0.044032
0.000000
0.000000
0.000000
0.014877
0.000000
0.000000
0.000000
0.013792
0.00000
0.00000
0.00000
Gao, Y.-G.
Robinson, H.
Sanishvili, R.
Joachimiak, A.
Wang, A.H.-J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.00
90.00
90.00
22.711
67.216
72.504
C9 H12 Br N2 O8 P
387.078
n
5-BROMO-2'-DEOXYURIDINE-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
H2 O
18.015
WATER
non-polymer
Co H18 N6 3
161.116
COBALT HEXAMMINE(III)
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
O
N
9
N
BR
N
10
R
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
H
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
O
N
35
N
P
N
36
N
O
N
37
N
O
N
38
N
O
N
39
N
C
N
40
R
C
N
41
N
O
N
42
S
C
N
43
N
O
N
44
N
C
N
45
R
C
Y
46
N
N
Y
47
N
C
Y
48
N
N
Y
49
N
C
Y
50
N
C
N
51
N
N
Y
52
N
N
Y
53
N
C
Y
54
N
N
Y
55
N
C
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
O
N
71
N
P
N
72
N
O
N
73
N
O
N
74
N
O
N
75
N
C
N
76
R
C
N
77
N
O
N
78
S
C
N
79
N
O
N
80
N
C
N
81
R
C
N
82
N
N
N
83
N
C
N
84
N
O
N
85
N
N
N
86
N
C
N
87
N
N
N
88
N
C
N
89
N
C
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
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
O
N
105
N
P
N
106
N
O
N
107
N
O
N
108
N
O
N
109
N
C
N
110
R
C
N
111
N
O
N
112
S
C
N
113
N
O
N
114
N
C
N
115
R
C
Y
116
N
N
Y
117
N
C
Y
118
N
N
Y
119
N
C
N
120
N
C
N
121
N
O
N
122
N
N
N
123
N
C
N
124
N
N
N
125
N
N
Y
126
N
C
N
127
N
H
N
128
N
H
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
O
N
142
N
H
N
143
N
H
N
144
N
CO
N
145
N
N
N
146
N
N
N
147
N
N
N
148
N
N
N
149
N
N
N
150
N
N
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
doub
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
doub
N
10
N
doub
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
doub
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
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
Y
58
N
sing
Y
59
N
sing
Y
60
N
doub
N
61
N
sing
Y
62
N
sing
Y
63
N
sing
Y
64
N
doub
N
65
N
sing
Y
66
N
doub
N
67
N
sing
N
68
N
sing
Y
69
N
sing
Y
70
N
doub
N
71
N
sing
Y
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
doub
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
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
doub
N
99
N
sing
N
100
N
doub
N
101
N
sing
N
102
N
sing
N
103
N
sing
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
sing
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
Y
131
N
sing
Y
132
N
sing
Y
133
N
doub
N
134
N
sing
Y
135
N
sing
N
136
N
sing
Y
137
N
doub
N
138
N
doub
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
doub
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
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
US
Biochemistry
BICHAW
0033
0006-2960
38
16452
16460
10.1021/bi9914614
10600106
Structure and recognition of sheared tandem G x A base pairs associated with human centromere DNA sequence at atomic resolution.
