0.040000
0.000000
0.000000
0.000000
0.024462
0.000000
0.000000
0.000000
0.014863
0.00000
0.00000
0.00000
Nunn, C.M.
Jenkins, T.C.
Neidle, S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
25.000
40.880
67.280
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
C17 H20 N4 O2
312.366
1,3-BIS(AMIDINOPHENOXY)PROPANE
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
Y
151
N
C
Y
152
N
C
N
153
N
C
N
154
N
N
N
155
N
N
Y
156
N
C
Y
157
N
C
Y
158
N
C
Y
159
N
C
Y
160
N
C
Y
161
N
C
N
162
N
C
N
163
N
N
N
164
N
N
N
165
N
C
N
166
N
O
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
H
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
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
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
Y
159
N
sing
N
160
N
sing
Y
161
N
doub
N
162
N
sing
N
163
N
sing
N
164
N
doub
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
Y
169
N
doub
Y
170
N
sing
N
171
N
sing
Y
172
N
sing
N
173
N
sing
Y
174
N
doub
N
175
N
sing
Y
176
N
sing
N
177
N
sing
Y
178
N
doub
N
179
N
sing
N
180
N
sing
N
181
N
doub
N
182
N
sing
N
183
N
sing
N
184
N
sing
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
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
32
13838
13843
10.1021/bi00213a012
8268158
Crystal structure of d(CGCGAATTCGCG) complexed with propamidine, a short-chain homologue of the drug pentamidine.
1993
10.2210/pdb1prp/pdb
pdb_00001prp
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
289.00
1
AREA DETECTOR
XENTRONICS
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
3663.392
DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3')
2
syn
polymer
312.366
1,3-BIS(AMIDINOPHENOXY)PROPANE
1
syn
non-polymer
18.015
water
69
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
2.35
47.57
VAPOR DIFFUSION, SITTING DROP
7.00
pH 7.00, VAPOR DIFFUSION, SITTING DROP
WATER
1
MPD
1
MGCL2
1
NA CACODYLATE
1
WATER
2
MPD
2
7.339
1
19
A
1
B
24
0.840
A_DC1:DG24_B
1
-16.000
0.340
0.030
-0.133
1.681
1
19
A
2
B
23
-6.782
A_DG2:DC23_B
2
-11.039
-0.453
0.248
-0.409
-5.939
1
19
A
3
B
22
-2.747
A_DC3:DG22_B
3
-4.305
0.215
0.137
-0.466
5.899
1
19
A
4
B
21
-3.564
A_DG4:DC21_B
4
-10.654
-0.582
-0.071
-0.133
-0.430
1
20
A
5
B
20
-2.831
A_DA5:DT20_B
5
-16.115
0.197
-0.289
-0.269
-1.109
1
20
A
6
B
19
0.169
A_DA6:DT19_B
6
-22.225
0.094
0.066
-0.059
0.999
1
20
A
7
B
18
7.276
A_DT7:DA18_B
7
-13.844
0.126
0.189
-0.156
