0.038760
0.000000
0.000000
0.000000
0.025445
0.000000
0.000000
0.000000
0.015385
0.00000
0.00000
0.00000
Tsunoda, M.
Karino, N.
Ueno, Y.
Matsuda, A.
Takenaka, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
25.800
39.300
65.000
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
Mg 2
24.305
MAGNESIUM ION
non-polymer
C10 H13 N2 O9 P
336.192
n
2'-DEOXY-5-FORMYLURIDINE 5'-(DIHYDROGEN PHOSPHATE)
DNA linking
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
N
147
N
K
N
148
N
MG
N
149
N
O
N
150
N
P
N
151
N
O
N
152
N
O
N
153
N
O
N
154
N
C
N
155
R
C
N
156
N
O
N
157
S
C
N
158
N
O
N
159
N
C
N
160
R
C
N
161
N
N
N
162
N
C
N
163
N
O
N
164
N
N
N
165
N
C
N
166
N
O
N
167
N
C
N
168
N
C
N
169
N
C
N
170
N
O
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
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
N
152
N
doub
N
153
N
sing
N
154
N
sing
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
doub
N
184
N
sing
N
185
N
sing
N
186
N
doub
N
187
N
sing
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
57
345
348
10.1107/S0907444900017583
11173500
Crystallization and preliminary X-ray analysis of a DNA dodecamer containing 2'-deoxy-5-formyluridine; what is the role of magnesium cation in crystallization of Dickerson-type DNA dodecamers?
2001
10.2210/pdb1g75/pdb
pdb_00001g75
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
2000-06-03
WEISSENBERG
SINGLE WAVELENGTH
M
x-ray
1
1.0
1.0
BL-18B
Photon Factory
1.0
SYNCHROTRON
PHOTON FACTORY BEAMLINE BL-18B
3677.376
5'-D(*CP*GP*CP*GP*AP*AP*TP*(UFR)P*CP*GP*CP*G)-3'
2
syn
polymer
39.098
POTASSIUM ION
1
syn
non-polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
150
nat
water
no
yes
(DC)(DG)(DC)(DG)(DA)(DA)(DT)(UFR)(DC)(DG)(DC)(DG)
CGCGAATUCGCG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
1
2.15
42.89
VAPOR DIFFUSION, SITTING DROP
6.5
MPD, spermine, magnesium chloride, potassium chloride, sodium chloride, cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
277
MPD
1
spermine
1
MgCl2
1
KCl
1
NaCl
1
cacodylate
1
MPD
2
5.679
1
19
A
1
B
24
0.368
A_DC1:DG24_B
1
-19.288
0.315
0.161
-0.198
9.158
1
19
A
2
B
23
-2.468
A_DG2:DC23_B
2
-12.510
-0.223
0.565
-0.217
-0.719
1
19
A
3
B
22
0.549
A_DC3:DG22_B
3
-8.981
0.196
0.220
-0.213
11.409
1
19
A
4
B
21
2.806
A_DG4:DC21_B
4
-13.022
-0.258
0.002
-0.106
9.346
1
20
A
5
B
20
1.653
A_DA5:UFR20_B
5
-17.315
0.007
0.309
-0.113
0.310
1
20
A
6
B
19
6.027
A_DA6:DT19_B
6
-20.742
0.023
0.245
-0.171
-4.280
1
20
A
7
B
18
4.422
A_DT7:DA18_B
7
-19.082
-0.058
0.227
-0.179
-6.703
1
20
A
8
B
17
3.780
A_UFR8:DA17_B
8