1999
10.2210/pdb1d9r/pdb
pdb_00001d9r
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
123
1
CCD
1998-08-16
CUSTOM-MADE
SINGLE WAVELENGTH
M
x-ray
1
0.9611
1.0
19-ID
APS
0.9611
SYNCHROTRON
APS BEAMLINE 19-ID
3158.913
5'-D(*CP*CP*GP*AP*AP*(BRU)P*GP*AP*GP*G)-3'
2
syn
polymer
161.116
COBALT HEXAMMINE(III)
1
syn
non-polymer
18.015
water
133
nat
water
no
yes
(DC)(DC)(DG)(DA)(DA)(BRU)(DG)(DA)(DG)(DG)
CCGAAUGAGG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
1
2.10
41.0
VAPOR DIFFUSION, SITTING DROP
7.5
MPD, COBALT HEXAMMINE, MGCL2, TRIS, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
298
[CO(NH3)6]CL3
1
MGCL2
1
TRIS
1
MPD
1
MPD
2
-4.962
1
19
A
1
B
20
2.328
A_DC1:DG20_B
1
-10.942
0.203
0.434
-0.307
2.480
1
19
A
2
B
19
-0.705
A_DC2:DG19_B
2
6.284
0.223
-0.123
-0.117
29.510
9
11
A
3
B
18
3.732
A_DG3:DA18_B
3
3.876
6.473
0.769
-4.480
-32.870
9
11
A
4
B
17
4.664
A_DA4:DG17_B
4
-8.907
-6.513
0.592
-4.415
-7.746
1
20
A
5
B
16
3.011
A_DA5:BRU16_B
5
5.183
0.053
-0.020
-0.064
4.136
1
20
A
6
B
15
-1.389
A_BRU6:DA15_B
6
5.412
0.038
-0.312
-0.158
36.149
9
11
A
7
B
14
1.144
A_DG7:DA14_B
7
-5.408
6.665
0.673
-4.624
-31.466
9
11
A
8
B
13
3.016
A_DA8:DG13_B
8
-1.026
-6.544
0.612
-4.478
1.028
1
19
A
9
B
12
-2.448
A_DG9:DC12_B
9
8.310
-0.231
-0.031
-0.163
12.046
1
19
A
10
B
11
-2.740
A_DG10:DC11_B
10
-8.424
-0.170
0.324
-0.193
3.524
35.503
A
A
1
2
6.191
B
B
20
19
3.312
3.749
0.909
1.199
AA_DC1DC2:DG19DG20_BB
1
6.303
-10.406
34.761
1.387
-0.516
3.056
57.371
A
A
2
3
7.246
B
B
19
18
2.952
6.935
0.529
1.556
AA_DC2DG3:DA18DG19_BB
2
-4.864
5.083
56.794
1.273
-0.795
3.310
-6.244
A
A
3
4
31.544
B
B
18
17
4.859
-3.206
0.200
-1.263
AA_DG3DA4:DG17DA18_BB
3
-1.911
-18.796
-5.007
32.946
-10.891
3.196
64.609
A
A
4
5
1.848
B
B
17
16
3.198
1.974
-0.930
1.341
AA_DA4DA5:BRU16DG17_BB
4
2.725
-2.551
64.531
1.173
0.983
2.961
24.020
A
A
5
6
12.520
B
B
16
15
3.139
5.158
-0.198
-0.285
AA_DA5BRU6:DA15BRU16_BB
5
2.907
-7.056
23.289
-2.259
1.363
3.100
67.428
A
A
6
7
4.074
B
B
15
14
3.029
4.519
0.835
1.959
AA_BRU6DG7:DA14DA15_BB
6
-3.308
2.983
67.223
1.601
-0.872
4.847
-7.671
A
A
7
8
0.769
B
B
14
13
4.876
-0.103
-0.072
-1.456
AA_DG7DA8:DG13DA14_BB
7
0.603
4.510
-7.647
11.370
2.315
2.872
57.750
A
A
8
9
3.184
B
B
13
12
2.834
3.074
-0.713
1.493
AA_DA8DG9:DC12DG13_BB
8
2.545
-2.637
57.624
1.402
0.857
3.209
32.994
A
A
9
10
14.471
B
B
12
11
3.287
8.111
-0.204
0.093
AA_DG9DG10:DC11DC12_BB
9
-4.752
8.478
31.662
-1.233
-0.459
software
struct_conn
chem_comp_atom
chem_comp_bond
database_2
struct_conn
struct_conn_type
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Derived calculations
Refinement description
Data collection
Database references
Derived calculations
1
0
1999-11-05
1
1
2008-04-27
1
2
2011-07-13
1
3
2019-07-24
1
4
2024-02-07
_software.name
_struct_conn.pdbx_leaving_atom_flag
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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.ptnr2_symmetry
_struct_conn_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G A BASE PAIRS
RCSB
Y
RCSB
1999-10-29
REL
REL
NCO
COBALT HEXAMMINE(III)
HOH
water
NCO
21
2
NCO
NCO
21
A
HOH
1004
3
HOH
HOH
1004
A
HOH
1005
3
HOH
HOH
1005
A
