0.039526
-0.000000
0.000000
0.000000
0.024155
0.000000
0.000000
0.000000
0.015552
0.00000
0.00000
0.00000
Hossain, M.T.
Hikima, T.
Chatake, T.
Tsunoda, M.
Sunami, T.
Ueno, Y.
Matsuda, A.
Takenaka, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
25.3
41.4
64.3
C10 H16 N3 O8 P
337.223
n
N4-METHOXY-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
DNA linking
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
N
1
N
N
N
2
N
C
N
3
N
N
N
4
N
C
N
5
N
C
N
6
N
C
N
7
N
O
N
8
N
N
N
9
R
C
N
10
N
C
N
11
N
C
N
12
S
C
N
13
R
C
N
14
N
O
N
15
N
O
N
16
N
C
N
17
N
O
N
18
N
P
N
19
N
O
N
20
N
O
N
21
N
O
N
22
N
O
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
H
N
38
N
H
N
39
N
O
N
40
N
P
N
41
N
O
N
42
N
O
N
43
N
O
N
44
N
C
N
45
R
C
N
46
N
O
N
47
S
C
N
48
N
O
N
49
N
C
N
50
R
C
Y
51
N
N
Y
52
N
C
Y
53
N
N
Y
54
N
C
Y
55
N
C
N
56
N
N
Y
57
N
N
Y
58
N
C
Y
59
N
N
Y
60
N
C
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
O
N
76
N
P
N
77
N
O
N
78
N
O
N
79
N
O
N
80
N
C
N
81
R
C
N
82
N
O
N
83
S
C
N
84
N
O
N
85
N
C
N
86
R
C
N
87
N
N
N
88
N
C
N
89
N
O
N
90
N
N
N
91
N
C
N
92
N
N
N
93
N
C
N
94
N
C
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
O
N
110
N
P
N
111
N
O
N
112
N
O
N
113
N
O
N
114
N
C
N
115
R
C
N
116
N
O
N
117
S
C
N
118
N
O
N
119
N
C
N
120
R
C
Y
121
N
N
Y
122
N
C
Y
123
N
N
Y
124
N
C
N
125
N
C
N
126
N
O
N
127
N
N
N
128
N
C
N
129
N
N
N
130
N
N
Y
131
N
C
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
H
N
145
N
H
N
146
N
O
N
147
N
P
N
148
N
O
N
149
N
O
N
150
N
O
N
151
N
C
N
152
R
C
N
153
N
O
N
154
S
C
N
155
N
O
N
156
N
C
N
157
R
C
N
158
N
N
N
159
N
C
N
160
N
O
N
161
N
N
N
162
N
C
N
163
N
O
N
164
N
C
N
165
N
C
N
166
N
C
N
167
N
H
N
168
N
H
N
169
N
H
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
O
N
183
N
H
N
184
N
H
N
185
N
MG
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
doub
N
6
N
doub
N
7
N
sing
N
8
N
sing
N
9
N
doub
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
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
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
doub
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
doub
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
Y
63
N
sing
Y
64
N
sing
Y
65
N
doub
N
66
N
sing
Y
67
N
sing
Y
68
N
sing
Y
69
N
doub
N
70
N
sing
Y
71
N
doub
N
72
N
sing
N
73
N
sing
Y
74
N
sing
Y
75
N
doub
N
76
N
sing
Y
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
doub
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
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
doub
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
Y
136
N
sing
Y
137
N
sing
Y
138
N
doub
N
139
N
sing
Y
140
N
sing
N
141
N
sing
Y
142
N
doub
N
143
N
doub
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
doub
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
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
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
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
doub
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
JA
