0.040440
0.000000
0.000000
0.000000
0.022486
0.000000
0.000000
0.000000
0.021631
0.000000
0.000000
0.000000
Prakash, T.P.
Manoharan, M.
Kawasaki, A.M.
Fraser, A.S.
Lesnik, E.A.
Sioufi, N.
Leeds, J.M.
Teplova, M.
Egli, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
24.728
44.473
46.229
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
C13 H21 N2 O9 P S
412.353
n
2'-[(METHYLTHIO)ETHYLOXY]-THYMIDINE-5'-MONOPHOSPHATE
RNA 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
P
N
148
N
O
N
149
N
O
N
150
N
O
N
151
N
O
N
152
N
C
N
153
R
C
N
154
N
O
N
155
R
C
N
156
N
O
N
157
R
C
N
158
N
O
N
159
R
C
N
160
N
N
N
161
N
C
N
162
N
O
N
163
N
N
N
164
N
C
N
165
N
O
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
C
N
170
N
C
N
171
N
S
N
172
N
C
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
190
N
H
N
191
N
H
N
192
N
H
N
193
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
sing
N
178
N
doub
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
doub
N
183
N
sing
N
184
N
sing
N
185
N
doub
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
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
41
11642
11648
10.1021/bi020264t
12269806
2'-O-[2-(Methylthio)ethyl]-Modified Oligonucleotide: An Analogue of 2'-O-[2-(Methoxy)-ethyl]-Modified
Oligonucleotide with Improved Protein Binding Properties and High Binding Affinity to Target RNA
2002
10.2210/pdb1mlx/pdb
pdb_00001mlx
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
110
1
CCD
1999-12-17
MARRESEARCH
graphite
SINGLE WAVELENGTH
M
x-ray
1
1.0000
1.0
5ID-B
APS
1.0000
SYNCHROTRON
APS BEAMLINE 5ID-B
Self-complementary DNA Decamer with a 2'-O-[2-(Methylthio)ethyl]-Modified Thymine (SMT) at Position 6
3135.150
5'-D(*GP*CP*GP*TP*AP*SMTP*AP*CP*GP*C)-3'
2
syn
polymer
18.015
water
146
nat
water
no
yes
(DG)(DC)(DG)(DT)(DA)(SMT)(DA)(DC)(DG)(DC)
GCGTATACGC
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
1
1.95
36.84
VAPOR DIFFUSION, HANGING DROP
7.0
sodium cacodylate, potassium chloride, spermine tetrahydrochloride, 2-methyl-2,4-pentanediol (MPD), pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
sodium cacodylate
1
KCl
1
spermine tetrahydrochloride
1
MPD
1
KCl
2
MPD
2
2.940
1
19
A
1
B
120
-1.535
A_DG1:DC120_B
1
-5.135
-0.280
0.135
-0.127
5.391
1
19
A
2
B
119
0.313
A_DC2:DG119_B
2
-14.345
0.077
0.058
-0.055
-6.712
1
19
A
3
B
118
0.067