-4.516
1
20
A
8
B
17
3.018
A_DT8:DA17_B
8
-14.242
0.203
0.011
-0.191
-2.058
1
19
A
9
B
16
-0.884
A_DC9:DG16_B
9
-10.329
-0.109
-0.019
-0.204
2.860
1
19
A
10
B
15
0.645
A_DG10:DC15_B
10
-5.535
-0.499
0.119
-0.415
3.200
1
19
A
11
B
14
-8.134
A_DC11:DG14_B
11
-21.403
-0.075
0.242
-0.204
5.329
1
19
A
12
B
13
-6.677
A_DG12:DC13_B
12
15.569
-0.192
0.045
-0.269
3.630
34.440
A
A
1
2
11.155
B
B
24
23
3.650
6.554
-0.428
0.099
AA_DC1DG2:DC23DG24_BB
1
-3.815
6.494
33.620
-0.982
0.053
3.562
41.295
A
A
2
3
-9.469
B
B
23
22
3.661
-6.648
0.566
0.513
AA_DG2DC3:DG22DC23_BB
2
2.185
-3.112
40.724
1.522
-0.541
3.289
27.265
A
A
3
4
19.129
B
B
22
21
3.282
8.841
-0.229
0.701
AA_DC3DG4:DC21DG22_BB
3
3.014
-6.521
25.643
-0.802
1.266
3.421
39.732
A
A
4
5
6.757
B
B
21
20
3.446
4.583
-0.129
-0.030
AA_DG4DA5:DT20DC21_BB
4
0.068
-0.100
39.477
-0.606
0.199
3.276
38.358
A
A
5
6
2.192
B
B
20
19
3.296
1.440
0.270
-0.270
AA_DA5DA6:DT19DT20_BB
5
-1.035
1.576
38.318
-0.592
-0.541
3.262
29.912
A
A
6
7
2.713
B
B
19
18
3.291
1.400
0.427
-0.591
AA_DA6DT7:DA18DT19_BB
6
0.112
-0.217
29.880
-1.436
-0.804
3.407
37.446
A
A
7
8
0.956
B
B
18
17
3.429
0.614
-0.385
-0.021
AA_DT7DT8:DA17DA18_BB
7
1.797
-2.799
37.400
-0.116
0.847
3.287
37.284
A
A
8
9
-2.412
B
B
17
16
3.285
-1.541
-0.219
0.016
AA_DT8DC9:DG16DA17_BB
8
-1.285
2.011
37.232
0.230
0.171
3.549
29.086
A
A
9
10
7.430
B
B
16
15
3.503
3.717
0.337
0.927
AA_DC9DG10:DC15DG16_BB
9
-2.604
5.206
28.737
0.963
-1.290
3.314
43.484
A
A
10
11
-16.076
B
B
15
14
3.449
-11.753
-1.376
0.555
AA_DG10DC11:DG14DC15_BB
10
-4.805
6.572
41.676
1.951
1.366
3.587
38.590
A
A
11
12
-14.186
B
B
14
13
3.671
-9.260
0.798
0.251
AA_DC11DG12:DC13DG14_BB
11
5.479
-8.393
37.115
1.675
-0.442
chem_comp_atom
chem_comp_bond
database_2
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
1994-01-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1993-07-23
REL
REL
TNT
1,3-BIS(AMIDINOPHENOXY)PROPANE
HOH
water
TNT
25
2
TNT
TNT
25
A
HOH
26
3
HOH
HOH
26
A
HOH
27
3
HOH
HOH
27
A
HOH
28
3
HOH
HOH
28
A
HOH
29
3
HOH
HOH
29
A
HOH
30
3
HOH
HOH
30
A
HOH
31
3
HOH
HOH
31
A
HOH
36
3
HOH
HOH
36
A
HOH
39
3
HOH
HOH
39
A
HOH
42
3
HOH
HOH
42
A
HOH
43
3
HOH
HOH
43
A
HOH
44
3
HOH
HOH
44
A
HOH
45
3
HOH
HOH
45
A
HOH
48
3
HOH
HOH
48
A
HOH
51
3
HOH
HOH
51
A
HOH
53
3
HOH
HOH
53
A
HOH
58
3
HOH
HOH
58
A
HOH
61
3
HOH
HOH
61
A
HOH
62
3
HOH
HOH
62
A
HOH
63
3
HOH
HOH
63
A
HOH
64
3
HOH
HOH
