing
N
156
N
sing
Y
157
N
doub
N
158
N
sing
N
159
N
sing
Y
160
N
sing
N
161
N
sing
N
162
N
sing
Y
163
N
doub
N
164
N
doub
N
165
N
sing
Y
166
N
doub
Y
167
N
sing
N
168
N
sing
Y
169
N
sing
N
170
N
sing
N
171
N
sing
Y
172
N
doub
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
doub
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
Y
192
N
sing
N
193
N
sing
Y
194
N
doub
N
195
N
sing
N
196
N
sing
N
197
N
doub
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
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
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
88
4845
4849
10.1073/pnas.88.11.4845
2052564
Facile formation of a crosslinked adduct between DNA and the daunorubicin derivative MAR70 mediated by formaldehyde: molecular structure of the MAR70-d(CGTnACG) covalent adduct.
1991
UK
Anti-Cancer Drug Des.
ACDDEA
0807
0266-9536
6
137
Influence of Aglycone Modifications on the Binding of Anthracycline Drugs to DNA: The Molecular Structure of Idarubicin and 4-O-Demethyl-11- Deoxydoxorubicin Complexed to d(CGATCG)
1991
10.2210/pdb1d36/pdb
pdb_00001d36
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
ROOM TEMPERATURE
1
DIFFRACTOMETER
RIGAKU AFC-5R
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU
1809.217
DNA (5'-D(*CP*GP*TP*AP*CP*G)-3')
1
syn
polymer
657.662
4'-EPI-4'-(2-DEOXYFUCOSE)DAUNOMYCIN
1
syn
non-polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
68
nat
water
no
no
(DC)(DG)(DT)(DA)(DC)(DG)
CGTACG
A
polydeoxyribonucleotide
n
n
n
n
n
n
2.88
57.27
VAPOR DIFFUSION
6.00
pH 6.00, VAPOR DIFFUSION
ROOM TEMPERATURE
WATER
1
MPD
1
MGCL2
1
NA CACODYLATE
1
SPERMINE
1
WATER
2
MPD
2
5.560
1
19
A
1
A
6
-2.495
A_DC1:DG6_A
1
0.309
0.149
-0.027
-0.239
-16.978
1
19
A
2
A
5
0.273
A_DG2:DC5_A
2
2.730
-0.129
-0.312
-0.183
-4.954
1
20
A
3
A
4
3.579
A_DT3:DA4_A
3
-5.121
-0.175
0.041
-0.210
4.954
1
20
A
4
A
3
3.579
A_DA4:DT3_A
4
-5.121
0.175
0.041
-0.210
16.978
1
19
A
5
A
2
0.273
A_DC5:DG2_A
5
2.730
0.129
-0.312
-0.183
-5.560
1
19
A
6
A
1
-2.495
A_DG6:DC1_A
6
0.309
-0.149
-0.027
-0.239
6.993
36.095
A
A
1
2
-4.012
A
A
6
5
7.056
-2.484
1.151
1.237
AA_DC1DG2:DC5DG6_AA
1
1.235
-1.995
35.992
2.752
-1.481
3.212
28.357
A
A
2
3
-5.441
A
A
5
4
3.150
-2.658
-0.950
0.007
AA_DG2DT3:DA4DC5_AA
2
-2.759
5.648
28.102
0.614
1.318
3.182
39.018
A
A
3
4
13.773
A
A
4
3
3.214
9.121
0.000
0.225
AA_DT3DA4:DT3DA4_AA
3
0.000
0.000
37.978
-0.754
0.000
3.212
28.357
A
A
4
5
-5.441
A
A
3
2
3.150
-2.658
0.950
0.007
AA_DA4DC5:DG2DT3_AA
4
2.759
-5.648
28.102
0.614
-1.318
6.993
36.095
A
A
5
6
-4.012
A
A
2
1
7.056
-2.484
-1.151
1.237
AA_DC5DG6:DC1DG2_AA
5
-1.235
1.995
35.992
2.752
1.481
chem_comp
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
Data collection
Database references
Derived calculations