A_DG3:DC118_B
3
-14.861
-0.303
0.120
-0.128
-6.092
1
20
A
4
B
117
-0.356
A_DT4:DA117_B
4
-16.398
-0.088
0.066
-0.085
-2.801
1
20
A
5
B
116
-4.462
A_DA5:SMT116_B
5
-14.848
0.150
0.135
-0.087
4.419
1
20
A
6
B
115
7.887
A_SMT6:DA115_B
6
-16.386
0.023
0.237
-0.043
4.220
1
20
A
7
B
114
3.884
A_DA7:DT114_B
7
-12.277
0.026
0.048
-0.122
8.864
1
19
A
8
B
113
-0.967
A_DC8:DG113_B
8
-12.987
0.216
-0.088
-0.176
-7.901
1
19
A
9
B
112
1.479
A_DG9:DC112_B
9
-8.635
-0.148
-0.135
-0.133
-3.607
1
19
A
10
B
111
0.060
A_DC10:DG111_B
10
5.922
0.178
0.130
-0.114
3.285
38.592
A
A
1
2
-0.440
B
B
120
119
3.261
-0.291
0.332
-1.474
AA_DG1DC2:DG119DC120_BB
1
2.030
-3.072
38.539
-2.195
-0.251
2.358
27.950
A
A
2
3
22.608
B
B
119
118
3.416
10.654
0.238
-2.156
AA_DC2DG3:DC118DG119_BB
2
-0.203
0.431
25.877
-6.788
-0.537
3.034
37.306
A
A
3
4
7.551
B
B
118
117
3.196
4.816
-1.117
-1.510
AA_DG3DT4:DA117DC118_BB
3
-1.928
3.023
36.957
-2.969
1.502
1.650
31.618
A
A
4
5
36.641
B
B
117
116
3.107
18.699
0.613
-1.563
AA_DT4DA5:SMT116DA117_BB
4
2.069
-4.054
25.527
-5.672
-0.814
2.839
33.285
A
A
5
6
9.689
B
B
116
115
3.060
5.524
1.054
-1.353
AA_DA5SMT6:DA115SMT116_BB
5
1.286
-2.256
32.811
-3.199
-1.645
2.169
33.857
A
A
6
7
26.516
B
B
115
114
3.072
14.938
-0.339
-1.390
AA_SMT6DA7:DT114DA115_BB
6
0.397
-0.704
30.468
-4.425
0.637
3.026
29.780
A
A
7
8
6.491
B
B
114
113
3.251
3.329
-0.004
-1.878
AA_DA7DC8:DG113DT114_BB
7
0.288
-0.561
29.596
-4.324
0.066
2.591
32.130
A
A
8
9
22.835
B
B
113
112
3.593
12.330
-0.303
-1.962
AA_DC8DG9:DC112DG113_BB
8
0.324
-0.599
29.726
-5.719
0.605
3.246
34.445
A
A
9
10
2.062
B
B
112
111
3.308
1.221
0.151
-1.685
AA_DG9DC10:DG111DC112_BB
9
-0.450
0.759
34.421
-3.036
-0.326
software
chem_comp_atom
chem_comp_bond
database_2
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Refinement description
Data collection
Database references
Derived calculations
1
0
2002-12-04
1
1
2008-04-28
1
2
2011-07-13
1
3
2017-10-11
1
4
2024-02-14
_software.classification
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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_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_comp_id
_struct_conn.ptnr2_label_seq_id
RCSB
Y
RCSB
2002-08-31
REL
REL
HOH
water
solid phase oligonucleotide synthesis
sample
TIP
701
2
HOH
HOH
701
A
TIP
702
2
HOH
HOH
702
A
TIP
704
2
HOH
HOH
704
A
TIP
705
2
HOH