64
A
HOH
65
3
HOH
HOH
65
A
HOH
66
3
HOH
HOH
66
A
HOH
67
3
HOH
HOH
67
A
HOH
69
3
HOH
HOH
69
A
HOH
70
3
HOH
HOH
70
A
HOH
71
3
HOH
HOH
71
A
HOH
76
3
HOH
HOH
76
A
HOH
78
3
HOH
HOH
78
A
HOH
80
3
HOH
HOH
80
A
HOH
81
3
HOH
HOH
81
A
HOH
82
3
HOH
HOH
82
A
HOH
83
3
HOH
HOH
83
A
HOH
84
3
HOH
HOH
84
A
HOH
86
3
HOH
HOH
86
A
HOH
87
3
HOH
HOH
87
A
HOH
88
3
HOH
HOH
88
A
HOH
90
3
HOH
HOH
90
A
HOH
91
3
HOH
HOH
91
A
HOH
92
3
HOH
HOH
92
A
HOH
93
3
HOH
HOH
93
A
HOH
32
3
HOH
HOH
32
B
HOH
33
3
HOH
HOH
33
B
HOH
34
3
HOH
HOH
34
B
HOH
35
3
HOH
HOH
35
B
HOH
37
3
HOH
HOH
37
B
HOH
38
3
HOH
HOH
38
B
HOH
40
3
HOH
HOH
40
B
HOH
41
3
HOH
HOH
41
B
HOH
46
3
HOH
HOH
46
B
HOH
47
3
HOH
HOH
47
B
HOH
49
3
HOH
HOH
49
B
HOH
50
3
HOH
HOH
50
B
HOH
52
3
HOH
HOH
52
B
HOH
54
3
HOH
HOH
54
B
HOH
55
3
HOH
HOH
55
B
HOH
56
3
HOH
HOH
56
B
HOH
57
3
HOH
HOH
57
B
HOH
59
3
HOH
HOH
59
B
HOH
60
3
HOH
HOH
60
B
HOH
68
3
HOH
HOH
68
B
HOH
72
3
HOH
HOH
72
B
HOH
73
3
HOH
HOH
73
B
HOH
74
3
HOH
HOH
74
B
HOH
75
3
HOH
HOH
75
B
HOH
77
3
HOH
HOH
77
B
HOH
79
3
HOH
HOH
79
B
HOH
85
3
HOH
HOH
85
B
HOH
89
3
HOH
HOH
89
B
HOH
94
3
HOH
HOH
94
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
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
A
DC
3
0.084
SIDE CHAIN
1
B
DA
18
0.055
SIDE CHAIN
1
-4.89
0.80
105.90
101.01
A
A
A
O4'
C1'
C2'
DC
DC
DC
1
1
1
N
1
2.19
0.30
108.30
110.49
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
4.71
0.60
118.90
123.61
A
A
A
N1
C2
O2
DC
DC
DC
1
1
1
N
1
3.16
0.50
111.90
115.06
A
A
A
C2
N3
C4
DG
DG
DG
2
2
2
N
1
6.70
0.30
108.30
115.00
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
-5.81
0.80
105.90
100.09
A
A
A
O4'
C1'
C2'
DA
DA
DA
5
5
5
N
1
-6.63
1.00
110.10
103.47
A
A
A
C1'
O4'
C4'
DT
DT
DT
7
7
7
N
1
-5.55
0.80
105.90
100.35
A
A
A
O4'
C1'
C2'
DT
DT
DT
7
7
7
N
1
3.87
0.60
118.00
121.87
A
A
A
C4
C5
C6
DT
DT
DT
7
7
7
N
1
-7.90
0.80
105.90
98.00
A
A
A
O4'
C1'
C2'
DT
DT
DT
8
8
8
N
1
3.62
0.60
118.00
121.62
A
A
A
C4
C5
C6
DT
DT
DT
8
8
8
N
1
-4.76
0.60
122.30
117.54
A
A
A
N3
C2
O2
DT
DT
DT
8
8
8
N
1
-5.55
0.60
122.90
117.35
A
A
A
C6
C5
C7
DT
DT
DT
8
8
8
N
1
9.98
1.20
119.70
129.68
A
A
A
C3'
O3'
P
DT
DT
DC
8
8
9
Y
1
-7.20
0.80
105.90
98.70
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
1
5.24
0.60
118.90
124.14
A
A
A
N1
C2
O2
DC
DC
DC
9
9
9
N
1
5.28
0.30
108.30
113.58
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
-2.79
0.40
104.50
101.71
A
A
A
O4'