Structure summary
1
0
1992-04-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
_chem_comp.pdbx_synonyms
_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_conn.ptnr2_label_seq_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1991-04-23
REL
MAR
4'-EPI-4'-(2-DEOXYFUCOSE)DAUNOMYCIN
MG
MAGNESIUM ION
HOH
water
MAR
7
2
MAR
MAR
7
A
MG
8
3
MG
MG
8
A
HOH
9
4
HOH
HOH
9
A
HOH
10
4
HOH
HOH
10
A
HOH
11
4
HOH
HOH
11
A
HOH
12
4
HOH
HOH
12
A
HOH
13
4
HOH
HOH
13
A
HOH
14
4
HOH
HOH
14
A
HOH
15
4
HOH
HOH
15
A
HOH
16
4
HOH
HOH
16
A
HOH
17
4
HOH
HOH
17
A
HOH
18
4
HOH
HOH
18
A
HOH
19
4
HOH
HOH
19
A
HOH
20
4
HOH
HOH
20
A
HOH
21
4
HOH
HOH
21
A
HOH
22
4
HOH
HOH
22
A
HOH
23
4
HOH
HOH
23
A
HOH
24
4
HOH
HOH
24
A
HOH
25
4
HOH
HOH
25
A
HOH
26
4
HOH
HOH
26
A
HOH
27
4
HOH
HOH
27
A
HOH
28
4
HOH
HOH
28
A
HOH
29
4
HOH
HOH
29
A
HOH
30
4
HOH
HOH
30
A
HOH
31
4
HOH
HOH
31
A
HOH
32
4
HOH
HOH
32
A
HOH
33
4
HOH
HOH
33
A
HOH
34
4
HOH
HOH
34
A
HOH
35
4
HOH
HOH
35
A
HOH
36
4
HOH
HOH
36
A
HOH
37
4
HOH
HOH
37
A
HOH
38
4
HOH
HOH
38
A
HOH
39
4
HOH
HOH
39
A
HOH
40
4
HOH
HOH
40
A
HOH
41
4
HOH
HOH
41
A
HOH
42
4
HOH
HOH
42
A
HOH
43
4
HOH
HOH
43
A
HOH
44
4
HOH
HOH
44
A
HOH
45
4
HOH
HOH
45
A
HOH
46
4
HOH
HOH
46
A
HOH
47
4
HOH
HOH
47
A
HOH
48
4
HOH
HOH
48
A
HOH
49
4
HOH
HOH
49
A
HOH
50
4
HOH
HOH
50
A
HOH
51
4
HOH
HOH
51
A
HOH
52
4
HOH
HOH
52
A
HOH
53
4
HOH
HOH
53
A
HOH
54
4
HOH
HOH
54
A
HOH
55
4
HOH
HOH
55
A
HOH
56
4
HOH
HOH
56
A
HOH
57
4
HOH
HOH
57
A
HOH
58
4
HOH
HOH
58
A
HOH
59
4
HOH
HOH
59
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
64
4
HOH
HOH
64
A
HOH
65
4
HOH
HOH
65
A
HOH
66
4
HOH
HOH
66
A
HOH
67
4
HOH
HOH
67
A
HOH
68
4
HOH
HOH
68
A
HOH
69
4
HOH
HOH
69
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
74
4
HOH
HOH
74
A
HOH
75
4
HOH
HOH
75
A
HOH
76
4
HOH
HOH
76
A
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
author_defined_assembly
2
dimeric
A
DG
6
A
N7
DG
6
1_555
A
MG
8
C
MG
MG
1_555
A
MAR
7
B
O6
MAR
1_555
74.0
A
DG
6
A
N7
DG
6
1_555
A
MG
8
C
MG
MG
1_555
A
MAR
7
B
O4
MAR
1_555
123.2
A
MAR
7
B
O6
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
MAR
7
B
O4
MAR
1_555
50.5
A
DG
6
A
N7
DG
6
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
9
D
O
HOH
1_555
95.1
A
MAR
7
B
O6
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
9
D
O
HOH
1_555
95.6
A
MAR
7
B
O4
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
9
D
O
HOH
1_555
81.0
A
DG
6
A
N7
DG
6
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
10
D
O
HOH
1_555
100.6
A
MAR
7
B
O6
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
10
D
O
HOH
1_555
109.8
A
MAR
7
B
O4
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
10
D
O
HOH
1_555
107.8
A
HOH
9
D
O
HOH
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
10
D
O
HOH
1_555