HOH
705
A
TIP
707
2
HOH
HOH
707
A
TIP
708
2
HOH
HOH
708
A
TIP
709
2
HOH
HOH
709
A
TIP
710
2
HOH
HOH
710
A
TIP
711
2
HOH
HOH
711
A
TIP
712
2
HOH
HOH
712
A
TIP
714
2
HOH
HOH
714
A
TIP
715
2
HOH
HOH
715
A
TIP
716
2
HOH
HOH
716
A
TIP
718
2
HOH
HOH
718
A
TIP
721
2
HOH
HOH
721
A
TIP
722
2
HOH
HOH
722
A
TIP
723
2
HOH
HOH
723
A
TIP
724
2
HOH
HOH
724
A
TIP
725
2
HOH
HOH
725
A
TIP
729
2
HOH
HOH
729
A
TIP
730
2
HOH
HOH
730
A
TIP
732
2
HOH
HOH
732
A
TIP
734
2
HOH
HOH
734
A
TIP
735
2
HOH
HOH
735
A
TIP
737
2
HOH
HOH
737
A
TIP
739
2
HOH
HOH
739
A
TIP
741
2
HOH
HOH
741
A
TIP
745
2
HOH
HOH
745
A
TIP
746
2
HOH
HOH
746
A
TIP
751
2
HOH
HOH
751
A
TIP
753
2
HOH
HOH
753
A
TIP
756
2
HOH
HOH
756
A
TIP
761
2
HOH
HOH
761
A
TIP
762
2
HOH
HOH
762
A
TIP
767
2
HOH
HOH
767
A
TIP
771
2
HOH
HOH
771
A
TIP
772
2
HOH
HOH
772
A
TIP
776
2
HOH
HOH
776
A
TIP
784
2
HOH
HOH
784
A
TIP
789
2
HOH
HOH
789
A
TIP
793
2
HOH
HOH
793
A
TIP
800
2
HOH
HOH
800
A
TIP
802
2
HOH
HOH
802
A
TIP
806
2
HOH
HOH
806
A
TIP
807
2
HOH
HOH
807
A
TIP
809
2
HOH
HOH
809
A
TIP
810
2
HOH
HOH
810
A
TIP
813
2
HOH
HOH
813
A
TIP
814
2
HOH
HOH
814
A
TIP
817
2
HOH
HOH
817
A
TIP
818
2
HOH
HOH
818
A
TIP
820
2
HOH
HOH
820
A
TIP
823
2
HOH
HOH
823
A
TIP
825
2
HOH
HOH
825
A
TIP
829
2
HOH
HOH
829
A
TIP
831
2
HOH
HOH
831
A
TIP
837
2
HOH
HOH
837
A
TIP
840
2
HOH
HOH
840
A
TIP
841
2
HOH
HOH
841
A
TIP
846
2
HOH
HOH
846
A
TIP
854
2
HOH
HOH
854
A
TIP
864
2
HOH
HOH
864
A
TIP
869
2
HOH
HOH
869
A
TIP
874
2
HOH
HOH
874
A
TIP
883
2
HOH
HOH
883
A
TIP
884
2
HOH
HOH
884
A
TIP
885
2
HOH
HOH
885
A
TIP
891
2
HOH
HOH
891
A
TIP
892
2
HOH
HOH
892
A
TIP
896
2
HOH
HOH
896
A
TIP
898
2
HOH
HOH
898
A
TIP
899
2
HOH
HOH
899
A
TIP
900
2
HOH
HOH
900
A
TIP
901
2
HOH
HOH
901
A
TIP
903
2
HOH
HOH
903
A
TIP
906
2
HOH
HOH
906
A
TIP
907
2
HOH
HOH
907
A
TIP
908
2
HOH
HOH
908
A
TIP
909
2
HOH
HOH
909
A
TIP
911
2
HOH
HOH
911
A
TIP
913
2
HOH
HOH
913
A
TIP
915
2
HOH
HOH
915
A
TIP
916
2
HOH
HOH
916
A
TIP
1001
2
HOH
HOH
1001
A
TIP
700
2
HOH
HOH
700
B
TIP
703
2
HOH
HOH
703
B
TIP
706
2
HOH
HOH
706
B
TIP
713
2
HOH
HOH
713
B
TIP
717
2
HOH
HOH
717
B
TIP
719
2
HOH
HOH
719
B
TIP
720
2
HOH
HOH
720
B
TIP
726
2
HOH
HOH
726
B
TIP
728
2
HOH
HOH
728
B
TIP
731
2
HOH
HOH
731
B
TIP
733
2
HOH
HOH
733
B
TIP
736
2
HOH
HOH
736
B
TIP
738
2
HOH
HOH
738
B
TIP
742
2
HOH
HOH
742
B
TIP
743
2
HOH
HOH
743
B
TIP
747
2
HOH
HOH
747
B
TIP
749
2
HOH