J.Biochem.(Tokyo)
JOBIAO
0418
0021-924X
130
9
12
11432773
Crystallographic studies on damaged DNAs: III. N(4)-methoxycytosine can form both Watson-Crick type and wobbled base pairs in a B-form duplex
2001
10.2210/pdb1i47/pdb
pdb_00001i47
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
DIFFRACTOMETER
2000-01-23
WEISSENBERG
SINGLE WAVELENGTH
M
x-ray
1
1.0
1.0
BL-6B
Photon Factory
1.0
SYNCHROTRON
PHOTON FACTORY BEAMLINE BL-6B
3693.418
5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(C45)P*GP*CP*GP)-3'
2
syn
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
80
nat
water
no
yes
(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(C45)(DG)(DC)(DG)
CGCGAATTCGCG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
1
2.11
41.1
VAPOR DIFFUSION, HANGING DROP
7.0
MPD, magnesium acetate, spermine, sodium cacodylate. pH 7.0,
VAPOR DIFFUSION, HANGING DROP at 277 K
277
magnesium acetate
1
spermine
1
sodium cacodylate
1
MPD
1
MPD
2
0.572
1
19
A
1
B
24
-2.501
A_DC1:DG24_B
1
-19.593
0.089
0.226
-0.113
-7.970
1
19
A
2
B
23
-7.057
A_DG2:DC23_B
2
-14.520
-0.128
-0.010
-0.250
-2.237
1
19
A
3
B
22
1.859
A_DC3:DG22_B
3
-3.109
0.299
-0.224
-0.090
14.474
A
4
B
21
5.303
A_DG4:C4521_B
4
-8.060
-2.655
-0.032
-0.553
8.929
1
20
A
5
B
20
5.015
A_DA5:DT20_B
5
-18.999
0.112
0.213
-0.138
1.135
1
20
A
6
B
19
5.291
A_DA6:DT19_B
6
-13.995
0.090
0.272
-0.250
1.195
1
20
A
7
B
18
3.384
A_DT7:DA18_B
7
-16.565
-0.190
0.092
-0.143
-5.971
1
20
A
8
B
17
4.998
A_DT8:DA17_B
8
-14.832
0.103
0.159
-0.179
-15.930
1
19
A
9
B
16
-2.577
A_C459:DG16_B
9
-5.715
0.385
0.202
-0.236
9.224
1
19
A
10
B
15
5.564
A_DG10:DC15_B
10
-0.813
-0.278
0.224
-0.125
3.342
1
19
A
11
B
14
-3.007
A_DC11:DG14_B
11
-17.358
0.043
0.342
-0.186
10.863
1
19
A
12
B
13
-4.839
A_DG12:DC13_B
12
2.020
-0.056
0.374
-0.352
3.484
38.466
A
A
1
2
9.771
B
B
24
23
3.475
6.401
0.259
0.277
AA_DC1DG2:DC23DG24_BB
1
3.627
-5.538
37.782
-0.433
0.091
3.132
40.807
A
A
2
3
-8.959
B
B
23
22
3.170
-6.219
1.088
0.508
AA_DG2DC3:DG22DC23_BB
2
3.101
-4.468
40.235
1.393
-1.229
2.620
15.732
A
A
3
4
29.400
B
B
22
21
2.973
7.683
-0.036
0.090
AA_DC3DG4:C4521DG22_BB
3
-1.956
7.485
13.600
-4.996
-1.223
3.515
49.712
A
A
4
5
-0.961
B
B
21
20
3.498
-0.808
-0.471
0.317
AA_DG4DA5:DT20C4521_BB
4
-3.245
3.863
49.606
0.441
0.305
3.313
37.206
A
A
5
6
-0.484
B
B
20
19
3.321
-0.309
0.162
-0.199
AA_DA5DA6:DT19DT20_BB
5
-1.522
2.386
37.175
-0.271
-0.459
3.261
31.114
A
A
6
7
-5.679
B
B
19
18
3.215
-3.041
-0.169
-0.710
AA_DA6DT7:DA18DT19_BB
6
1.028
-1.920
30.952
-0.747
0.510
3.368
38.352
A
A
7
8
-2.496
B
B
18
17
3.360
-1.639
0.054
-0.304
AA_DT7DT8:DA17DA18_BB
7
2.149
-3.273
38.260
-0.252
0.194
3.538
40.387
A
A
8
9
-4.429
B
B
17
16
3.520
-3.055
-0.313
-0.369
AA_DT8C459:DG16DA17_BB
8
0.014
-0.020
40.277
-0.163
0.455
2.811
25.333
A
A
9
10
9.169
B
B
16
15
2.809
4.003
0.704
0.451
AA_C459DG10:DC15DG16_BB
9
-1.121
2.566
24.995
0.024
-1.885
3.370
44.395
A
A
10
11
-15.502
B
B
15
14
3.587
-11.584
-1.210
0.667
AA_DG10DC11:DG14DC15_BB
10
-2.587
3.462
42.856
2.047
1.342
3.135