152.9
A
DG
6
A
N7
DG
6
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
11
D
O
HOH
1_555
125.8
A
MAR
7
B
O6
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
11
D
O
HOH
1_555
155.0
A
MAR
7
B
O4
MAR
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
11
D
O
HOH
1_555
105.9
A
HOH
9
D
O
HOH
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
11
D
O
HOH
1_555
69.7
A
HOH
10
D
O
HOH
1_555
A
MG
8
C
MG
MG
1_555
A
HOH
11
D
O
HOH
1_555
83.2
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
0.0000000000
-1.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
8_665
-y+1,-x+1,-z+1/2
crystal symmetry operation
28.0100000000
28.0100000000
26.5550000000
1
A
A
OP2
O
DC
HOH
5
38
1.91
1
A
A
O
O
HOH
HOH
15
38
1.91
1
2.96
0.30
108.30
111.26
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
-2.92
0.40
120.30
117.38
A
A
A
C6
N1
C2
DC
DC
DC
1
1
1
N
1
-4.65
0.40
121.90
117.25
A
A
A
N3
C4
C5
DC
DC
DC
1
1
1
N
1
4.82
0.70
118.00
122.82
A
A
A
N3
C4
N4
DC
DC
DC
1
1
1
N
1
19.70
1.20
119.70
139.40
A
A
A
C3'
O3'
P
DC
DC
DG
1
1
2
Y
1
-13.03
1.90
104.00
90.97
A
A
A
O3'
P
O5'
DC
DG
DG
1
2
2
Y
1
-4.93
0.80
102.40
97.47
A
A
A
C3'
C2'
C1'
DG
DG
DG
2
2
2
N
1
10.15
0.30
108.30
118.45
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
1
7.43
1.20
119.70
127.13
A
A
A
C3'
O3'
P
DG
DG
DT
2
2
3
Y
1
5.53
0.60
114.60
120.13
A
A
A
N1
C2
N3
DT
DT
DT
3
3
3
N
1
-6.54
0.60
127.20
120.66
A
A
A
C2
N3
C4
DT
DT
DT
3
3
3
N
1
4.29
0.60
115.20
119.49
A
A
A
N3
C4
C5
DT
DT
DT
3
3
3
N
1
-5.17
0.80
123.10
117.93
A
A
A
N1
C2
O2
DT
DT
DT
3
3
3
N
1
-6.28
0.60
119.90
113.62
A
A
A
N3
C4
O4
DT
DT
DT
3
3
3
N
1
29.24
1.50
119.60
148.84
A
A
A
OP1
P
OP2
DA
DA
DA
4
4
4
N
1
-10.55
0.90
105.70
95.15
A
A
A
O5'
P
OP2
DA
DA
DA
4
4
4
N
1
7.79
1.10
109.80
117.59
A
A
A
C5'
C4'
O4'
DA
DA
DA
4
4
4
N
1
5.38
0.60
118.60
123.98
A
A
A
C6
N1
C2
DA
DA
DA
4
4
4
N
1
-3.66
0.50
117.70
114.04
A
A
A
C5
C6
N1
DA
DA
DA
4
4
4
N
1
9.87
1.20
119.70
129.57
A
A
A
C3'
O3'
P
DA
DA
DC
4
4
5
Y
1
8.21
0.30
108.30
116.51
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
1
-14.24
2.20
105.20
90.96
A
A
A
O3'
P
OP2
DC
DG
DG
5
6
6
Y
1
9.06
1.10
110.50
119.56
A
A
A
O3'
P
OP1
DC
DG
DG
5
6
6
Y
1
-6.10
0.70
108.00
101.90
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
1
4.44
0.50
111.50
115.94
A
A
A
C5
C6
N1
DG
DG
DG
6
6
6
N
1
-6.63
0.60
128.60
121.97
A
A
A
C5
C6
O6
DG
DG
DG
6
6
6
N
1
A
A
P
O5'
DG
DG
2
2
0.108
0.010
1.593
1.701
N
1
A
A
C6
N1
DG
DG
2
2
-0.042
0.007
1.391
1.349
N
1
A
A
O4'
C4'
DT
DT
3
3
-0.061
0.010
1.446
1.385
N
1
A
A
C3'
C2'
DA
DA
4
4
-0.053
0.008
1.516
1.463
N
1
A
A
O4'
C4'
DA
DA
4
4
-0.068
0.010
1.446
1.378
N
1
A
A
C2
N3
DA
DA
4
4
0.058
0.009
1.331
1.389
N
1
A
A
N7
C8
DA
DA
4
4
-0.055
0.007
1.311
1.256
N
1
A
A
P
O5'
DC
DC
5
5
0.077
0.010
1.593