HOH
1008
3
HOH
HOH
1008
A
HOH
1009
3
HOH
HOH
1009
A
HOH
1011
3
HOH
HOH
1011
A
HOH
1012
3
HOH
HOH
1012
A
HOH
1015
3
HOH
HOH
1015
A
HOH
1017
3
HOH
HOH
1017
A
HOH
1018
3
HOH
HOH
1018
A
HOH
1020
3
HOH
HOH
1020
A
HOH
1021
3
HOH
HOH
1021
A
HOH
1029
3
HOH
HOH
1029
A
HOH
1030
3
HOH
HOH
1030
A
HOH
1031
3
HOH
HOH
1031
A
HOH
1035
3
HOH
HOH
1035
A
HOH
1036
3
HOH
HOH
1036
A
HOH
1037
3
HOH
HOH
1037
A
HOH
1038
3
HOH
HOH
1038
A
HOH
1039
3
HOH
HOH
1039
A
HOH
1040
3
HOH
HOH
1040
A
HOH
1041
3
HOH
HOH
1041
A
HOH
1045
3
HOH
HOH
1045
A
HOH
1048
3
HOH
HOH
1048
A
HOH
1053
3
HOH
HOH
1053
A
HOH
1055
3
HOH
HOH
1055
A
HOH
1056
3
HOH
HOH
1056
A
HOH
1057
3
HOH
HOH
1057
A
HOH
1058
3
HOH
HOH
1058
A
HOH
1061
3
HOH
HOH
1061
A
HOH
1062
3
HOH
HOH
1062
A
HOH
1064
3
HOH
HOH
1064
A
HOH
1065
3
HOH
HOH
1065
A
HOH
1069
3
HOH
HOH
1069
A
HOH
1071
3
HOH
HOH
1071
A
HOH
1073
3
HOH
HOH
1073
A
HOH
1078
3
HOH
HOH
1078
A
HOH
1082
3
HOH
HOH
1082
A
HOH
1084
3
HOH
HOH
1084
A
HOH
1085
3
HOH
HOH
1085
A
HOH
1090
3
HOH
HOH
1090
A
HOH
1094
3
HOH
HOH
1094
A
HOH
1096
3
HOH
HOH
1096
A
HOH
1097
3
HOH
HOH
1097
A
HOH
1098
3
HOH
HOH
1098
A
HOH
1099
3
HOH
HOH
1099
A
HOH
1101
3
HOH
HOH
1101
A
HOH
1102
3
HOH
HOH
1102
A
HOH
1103
3
HOH
HOH
1103
A
HOH
1104
3
HOH
HOH
1104
A
HOH
1106
3
HOH
HOH
1106
A
HOH
1108
3
HOH
HOH
1108
A
HOH
1112
3
HOH
HOH
1112
A
HOH
1116
3
HOH
HOH
1116
A
HOH
1117
3
HOH
HOH
1117
A
HOH
1120
3
HOH
HOH
1120
A
HOH
1121
3
HOH
HOH
1121
A
HOH
1122
3
HOH
HOH
1122
A
HOH
1124
3
HOH
HOH
1124
A
HOH
1126
3
HOH
HOH
1126
A
HOH
1127
3
HOH
HOH
1127
A
HOH
1128
3
HOH
HOH
1128
A
HOH
1130
3
HOH
HOH
1130
A
HOH
1131
3
HOH
HOH
1131
A
HOH
1132
3
HOH
HOH
1132
A
HOH
1001
3
HOH
HOH
1001
B
HOH
1002
3
HOH
HOH
1002
B
HOH
1003
3
HOH
HOH
1003
B
HOH
1006
3
HOH
HOH
1006
B
HOH
1007
3
HOH
HOH
1007
B
HOH
1010
3
HOH
HOH
1010
B
HOH
1013
3
HOH
HOH
1013
B
HOH
1014
3
HOH
HOH
1014
B
HOH
1016
3
HOH
HOH
1016
B
HOH
1019
3
HOH
HOH
1019
B
HOH
1022
3
HOH
HOH
1022
B
HOH
1023
3
HOH
HOH
1023
B
HOH
1024
3
HOH
HOH
1024
B
HOH
1025
3
HOH
HOH
1025
B
HOH
1026
3
HOH
HOH
1026
B
HOH
1027
3
HOH
HOH
1027
B
HOH
1028
3
HOH
HOH
1028
B
HOH
1032
3
HOH
HOH
1032
B
HOH
1033
3
HOH
HOH
1033
B
HOH
1034
3
HOH
HOH
1034
B
HOH
1042
3
HOH
HOH
1042
B
HOH
1043
3
HOH
HOH
1043
B
HOH
1044
3
HOH
HOH
1044
B
HOH
1046
3
HOH
HOH
1046
B
HOH
1047
3
HOH
HOH
1047
B
HOH
1049
3
HOH
HOH
1049
B
HOH
1050
3
HOH
HOH
1050
B
HOH
1051
3
HOH
HOH
1051
B
HOH
1052
3
HOH
HOH
1052
B
HOH
1054
3
HOH
HOH
1054
B
HOH
1059
3
HOH
HOH
1059
B
HOH
1060
3
HOH
HOH
1060
B
HOH
1063
3
HOH
HOH
1063
B
HOH
1066
3
HOH
HOH
1066
B
HOH
1067
3
HOH
HOH
1067
B
HOH
1068
3
HOH
HOH
1068
B
HOH
1070
3
HOH
HOH
1070
B
HOH
1072
3
HOH
HOH
1072
B
HOH
1074
3
HOH
HOH
1074
B
HOH
1075
3
HOH
HOH
1075
B
HOH
1076
3
HOH
HOH
1076
B
HOH
1077
3
HOH
HOH
1077
B
HOH
1079
3
HOH
HOH
1079
B
HOH
1080
3
HOH
HOH
1080
B
HOH
1081
3
HOH
HOH
1081
B
HOH
1083
3
HOH
HOH
1083
B
HOH
1086
3
HOH
HOH
1086
B
HOH
1087
3
HOH
HOH
1087
B
HOH
1088
3
HOH
HOH
1088
B
HOH
1089
3
HOH
HOH
1089
B
HOH
1091
3
HOH
HOH
1091
B
HOH
1092
3
HOH
HOH
1092
B
HOH
1093
3
HOH
HOH
1093
B
HOH
1095
3
HOH
HOH
1095
B
HOH
1100
3
HOH
HOH
1100
B
HOH
1105
3
HOH
HOH
1105
B
HOH
1107
3
HOH
HOH
1107
B
HOH
1109
3
HOH
HOH
1109
B
HOH
1110
3
HOH
HOH
1110