HOH
749
B
TIP
750
2
HOH
HOH
750
B
TIP
763
2
HOH
HOH
763
B
TIP
775
2
HOH
HOH
775
B
TIP
777
2
HOH
HOH
777
B
TIP
778
2
HOH
HOH
778
B
TIP
781
2
HOH
HOH
781
B
TIP
782
2
HOH
HOH
782
B
TIP
787
2
HOH
HOH
787
B
TIP
794
2
HOH
HOH
794
B
TIP
798
2
HOH
HOH
798
B
TIP
799
2
HOH
HOH
799
B
TIP
801
2
HOH
HOH
801
B
TIP
803
2
HOH
HOH
803
B
TIP
804
2
HOH
HOH
804
B
TIP
805
2
HOH
HOH
805
B
TIP
811
2
HOH
HOH
811
B
TIP
815
2
HOH
HOH
815
B
TIP
822
2
HOH
HOH
822
B
TIP
828
2
HOH
HOH
828
B
TIP
830
2
HOH
HOH
830
B
TIP
839
2
HOH
HOH
839
B
TIP
842
2
HOH
HOH
842
B
TIP
850
2
HOH
HOH
850
B
TIP
860
2
HOH
HOH
860
B
TIP
863
2
HOH
HOH
863
B
TIP
867
2
HOH
HOH
867
B
TIP
872
2
HOH
HOH
872
B
TIP
873
2
HOH
HOH
873
B
TIP
878
2
HOH
HOH
878
B
TIP
882
2
HOH
HOH
882
B
TIP
886
2
HOH
HOH
886
B
TIP
887
2
HOH
HOH
887
B
TIP
888
2
HOH
HOH
888
B
TIP
889
2
HOH
HOH
889
B
TIP
890
2
HOH
HOH
890
B
TIP
893
2
HOH
HOH
893
B
TIP
894
2
HOH
HOH
894
B
TIP
895
2
HOH
HOH
895
B
TIP
897
2
HOH
HOH
897
B
TIP
904
2
HOH
HOH
904
B
TIP
905
2
HOH
HOH
905
B
TIP
910
2
HOH
HOH
910
B
TIP
917
2
HOH
HOH
917
B
TIP
918
2
HOH
HOH
918
B
TIP
919
2
HOH
HOH
919
B
GUA
1
n
1
DG
1
A
CYT
2
n
2
DC
2
A
GUA
3
n
3
DG
3
A
THY
4
n
4
DT
4
A
ADE
5
n
5
DA
5
A
MSE
6
n
6
SMT
6
A
ADE
7
n
7
DA
7
A
CYT
8
n
8
DC
8
A
GUA
9
n
9
DG
9
A
CYT
10
n
10
DC
10
A
GUA
111
n
1
DG
111
B
CYT
112
n
2
DC
112
B
GUA
113
n
3
DG
113
B
THY
114
n
4
DT
114
B
ADE
115
n
5
DA
115
B
MSE
116
n
6
SMT
116
B
ADE
117
n
7
DA
117
B
CYT
118
n
8
DC
118
B
GUA
119
n
9
DG
119
B
CYT
120
n
10
DC
120
B
author_defined_assembly
2
dimeric
A
SMT
6
A
SMT
6
T
B
SMT
116
B
SMT
6
T
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
CB
SMT
6
A
CB
SMT
6
1
Y
1
A
SC
SMT
6
A
SC
SMT
6
1
Y
1
A
CD
SMT
6
A
CD
SMT
6
1
Y
1
A
A
O
O
HOH
HOH
793
864
1.96
1
B
B
O
O
HOH
HOH
775
822
2.09
1
B
B
O
O
HOH
HOH
777
863
2.15
1
-4.75
0.60
125.10
120.35
A
A
A
C6
N1
C2
DG
DG
DG
1
1
1
N
1
4.35
0.60
123.90
128.25
A
A
A
N1
C2
N3
DG
DG
DG
1
1
1
N
1
-3.18
0.50
128.60
125.42
A
A
A
N3
C4
C5
DG
DG
DG
1
1
1
N
1
-3.85
0.50
104.30
100.45
A
A
A
C5
N7
C8
DG
DG
DG
1
1
1
N
1
3.42
0.50
113.10
116.52
A
A
A
N7
C8
N9
DG
DG
DG
1
1
1
N
1
8.49
1.20
119.70
128.19
A
A
A
C3'
O3'
P
DG
DG
DC
1
1
2
Y
1
-4.23
0.70
108.00
103.77
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
1
-4.75
0.60
125.10
120.35
A
A
A
C6
N1
C2
DG
DG
DG
3
3
3
N
1
5.95
0.60
123.90
129.85
A
A
A
N1
C2
N3
DG
DG
DG
3
3
3
N
1
-3.61