C4'
C3'
DG
DG
DG
12
12
12
N
1
4.52
0.60
118.90
123.42
B
B
B
N1
C2
O2
DC
DC
DC
13
13
13
N
1
-2.94
0.40
104.50
101.56
B
B
B
O4'
C4'
C3'
DC
DC
DC
15
15
15
N
1
8.20
1.20
119.70
127.90
B
B
B
C3'
O3'
P
DC
DC
DG
15
15
16
Y
1
-6.08
0.80
105.90
99.82
B
B
B
O4'
C1'
C2'
DG
DG
DG
16
16
16
N
1
1.88
0.30
108.30
110.18
B
B
B
O4'
C1'
N9
DG
DG
DG
16
16
16
N
1
-2.75
0.40
106.40
103.65
B
B
B
C8
N9
C4
DG
DG
DG
16
16
16
N
1
7.26
1.20
119.70
126.96
B
B
B
C3'
O3'
P
DG
DG
DA
16
16
17
Y
1
-2.88
0.40
104.50
101.62
B
B
B
O4'
C4'
C3'
DA
DA
DA
17
17
17
N
1
2.06
0.30
108.30
110.36
B
B
B
O4'
C1'
N9
DA
DA
DA
17
17
17
N
1
-5.64
0.80
105.90
100.26
B
B
B
O4'
C1'
C2'
DA
DA
DA
18
18
18
N
1
-5.30
0.80
109.40
104.10
B
B
B
O5'
C5'
C4'
DT
DT
DT
19
19
19
N
1
-7.51
1.00
110.10
102.59
B
B
B
C1'
O4'
C4'
DT
DT
DT
19
19
19
N
1
-3.83
0.60
122.30
118.47
B
B
B
N3
C2
O2
DT
DT
DT
19
19
19
N
1
4.51
0.60
119.00
123.51
B
B
B
C4
C5
C7
DT
DT
DT
19
19
19
N
1
-6.31
0.60
122.90
116.59
B
B
B
C6
C5
C7
DT
DT
DT
19
19
19
N
1
-7.80
0.80
105.90
98.10
B
B
B
O4'
C1'
C2'
DT
DT
DT
20
20
20
N
1
3.73
0.60
118.00
121.73
B
B
B
C4
C5
C6
DT
DT
DT
20
20
20
N
1
8.63
1.20
119.70
128.33
B
B
B
C3'
O3'
P
DC
DC
DG
21
21
22
Y
1
-5.31
0.80
105.90
100.59
B
B
B
O4'
C1'
C2'
DG
DG
DG
22
22
22
N
1
4.80
0.30
108.30
113.10
B
B
B
O4'
C1'
N9
DG
DG
DG
22
22
22
N
1
5.85
0.30
108.30
114.15
B
B
B
O4'
C1'
N1
DC
DC
DC
23
23
23
N
1
3.15
0.50
111.50
114.65
B
B
B
C5
C6
N1
DG
DG
DG
24
24
24
N
1
B
B
C5'
C4'
DC
DC
13
13
0.065
0.007
1.512
1.577
N
1
B
B
N1
C6
DC
DC
15
15
-0.042
0.006
1.367
1.325
N
1
B
B
C5'
C4'
DA
DA
18
18
0.058
0.007
1.512
1.570
N
1
B
B
C5
C7
DT
DT
19
19
0.048
0.006
1.496
1.544
N
1
B
B
C3'
C2'
DG
DG
24
24
-0.054
0.008
1.516
1.462
N
0.1740000
0.1740000
2.100
8.000
2786
1
2.000
TR
isotropic
TR
isotropic
2.100
8.000
69
578
23
486
0
fix
fix
2.100
1PRP
4021
0.0830000
1
refinement
X-PLOR
CRYSTAL STRUCTURE OF D(CGCGAATTCGCG) COMPLEXED WITH PROPAMIDINE, A SHORT-CHAIN HOMOLOGUE OF THE DRUG PENTAMIDIN
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
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
1PRP
PDB
1
1PRP
1
12
1PRP
1
12
1PRP
A
1
1
12
13
24
1PRP
13
24
1PRP
B
1
1
12
BINDING SITE FOR RESIDUE TNT A 25
A
TNT
25
Software
8
A
DA
6
A
DA
6
8
1_555
A
DT
8
A
DT
8
8
1_555
A
DC
9
A
DC
9
8
1_555
B
DA
17
B
DA
5
8
1_555
B
DA
18
B
DA
6
8
1_555
B
DT
19
B
DT
7
8
1_555
B
DT
20
B
DT
8
8
1_555
B
DC
21
B
DC
9
8
1_555
19
P 21 21 21