B
HOH
1111
3
HOH
HOH
1111
B
HOH
1113
3
HOH
HOH
1113
B
HOH
1114
3
HOH
HOH
1114
B
HOH
1115
3
HOH
HOH
1115
B
HOH
1118
3
HOH
HOH
1118
B
HOH
1119
3
HOH
HOH
1119
B
HOH
1123
3
HOH
HOH
1123
B
HOH
1125
3
HOH
HOH
1125
B
HOH
1129
3
HOH
HOH
1129
B
HOH
1133
3
HOH
HOH
1133
B
C
1
n
1
DC
1
A
C
2
n
2
DC
2
A
G
3
n
3
DG
3
A
A
4
n
4
DA
4
A
A
5
n
5
DA
5
A
+U
6
n
6
BRU
6
A
G
7
n
7
DG
7
A
A
8
n
8
DA
8
A
G
9
n
9
DG
9
A
G
10
n
10
DG
10
A
C
11
n
1
DC
11
B
C
12
n
2
DC
12
B
G
13
n
3
DG
13
B
A
14
n
4
DA
14
B
A
15
n
5
DA
15
B
+U
16
n
6
BRU
16
B
G
17
n
7
DG
17
B
A
18
n
8
DA
18
B
G
19
n
9
DG
19
B
G
20
n
10
DG
20
B
author_defined_assembly
2
dimeric
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
1_555
88.0
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N2
NCO
1_555
175.6
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N2
NCO
1_555
88.9
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
1_555
92.3
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
1_555
89.5
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
1_555
90.8
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
1_555
88.8
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
1_555
90.2
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
1_555
88.0
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
1_555
178.8
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
1_555
0.0
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
1_555
88.0
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
1_555
175.6
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
1_555
92.3
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
1_555
88.8
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
1_555
90.8
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
1_555
178.7
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
1_555
92.3
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
1_555
91.0
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
1_555
89.4
A
NCO
21
C
N5
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
1_555
90.7
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
88.0
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
0.0
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
88.8
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
89.5
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
90.2
A
NCO
21
C
N5
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
88.1
A
NCO
21
C
N6
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
178.7
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
175.6
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
88.9
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
0.0
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
90.8
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
88.1
A
NCO
21
C
N5
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
175.6
A
NCO
21
C
N6
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
92.4
A
NCO
21
C
N4
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
88.8
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
88.9
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
90.1
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