-13.497
-0.006
0.201
-0.158
-12.772
1
19
A
9
B
16
-1.037
A_DC9:DG16_B
9
-8.472
0.204
0.096
-0.163
7.819
1
19
A
10
B
15
2.283
A_DG10:DC15_B
10
-7.653
-0.014
0.267
-0.199
0.815
1
19
A
11
B
14
-4.651
A_DC11:DG14_B
11
-21.186
0.005
0.397
-0.216
7.711
1
19
A
12
B
13
-2.139
A_DG12:DC13_B
12
-7.936
-0.145
0.600
-0.078
3.076
35.522
A
A
1
2
12.792
B
B
24
23
3.154
7.729
-0.118
0.005
AA_DC1DG2:DC23DG24_BB
1
-4.165
6.893
34.454
-1.085
-0.396
3.469
42.612
A
A
2
3
-11.853
B
B
23
22
3.590
-8.550
0.582
0.475
AA_DG2DC3:DG22DC23_BB
2
3.831
-5.311
41.617
1.595
-0.379
3.089
28.851
A
A
3
4
22.946
B
B
22
21
3.056
11.132
-0.248
0.777
AA_DC3DG4:DC21DG22_BB
3
2.519
-5.192
26.541
-0.873
1.048
3.145
38.098
A
A
4
5
2.327
B
B
21
20
3.161
1.518
0.031
-0.213
AA_DG4DA5:UFR20DC21_BB
4
-1.981
3.037
38.019
-0.511
-0.289
3.340
35.647
A
A
5
6
2.437
B
B
20
19
3.366
1.491
0.048
-0.602
AA_DA5DA6:DT19UFR20_BB
5
0.587
-0.959
35.612
-1.205
0.010
3.261
32.122
A
A
6
7
-2.503
B
B
19
18
3.236
-1.385
0.009
-0.678
AA_DA6DT7:DA18DT19_BB
6
0.263
-0.476
32.091
-0.978
0.030
3.238
35.185
A
A
7
8
-3.577
B
B
18
17
3.212
-2.161
-0.006
-0.530
AA_DT7UFR8:DA17DA18_BB
7
0.119
-0.197
35.121
-0.558
0.028
3.321
40.576
A
A
8
9
-4.979
B
B
17
16
3.318
-3.448
-0.292
-0.399
AA_UFR8DC9:DG16DA17_BB
8
2.147
-3.100
40.381
-0.185
0.664
2.934
27.985
A
A
9
10
10.619
B
B
16
15
2.898
5.101
0.543
0.786
AA_DC9DG10:DC15DG16_BB
9
-2.441
5.081
27.419
0.536
-1.644
3.345
43.602
A
A
10
11
-16.084
B
B
15
14
3.483
-11.793
-1.231
0.463
AA_DG10DC11:DG14DC15_BB
10
-4.285
5.844
41.842
1.833
1.218
3.102
34.828
A
A
11
12
5.557
B
B
14
13
3.097
3.321
0.339
0.291
AA_DC11DG12:DC13DG14_BB
11
-0.841
1.408
34.665
0.006
-0.687
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
2001-02-05
1
1
2008-04-27
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_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_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.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
BD0044 contains the same DNA under different crystallization conditions.
BD0045 contains the same DNA under different crystallization conditions.
BD0046 contains the same DNA under different crystallization conditions.
RCSB
Y
RCSB
2000-11-09
REL
K
POTASSIUM ION
MG
MAGNESIUM ION
HOH
water
355D
PDB ENTRY 355D
PDB
experimental model
K
26
2
K
K
26
A
MO6
25
3
MG
MG
25
A
HOH
27
4
HOH
HOH
27
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
48
4
HOH
HOH
48
A
HOH
50
4
HOH
HOH
50
A
HOH
51
4
HOH
HOH
51
A
HOH
53
4
HOH
HOH
53
A
HOH
54
4
HOH
HOH
54
A
HOH
57
4
HOH
HOH
57
A
HOH
61
4
HOH
HOH
61
A