0.50
111.90
108.29
A
A
A
C2
N3
C4
DG
DG
DG
3
3
3
N
1
-3.43
0.50
113.10
109.67
A
A
A
N7
C8
N9
DG
DG
DG
3
3
3
N
1
2.79
0.40
106.40
109.19
A
A
A
C8
N9
C4
DG
DG
DG
3
3
3
N
1
-4.61
0.50
129.30
124.69
A
A
A
N1
C2
N3
DA
DA
DA
5
5
5
N
1
3.16
0.50
103.90
107.06
A
A
A
C5
N7
C8
DA
DA
DA
5
5
5
N
1
-3.27
0.50
113.80
110.53
A
A
A
N7
C8
N9
DA
DA
DA
5
5
5
N
1
3.77
0.60
118.60
122.37
A
A
A
C6
N1
C2
DA
DA
DA
7
7
7
N
1
-3.70
0.40
104.50
100.80
A
A
A
O4'
C4'
C3'
DC
DC
DC
8
8
8
N
1
3.00
0.50
106.80
109.80
A
A
A
O4'
C1'
C2'
DG
DG
DG
9
9
9
N
1
-6.05
0.60
125.10
119.05
A
A
A
C6
N1
C2
DG
DG
DG
9
9
9
N
1
7.85
0.60
123.90
131.75
A
A
A
N1
C2
N3
DG
DG
DG
9
9
9
N
1
-5.82
0.70
119.90
114.08
A
A
A
N3
C2
N2
DG
DG
DG
9
9
9
N
1
-4.76
0.60
119.90
115.14
A
A
A
N1
C6
O6
DG
DG
DG
9
9
9
N
1
3.60
0.60
128.60
132.20
A
A
A
C5
C6
O6
DG
DG
DG
9
9
9
N
1
-4.78
0.70
108.00
103.22
B
B
B
O4'
C1'
N9
DG
DG
DG
111
111
111
N
1
-4.11
0.60
123.90
119.79
B
B
B
N1
C2
N3
DG
DG
DG
111
111
111
N
1
4.98
0.50
111.90
116.88
B
B
B
C2
N3
C4
DG
DG
DG
111
111
111
N
1
-3.76
0.60
130.40
126.64
B
B
B
C6
C5
N7
DG
DG
DG
111
111
111
N
1
-5.69
0.40
120.30
114.61
B
B
B
C6
N1
C2
DC
DC
DC
112
112
112
N
1
-4.06
0.50
117.40
113.34
B
B
B
C4
C5
C6
DC
DC
DC
112
112
112
N
1
6.10
0.50
121.00
127.10
B
B
B
C5
C6
N1
DC
DC
DC
112
112
112
N
1
-3.07
0.40
104.50
101.43
B
B
B
O4'
C4'
C3'
DG
DG
DG
113
113
113
N
1
3.46
0.50
113.10
116.56
B
B
B
N7
C8
N9
DG
DG
DG
113
113
113
N
1
-2.74
0.40
106.40
103.66
B
B
B
C8
N9
C4
DG
DG
DG
113
113
113
N
1
-2.81
0.40
104.50
101.69
B
B
B
O4'
C4'
C3'
DT
DT
DT
114
114
114
N
1
4.56
0.60
123.70
128.26
B
B
B
C5
C6
N1
DT
DT
DT
114
114
114
N
1
3.02
0.40
105.80
108.82
B
B
B
C8
N9
C4
DA
DA
DA
117
117
117
N
1
-2.44
0.40
105.80
103.36
B
B
B
N9
C4
C5
DA
DA
DA
117
117
117
N
1
10.64
1.60
120.90
131.54
B
B
B
P
O5'
C5'
DG
DG
DG
119
119
119
N
1
A
A
C4
C5
DC
DC
2
2
0.050
0.008
1.425
1.475
N
1
A
A
O4'
C1'
DG
DG
3
3
0.082
0.011
1.420
1.502
N
1
A
A
C5
C7
DT
DT
4
4
-0.047
0.006
1.496
1.449
N
1
A
A
N1
C2
DA
DA
5
5
0.059
0.009
1.339
1.398
N
1
A
A
C6
N1
DA
DA
7
7
-0.044
0.007
1.351
1.307
N
1
A
A
C4
N4
DC
DC
8
8
-0.060
0.009
1.335
1.275
N
1
A
A
C5
C6
DC
DC
8
8
-0.064
0.008
1.339
1.275
N
1
A
A
C6
N1
DG
DG
9
9
0.048
0.007
1.391
1.439
N
1
A
A
C2
O2
DC
DC
10
10
-0.056
0.009
1.240
1.184
N
1
A
A
C2
N3
DC
DC
10
10
0.050
0.008
1.353
1.403
N
1
B
B
N3
C4
DG
DG
111
111
-0.046
0.007
1.350