88.0
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
178.7
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
0.0
A
NCO
21
C
N5
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
88.9
A
NCO
21
C
N6
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
89.5
A
NCO
21
C
N4
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
90.2
A
NCO
21
C
N5
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
88.0
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
92.3
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
89.5
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
90.8
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
0.0
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
178.7
A
NCO
21
C
N5
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
92.4
A
NCO
21
C
N6
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
91.0
A
NCO
21
C
N4
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
89.4
A
NCO
21
C
N5
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
90.7
A
NCO
21
C
N1
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
178.7
A
NCO
21
C
N2
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
90.8
A
NCO
21
C
N1
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
178.7
A
NCO
21
C
N2
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
92.3
A
NCO
21
C
N3
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
90.9
A
NCO
21
C
N4
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
89.5
A
NCO
21
C
N5
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
90.8
A
NCO
21
C
N6
NCO
1_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
0.0
A
NCO
21
C
N4
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
178.8
A
NCO
21
C
N5
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
92.3
A
NCO
21
C
N1
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
89.5
A
NCO
21
C
N6
NCO
3_555
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
91.0
A
BRU
6
A
BRU
6
DU
B
BRU
16
B
BRU
6
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
NCO
21
C
NCO
1
A
HOH
1117
D
HOH
1
-3.96
0.60
118.90
114.94
A
A
A
N1
C2
O2
DC
DC
DC
2
2
2
N
1
-7.32
0.70
108.00
100.68
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
1
-4.34
0.70
120.20
115.86
B
B
B
C5
C4
N4
DC
DC
DC
12
12
12
N
1
2.11
0.30
108.30
110.41
B
B
B
O4'
C1'
N9
DG
DG
DG
13
13
13
N
1
-7.19
0.70
108.00
100.81
B
B
B
O4'
C1'
N9
DA
DA
DA
15
15
15
N
1
3.85
0.60
118.60
122.45
B
B
B
C6
N1
C2
DA
DA
DA
15
15
15
N
1
-3.45
0.50
117.70
114.25
B
B
B
C5
C6
N1
DA
DA
DA
15
15
15
N
1
4.89
0.60
118.60
123.49
B
B
B
N1
C6
N6
DA
DA
DA
15
15
15
N
1
-3.79
0.60
125.10
121.31
B
B
B
C6
N1
C2
DG
DG
DG
17
17
17
N
1
3.05
0.50
111.50
114.55
B
B
B
C5
C6
N1
DG
DG
DG
17
17
17
N
1
-3.04
0.50
110.60
107.56
B
B
B
C2
N3
C4
DA
DA
DA
18
18
18
N
1
3.43
0.50
111.90
115.33
B
B
B
C2
N3
C4
DG
DG
DG
19
19
19
N
1
3.81
0.50
111.50
115.31
B
B
B
C5
C6
N1
DG
DG
DG
19
19
19
N
1
-4.86
0.80
105.90
101.04
B
B
B
O4'
C1'
C2'
DG
DG
DG
20
20
20
N
1
-7.51
0.70
108.00
100.49
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
SHELXL HOPE OPTION
0.278
0.234
0.234
0.234
1.5
10.0
2220
437
8923
8923
1837
5.0
99.9
RANDOM
1
A POSTERIORI
0
0
MAD PHASING BY BROMINES