HOH
64
4
HOH
HOH
64
A
HOH
65
4
HOH
HOH
65
A
HOH
66
4
HOH
HOH
66
A
HOH
69
4
HOH
HOH
69
A
HOH
71
4
HOH
HOH
71
A
HOH
74
4
HOH
HOH
74
A
HOH
82
4
HOH
HOH
82
A
HOH
83
4
HOH
HOH
83
A
HOH
84
4
HOH
HOH
84
A
HOH
85
4
HOH
HOH
85
A
HOH
86
4
HOH
HOH
86
A
HOH
87
4
HOH
HOH
87
A
HOH
91
4
HOH
HOH
91
A
HOH
93
4
HOH
HOH
93
A
HOH
95
4
HOH
HOH
95
A
HOH
96
4
HOH
HOH
96
A
HOH
97
4
HOH
HOH
97
A
HOH
99
4
HOH
HOH
99
A
HOH
107
4
HOH
HOH
107
A
HOH
109
4
HOH
HOH
109
A
HOH
110
4
HOH
HOH
110
A
HOH
112
4
HOH
HOH
112
A
HOH
114
4
HOH
HOH
114
A
HOH
116
4
HOH
HOH
116
A
HOH
117
4
HOH
HOH
117
A
HOH
118
4
HOH
HOH
118
A
HOH
122
4
HOH
HOH
122
A
HOH
124
4
HOH
HOH
124
A
HOH
127
4
HOH
HOH
127
A
HOH
129
4
HOH
HOH
129
A
HOH
130
4
HOH
HOH
130
A
HOH
134
4
HOH
HOH
134
A
HOH
135
4
HOH
HOH
135
A
HOH
137
4
HOH
HOH
137
A
HOH
140
4
HOH
HOH
140
A
HOH
142
4
HOH
HOH
142
A
HOH
145
4
HOH
HOH
145
A
HOH
147
4
HOH
HOH
147
A
HOH
150
4
HOH
HOH
150
A
HOH
151
4
HOH
HOH
151
A
HOH
152
4
HOH
HOH
152
A
HOH
153
4
HOH
HOH
153
A
HOH
157
4
HOH
HOH
157
A
HOH
158
4
HOH
HOH
158
A
HOH
162
4
HOH
HOH
162
A
HOH
163
4
HOH
HOH
163
A
HOH
164
4
HOH
HOH
164
A
HOH
166
4
HOH
HOH
166
A
MO6
25
4
HOH
HOH
171
A
MO6
25
4
HOH
HOH
172
A
MO6
25
4
HOH
HOH
173
A
MO6
25
4
HOH
HOH
174
A
MO6
25
4
HOH
HOH
175
A
MO6
25
4
HOH
HOH
176
A
HOH
28
4
HOH
HOH
28
B
HOH
47
4
HOH
HOH
47
B
HOH
49
4
HOH
HOH
49
B
HOH
52
4
HOH
HOH
52
B
HOH
55
4
HOH
HOH
55
B
HOH
56
4
HOH
HOH
56
B
HOH
58
4
HOH
HOH
58
B
HOH
59
4
HOH
HOH
59
B
HOH
60
4
HOH
HOH
60
B
HOH
62
4
HOH
HOH
62
B
HOH
63
4
HOH
HOH
63
B
HOH
67
4
HOH
HOH
67
B
HOH
68
4
HOH
HOH
68
B
HOH
70
4
HOH
HOH
70
B
HOH
72
4
HOH
HOH
72
B
HOH
73
4
HOH
HOH
73
B
HOH
75
4
HOH
HOH
75
B
HOH
76
4
HOH
HOH
76
B
HOH
77
4
HOH
HOH
77
B
HOH
78
4
HOH
HOH
78
B
HOH
79
4
HOH
HOH
79
B
HOH
80
4
HOH
HOH
80
B
HOH
81
4
HOH
HOH
81
B
HOH
88
4
HOH
HOH
88
B
HOH
89
4
HOH
HOH
89
B
HOH
90
4
HOH
HOH
90
B
HOH
92
4
HOH
HOH
92
B
HOH
94
4
HOH
HOH
94
B
HOH
98
4
HOH
HOH
98
B
HOH
100
4
HOH
HOH
100
B
HOH
101
4
HOH
HOH
101
B
HOH
102
4
HOH
HOH
102
B
HOH
103
4
HOH
HOH
103
B
HOH
104
4
HOH
HOH
104
B
HOH
105
4
HOH
HOH
105
B
HOH
106
4
HOH
HOH
106
B
HOH
108
4
HOH
HOH
108
B
HOH
111
4
HOH
HOH
111
B
HOH
113
4
HOH
HOH
113
B
HOH
115
4
HOH
HOH
115
B
HOH
119
4
HOH
HOH
119
B
HOH
120
4
HOH
HOH
120
B
HOH
121
4
HOH
HOH
121
B
HOH
123
4
HOH
HOH
123
B
HOH
125
4
HOH
HOH
125
B
HOH
126
4
HOH
HOH
126
B
HOH
128
4
HOH
HOH
128
B
HOH
131
4
HOH
HOH
131
B
HOH
132
4
HOH
HOH
132
B
HOH
133
4
HOH
HOH
133
B
HOH
136
4
HOH
HOH
136
B
HOH
138
4
HOH
HOH
138
B
HOH
139
4
HOH
HOH
139
B
HOH
141
4
HOH
HOH
141
B
HOH
143
4
HOH
HOH
143
B
HOH
144
4
HOH
HOH
144
B