38.387
A
A
11
12
3.506
B
B
14
13
3.125
2.303
-0.172
0.186
AA_DC11DG12:DC13DG14_BB
11
-1.485
2.261
38.293
0.008
0.084
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_conn_type
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2003-02-11
1
1
2007-10-16
1
2
2011-07-13
1
3
2023-08-09
_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.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_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.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_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2001-02-20
REL
REL
MG
MAGNESIUM ION
HOH
water
355D
PDB ENTRY 355D
PDB
experimental model
MO6
75
2
MG
MG
75
A
MO6
75
3
HOH
HOH
76
A
MO6
75
3
HOH
HOH
77
A
MO6
75
3
HOH
HOH
78
A
MO6
75
3
HOH
HOH
79
A
MO6
75
3
HOH
HOH
80
A
HOH
1
3
HOH
HOH
81
A
HOH
2
3
HOH
HOH
82
A
HOH
3
3
HOH
HOH
83
A
HOH
4
3
HOH
HOH
84
A
HOH
5
3
HOH
HOH
85
A
HOH
9
3
HOH
HOH
86
A
HOH
10
3
HOH
HOH
87
A
HOH
11
3
HOH
HOH
88
A
HOH
12
3
HOH
HOH
89
A
HOH
13
3
HOH
HOH
90
A
HOH
15
3
HOH
HOH
91
A
HOH
23
3
HOH
HOH
92
A
HOH
25
3
HOH
HOH
93
A
HOH
27
3
HOH
HOH
94
A
HOH
29
3
HOH
HOH
95
A
HOH
30
3
HOH
HOH
96
A
HOH
31
3
HOH
HOH
97
A
HOH
33
3
HOH
HOH
98
A
HOH
36
3
HOH
HOH
99
A
HOH
37
3
HOH
HOH
100
A
HOH
38
3
HOH
HOH
101
A
HOH
39
3
HOH
HOH
102
A
HOH
44
3
HOH
HOH
103
A
HOH
46
3
HOH
HOH
104
A
HOH
47
3
HOH
HOH
105
A
HOH
50
3
HOH
HOH
106
A
HOH
51
3
HOH
HOH
107
A
HOH
52
3
HOH
HOH
108
A
HOH
59
3
HOH
HOH
109
A
HOH
62
3
HOH
HOH
110
A
HOH
63
3
HOH
HOH
111
A
HOH
64
3
HOH
HOH
112
A
HOH
65
3
HOH
HOH
113
A
HOH
68
3
HOH
HOH
114
A
HOH
72
3
HOH
HOH
115
A
MO6
75
3
HOH
HOH
76
B
HOH
6
3
HOH
HOH
77
B
HOH
7
3
HOH
HOH
78
B
HOH
8
3
HOH
HOH
79
B
HOH
14
3
HOH
HOH
80
B
HOH
16
3
HOH
HOH
81
B
HOH
17
3
HOH
HOH
82
B
HOH
18
3
HOH
HOH
83
B
HOH
19
3
HOH
HOH
84
B
HOH
20
3
HOH
HOH
85
B
HOH
21
3
HOH
HOH
86
B
HOH
22
3
HOH
HOH
87
B
HOH
24
3
HOH
HOH
88
B
HOH
26
3
HOH
HOH
89
B
HOH
28
3
HOH
HOH
90
B
HOH
32
3
HOH
HOH
91
B
HOH
34
3
HOH
HOH
92
B
HOH
35
3
HOH
HOH
93
B
HOH
40
3
HOH
HOH
94
B
HOH
41
3
HOH
HOH
95
B
HOH
42
3
HOH
HOH
96
B
HOH
43
3
HOH
HOH
97
B
HOH
45
3
HOH
HOH
98
B
HOH
48
3
HOH
HOH
99
B
HOH
49
3
HOH
HOH
100
B
HOH
53
3
HOH
HOH
101
B
HOH
54
3
HOH
HOH
102
B
HOH
55
3
HOH
HOH
103
B
HOH
56
3
HOH
HOH
104
B
HOH
57
3
HOH
HOH
105
B
HOH
58
3
HOH
HOH
106
B
HOH
60
3
HOH
HOH
107
B
HOH
61
3
HOH
HOH
108
B
HOH
66
3
HOH
HOH
109
B
HOH
67
3
HOH
HOH
110
B
HOH
69
3
HOH
HOH
111
B
HOH
70
3
HOH
HOH
112
B
HOH
71
3
HOH
HOH
113
B
HOH
73
3
HOH
HOH
114
B
HOH
74
3
HOH
HOH
115
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
C45
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
C45
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
76
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
77
D
O
HOH
1_555
89.2
A
HOH
76
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
78
D
O
HOH
1_555
90.0
A
HOH
77
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
78
D
O
HOH
1_555
179.2
A
HOH
76
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
79
D
O
HOH
1_555
90.2
A
HOH
77
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