G.PARKINSON, J.VOJTECHOVSKY, L.CLOWNEY, A.T.BRUNGER, H.M.BERMAN
SHELXL SWAT OPTION
1.5
10.0
133
554
9
412
0
0.009
0.024
0.052
0.003
0.072
29.8
1.5
10.0
1D9R
8923
8923
0
0
0.055
1
33.7
10.5
99.7
0.377
1.50
1.56
8.1
100.0
refinement
SHELXL-97
refinement
CNS
data reduction
HKL-2000
data scaling
HKL-2000
phasing
CNS
CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
covale
1.640
both
A
DA
5
A
O3'
DA
5
1_555
A
BRU
6
A
P
BRU
6
1_555
covale
1.614
both
A
BRU
6
A
O3'
BRU
6
1_555
A
DG
7
A
P
DG
7
1_555
covale
1.598
both
B
DA
15
B
O3'
DA
5
1_555
B
BRU
16
B
P
BRU
6
1_555
covale
1.592
both
B
BRU
16
B
O3'
BRU
6
1_555
B
DG
17
B
P
DG
7
1_555
metalc
1.993
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N2
NCO
3_555
metalc
2.019
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N4
NCO
3_555
metalc
1.994
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N5
NCO
3_555
metalc
2.018
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N1
NCO
3_555
metalc
2.013
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N6
NCO
3_555
metalc
2.012
A
NCO
21
C
CO
NCO
1_555
A
NCO
21
C
N3
NCO
3_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
20
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
20
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
20
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
B
DG
19
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
B
DG
19
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
B
DG
19
B
N2
DG
9
1_555
hydrog
TYPE_11_PAIR
A
DG
3
A
N2
DG
3
1_555
B
DA
18
B
N7
DA
8
1_555
hydrog
TYPE_11_PAIR
A
DG
3
A
N3
DG
3
1_555
B
DA
18
B
N6
DA
8
1_555
hydrog
TYPE_11_PAIR
A
DA
4
A
N6
DA
4
1_555
B
DG
17
B
N3
DG
7
1_555
hydrog
TYPE_11_PAIR
A
DA
4
A
N7
DA
4
1_555
B
DG
17
B
N2
DG
7
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
BRU
16
B
N3
BRU
6
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
BRU
16
B
O4
BRU
6
1_555
hydrog
WATSON-CRICK
A
BRU
6
A
N3
BRU
6
1_555
B
DA
15
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
BRU
6
A
O4
BRU
6
1_555
B
DA
15
B
N6
DA
5
1_555
hydrog
TYPE_11_PAIR
A
DG
7
A
N2
DG
7
1_555
B
DA
14
B
N7
DA
4
1_555
hydrog
TYPE_11_PAIR
A
DG
7
A
N3
DG
7
1_555
B
DA
14
B
N6
DA
4
1_555
hydrog
TYPE_11_PAIR
A
DA
8
A
N6
DA
8
1_555
B
DG
13
B
N3
DG
3
1_555
hydrog
TYPE_11_PAIR
A
DA
8
A
N7
DA
8
1_555
B
DG
13
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
9
1_555
B
DC
12
B
N3
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
9
1_555
B
DC
12
B
O2
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
9
1_555
B
DC
12
B
N4
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
11
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
11
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
11
B
N4
DC
1
1_555
DNA
TANDEM GA BASE PAIRS, GA MISMATCH, DEOXYRIBONUCLEIC ACID, DNA
1D9R
PDB
1
1D9R
1
10
1D9R
1
10
1D9R
A
1
1
10
11
20
1D9R
11
20
1D9R
B
1
1
10
BINDING SITE FOR RESIDUE NCO A 21
A
NCO
21
Software
10
A
DC
2
A
DC
2
10
1_555
A
DC
2
A
DC
2
10
3_555
A
DG
3
A
DG
3
10
3_555
A
DG
3
A
DG
3
10
1_555
A
HOH
1056
D
HOH
10
1_555
A
HOH
1056
D
HOH
10
3_555
A
HOH
1069
D
HOH
10
3_555
A
HOH
1069
D
HOH
10
1_555
B
DG
17
B
DG
7
10
3_555
B
DG
17
B
DG
7
10
1_555
20
orthorhombic
C 2 2 21