HOH
146
4
HOH
HOH
146
B
HOH
148
4
HOH
HOH
148
B
HOH
149
4
HOH
HOH
149
B
HOH
154
4
HOH
HOH
154
B
HOH
155
4
HOH
HOH
155
B
HOH
156
4
HOH
HOH
156
B
HOH
159
4
HOH
HOH
159
B
HOH
160
4
HOH
HOH
160
B
HOH
161
4
HOH
HOH
161
B
HOH
165
4
HOH
HOH
165
B
HOH
167
4
HOH
HOH
167
B
HOH
168
4
HOH
HOH
168
B
HOH
169
4
HOH
HOH
169
B
HOH
170
4
HOH
HOH
170
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
+U
8
n
8
UFR
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
+U
20
n
8
UFR
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
A
DT
7
A
O2
DT
7
1_555
A
K
26
C
K
K
1_555
A
HOH
54
E
O
HOH
1_555
110.7
A
DT
7
A
O2
DT
7
1_555
A
K
26
C
K
K
1_555
A
HOH
140
E
O
HOH
1_555
137.3
A
HOH
54
E
O
HOH
1_555
A
K
26
C
K
K
1_555
A
HOH
140
E
O
HOH
1_555
73.5
A
DT
7
A
O2
DT
7
1_555
A
K
26
C
K
K
1_555
B
DT
19
B
O2
DT
7
1_555
79.5
A
HOH
54
E
O
HOH
1_555
A
K
26
C
K
K
1_555
B
DT
19
B
O2
DT
7
1_555
96.5
A
HOH
140
E
O
HOH
1_555
A
K
26
C
K
K
1_555
B
DT
19
B
O2
DT
7
1_555
143.2
A
DT
7
A
O2
DT
7
1_555
A
K
26
C
K
K
1_555
B
HOH
72
F
O
HOH
1_555
95.1
A
HOH
54
E
O
HOH
1_555
A
K
26
C
K
K
1_555
B
HOH
72
F
O
HOH
1_555
146.8
A
HOH
140
E
O
HOH
1_555
A
K
26
C
K
K
1_555
B
HOH
72
F
O
HOH
1_555
73.3
B
DT
19
B
O2
DT
7
1_555
A
K
26
C
K
K
1_555
B
HOH
72
F
O
HOH
1_555
108.9
A
HOH
171
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
172
E
O
HOH
1_555
94.2
A
HOH
171
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
173
E
O
HOH
1_555
91.8
A
HOH
172
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
173
E
O
HOH
1_555
86.0
A
HOH
171
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
174
E
O
HOH
1_555
86.7
A
HOH
172
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
174
E
O
HOH
1_555
174.4
A
HOH
173
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
174
E
O
HOH
1_555
88.5
A
HOH
171
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
175
E
O
HOH
1_555
90.3
A
HOH
172
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
175
E
O
HOH
1_555
89.5
A
HOH
173
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
175
E
O
HOH
1_555
175.1
A
HOH
174
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
175
E
O
HOH
1_555
96.1
A
HOH
171
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
176
E
O
HOH
1_555
173.5
A
HOH
172
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
176
E
O
HOH
1_555
91.9
A
HOH
173
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
176
E
O
HOH
1_555
86.4
A
HOH
174
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
176
E
O
HOH
1_555
87.0
A
HOH
175
E
O
HOH
1_555
A
MG
25
D
MG
MG
1_555
A
HOH
176
E
O
HOH
1_555
92.0
A
UFR
8