1.670
N
1
A
A
P
O5'
DG
DG
6
6
0.097
0.010
1.593
1.690
N
1
A
A
O4'
C1'
DG
DG
6
6
0.074
0.011
1.420
1.494
N
1
A
A
C6
N1
DG
DG
6
6
-0.058
0.007
1.391
1.333
N
1
A
A
C8
N9
DG
DG
6
6
-0.056
0.007
1.374
1.318
N
0.1640000
1.500
2168
1
2.000
TR
isotropic
TR
isotropic
1.500
68
236
48
120
0
0.025
0.164
fix
fix
1.500
1D36
2168
2.000
1
refinement
NUCLSQ
FACILE FORMATION OF A CROSSLINKED ADDUCT BETWEEN DNA AND THE DAUNORUBICIN DERIVATIVE MAR70 MEDIATED BY FORMALDEHYDE: MOLECULAR STRUCTURE OF THE MAR70-D(CGTNACG) COVALENT ADDUC
1
N
N
2
N
N
3
N
N
4
N
N
metalc
2.764
A
DG
6
A
N7
DG
6
1_555
A
MG
8
C
MG
MG
1_555
metalc
3.090
A
MAR
7
B
O6
MAR
1_555
A
MG
8
C
MG
MG
1_555
metalc
2.976
A
MAR
7
B
O4
MAR
1_555
A
MG
8
C
MG
MG
1_555
metalc
3.072
A
MG
8
C
MG
MG
1_555
A
HOH
9
D
O
HOH
1_555
metalc
2.961
A
MG
8
C
MG
MG
1_555
A
HOH
10
D
O
HOH
1_555
metalc
2.852
A
MG
8
C
MG
MG
1_555
A
HOH
11
D
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
A
DG
6
A
N1
DG
6
8_665
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
A
DG
6
A
O6
DG
6
8_665
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
A
DG
6
A
N2
DG
6
8_665
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
A
DC
5
A
N3
DC
5
8_665
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
A
DC
5
A
O2
DC
5
8_665
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
A
DC
5
A
N4
DC
5
8_665
hydrog
WATSON-CRICK
A
DT
3
A
N3
DT
3
1_555
A
DA
4
A
N1
DA
4
8_665
hydrog
WATSON-CRICK
A
DT
3
A
O4
DT
3
1_555
A
DA
4
A
N6
DA
4
8_665
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
A
DT
3
A
N3
DT
3
8_665
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
A
DT
3
A
O4
DT
3
8_665
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
A
DG
2
A
N1
DG
2
8_665
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
A
DG
2
A
O6
DG
2
8_665
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
A
DG
2
A
N2
DG
2
8_665
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
A
DC
1
A
N3
DC
1
8_665
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
A
DC
1
A
O2
DC
1
8_665
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
A
DC
1
A
N4
DC
1
8_665
DNA
RIGHT HANDED DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA
1D36
PDB
1
1D36
1
6
1D36
1
6
1D36
A
1
1
6
BINDING SITE FOR RESIDUE MAR A 7
A
MAR
7
Software
13
BINDING SITE FOR RESIDUE MG A 8
A
MG
8
Software
5
A
DC
1
A
DC
1
13
8_665
A
DG
2
A
DG
2
13
8_665
A
DT
3
A
DT
3
13
8_665
A
DA
4
A
DA
4
13
1_555
A
DA
4
A
DA
4
13
8_665
A
DC
5
A
DC
5
13
1_555
A
DG
6
A
DG
6
13
1_555
A
MG
8
C
MG
13
1_555
A
HOH
17
D
HOH
13
1_555
A
HOH
30
D
HOH
13
1_555
A
HOH
41
D
HOH
13
1_555
A
HOH
62
D
HOH
13
1_555
A
HOH
71
D
HOH
13
1_555
A
DG
6
A
DG
6
5
1_555
A
MAR
7
B
MAR
5
1_555
A
HOH
9
D
HOH
5
1_555
A
HOH
10
D
HOH
5
1_555
A
HOH
11
D
HOH
5
1_555
92
P 41 21 2