79
D
O
HOH
1_555
89.9
A
HOH
78
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
79
D
O
HOH
1_555
89.9
A
HOH
76
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
80
D
O
HOH
1_555
90.2
A
HOH
77
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
80
D
O
HOH
1_555
90.4
A
HOH
78
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
80
D
O
HOH
1_555
89.7
A
HOH
79
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
A
HOH
80
D
O
HOH
1_555
179.5
A
HOH
76
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
B
HOH
76
E
O
HOH
1_555
179.8
A
HOH
77
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
B
HOH
76
E
O
HOH
1_555
90.8
A
HOH
78
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
B
HOH
76
E
O
HOH
1_555
90.1
A
HOH
79
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
B
HOH
76
E
O
HOH
1_555
90.0
A
HOH
80
D
O
HOH
1_555
A
MG
75
C
MG
MG
1_555
B
HOH
76
E
O
HOH
1_555
89.6
A
C45
9
A
C45
9
DC
B
C45
21
B
C45
9
DC
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
29.3
-0.02
0.0
0.0
2.34
0.00
-2.32
0.255
0.013
0.213
2.1
10.0
396
3912
3912
10.1
92.9
RANDOM
1
TROUGHOUT
0.0
MOLECULAR REPLACEMENT
PDB ENTRY 355D
0.38
0.28
5.00
0.43
0.24
2.1
10.0
74
571
11
486
0
0.004
0.9
21.1
1.32
0.354
0.045
0.26
2.23
62
513
6
10.8
84.7
23.7
2.1
100
1I47
3959
3959
0.027
1
22.6
5.7
93.8
0.145
2.10
2.21
5.1
85.7
data reduction
DENZO
data scaling
SCALEPACK
phasing
AMoRE
refinement
CNS
1.0
MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATT(MO4)CGCG): THE WATSON-CRICK TYPE AND WOBBLE N4-METHOXYCYTIDINE/GUANOSINE BASE PAIRS IN B-DNA
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
covale
1.604
both
A
DT
8
A
O3'
DT
8
1_555
A
C45
9
A
P
C45
9
1_555
covale
1.600
one
A
C45
9
A
O3'
C45
9
1_555
A
DG
10
A
P
DG
10
1_555
covale
1.603
both
B
DT
20
B
O3'
DT
8
1_555
B
C45
21
B
P
C45
9
1_555
covale
1.598
one
B
C45
21
B
O3'
C45
9
1_555
B
DG
22
B
P
DG
10
1_555
metalc
2.059
A
MG
75
C
MG
MG
1_555
A
HOH
76
D
O
HOH
1_555
metalc
2.068
A
MG
75
C
MG
MG
1_555
A
HOH
77
D
O
HOH
1_555
metalc
2.064
A
MG
75
C
MG
MG
1_555
A
HOH
78
D
O
HOH
1_555
metalc
2.063
A
MG
75
C
MG
MG
1_555
A
HOH
79
D
O
HOH
1_555
metalc
2.064
A
MG
75
C
MG
MG
1_555
A
HOH
80
D
O
HOH
1_555
metalc
2.073
A
MG
75
C
MG
MG
1_555
B
HOH
76
E
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
DG-C45 PAIR
A
DG
4
A
N1
DG
4
1_555
B
C45
21
B
O2
C45
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
C45
9
A
N3
C45
9
1_555
B
DG
16
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
C45
9
A
N4
C45
9
1_555
B
DG
16
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
C45
9
A
O2
C45
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
N4-METHOXYCYTOSINE, DAMAGED DNA, B-DNA, DOUBLE HELIX, DEOXYRIBONUCLEIC ACID, DNA
1I47
PDB
1
1I47
1
12
1I47
1
12
1I47
A
1
1
12
13
24
1I47
13
24
1I47
B
1
1
12
BINDING SITE FOR RESIDUE MG A 75
A
MG
75
Software
6
A
HOH
76
D
HOH
6
1_555
A
HOH
77
D
HOH
6
1_555
A
HOH
78
D
HOH
6
1_555
A
HOH
79
D
HOH
6
1_555
A
HOH
80
D
HOH
6
1_555
B
HOH
76
E
HOH
6
1_555
19
orthorhombic
P 21 21 21