A
UFR
8
DU
B
UFR
20
B
UFR
8
DU
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
9
0.068
SIDE CHAIN
0.236
0.21
1.57
50
967
9313
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
PDB ENTRY 355D
0.22
0.18
5.00
0.14
0.12
1.57
50
144
641
13
484
0
0.004
21.7
1.26
0.8
0.263
0.021
0.235
1.67
155
1.57
50
1G75
90663
9502
-3
0.031
1
9.54
97.1
0.266
1.57
1.60
89.9
phasing
AMoRE
refinement
CNS
1.0
data reduction
DENZO
data scaling
SCALEPACK
MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATF5UCGCG): 5-FORMYLURIDINE/ ADENOSINE BASE-PAIRS IN B-DNA
1
N
N
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
covale
1.599
both
A
DT
7
A
O3'
DT
7
1_555
A
UFR
8
A
P
UFR
8
1_555
covale
1.603
one
A
UFR
8
A
O3'
UFR
8
1_555
A
DC
9
A
P
DC
9
1_555
covale
1.603
both
B
DT
19
B
O3'
DT
7
1_555
B
UFR
20
B
P
UFR
8
1_555
covale
1.600
one
B
UFR
20
B
O3'
UFR
8
1_555
B
DC
21
B
P
DC
9
1_555
metalc
2.741
A
DT
7
A
O2
DT
7
1_555
A
K
26
C
K
K
1_555
metalc
2.093
A
MG
25
D
MG
MG
1_555
A
HOH
171
E
O
HOH
1_555
metalc
2.062
A
MG
25
D
MG
MG
1_555
A
HOH
172
E
O
HOH
1_555
metalc
2.117
A
MG
25
D
MG
MG
1_555
A
HOH
173
E
O
HOH
1_555
metalc
2.097
A
MG
25
D
MG
MG
1_555
A
HOH
174
E
O
HOH
1_555
metalc
2.103
A
MG
25
D
MG
MG
1_555
A
HOH
175
E
O
HOH
1_555
metalc
2.025
A
MG
25
D
MG
MG
1_555
A
HOH
176
E
O
HOH
1_555
metalc
2.627
A
K
26
C
K
K
1_555
A
HOH
54
E
O
HOH
1_555
metalc
2.661
A
K
26
C
K
K
1_555
A
HOH
140
E
O
HOH
1_555
metalc
2.705
A
K
26
C
K
K
1_555
B
DT
19
B
O2
DT
7
1_555
metalc
2.699
A
K
26
C
K
K
1_555
B
HOH
72
F
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
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
UFR
20
B
N3
UFR
8
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
UFR
20
B
O4
UFR
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
UFR
8
A
N3
UFR
8
1_555
B
DA
17
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
UFR
8
A
O4
UFR
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
MODIFIED NUCLEOTIDE, FORMYLURIDINE, DNA DAMAGE, B-DNA, DOUBLE HELIX, DEOXYRIBONUCLEIC ACID, DNA
1G75
PDB
1
1G75
1
12
1G75
1
12
1G75
A
1
1
12
13
24
1G75
13
24
1G75
B
1
1
12
BINDING SITE FOR RESIDUE K A 26
A
K
26
Software
7
BINDING SITE FOR RESIDUE MG A 25
A
MG
25
Software
6
A
DT
7
A
DT
7
7
1_555
A
UFR
8
A
UFR
8
7
1_555
A
HOH
54
E
HOH
7
1_555
A
HOH
140
E
HOH
7
1_555
B
DT
19
B
DT
7
7
1_555
B
UFR
20
B
UFR
8
7
1_555
B
HOH
72
F
HOH
7
1_555
A
HOH
171
E
HOH
6
1_555
A
HOH
172
E
HOH
6
1_555
A
HOH
173
E
HOH
6
1_555
A
HOH
174
E
HOH
6
1_555
A
HOH
175
E
HOH
6
1_555
A
HOH
176
E
HOH
6
1_555
19
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