1.304
N
1
B
B
C8
N9
DG
DG
111
111
0.062
0.007
1.374
1.436
N
1
B
B
C2
N3
DG
DG
113
113
-0.048
0.008
1.323
1.275
N
1
B
B
C5
C6
DT
DT
114
114
-0.069
0.007
1.339
1.270
N
1
B
B
N1
C2
DA
DA
115
115
-0.070
0.009
1.339
1.269
N
1
B
B
C6
N1
DA
DA
117
117
0.046
0.007
1.351
1.397
N
1
B
B
N7
C8
DA
DA
117
117
0.046
0.007
1.311
1.357
N
1
B
B
C2'
C1'
DG
DG
119
119
-0.067
0.010
1.518
1.451
N
1
B
B
C5
N7
DG
DG
119
119
0.039
0.006
1.388
1.427
N
1
B
B
C4
C5
DC
DC
120
120
0.050
0.008
1.425
1.475
N
0.141
0.137
1.25
15.0
14054
12784
1
4.0
2.0
MOLECULAR REPLACEMENT
1.25
15.0
146
781
0
635
0
0.029
0.034
0.141
1.25
20.0
1MLX
14088
12796
4.0
2.0
0.03
1
95.9
0.313
1.25
1.29
1341
93.6
data scaling
XDS
data scaling
SCALEPACK
phasing
AMoRE
refinement
SHELXL-97
data reduction
XDS
Crystal Structure Analysis of a 2'-O-[2-(Methylthio)-ethyl]-Modified Oligodeoxynucleotide Duplex
1
N
N
1
N
N
2
N
N
2
N
N
covale
1.614
both
A
DA
5
A
O3'
DA
5
1_555
A
SMT
6
A
P
SMT
6
1_555
covale
1.606
both
A
SMT
6
A
O3'
SMT
6
1_555
A
DA
7
A
P
DA
7
1_555
covale
1.595
both
B
DA
115
B
O3'
DA
5
1_555
B
SMT
116
B
P
SMT
6
1_555
covale
1.619
both
B
SMT
116
B
O3'
SMT
6
1_555
B
DA
117
B
P
DA
7
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
B
DC
120
B
N3
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
B
DC
120
B
O2
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
B
DC
120
B
N4
DC
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
B
DG
119
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
B
DG
119
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
B
DG
119
B
N2
DG
9
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
DC
118
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
118
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
118
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
B
DA
117
B
N1
DA
7
1_555
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
B
DA
117
B
N6
DA
7
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
SMT
116
B
N3
SMT
6
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
SMT
116
B
O4
SMT
6
1_555
hydrog
WATSON-CRICK
A
SMT
6
A
N3
SMT
6
1_555
B
DA
115
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
SMT
6
A
O4
SMT
6
1_555
B
DA
115
B
N6
DA
5
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N1
DA
7
1_555
B
DT
114
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N6
DA
7
1_555
B
DT
114
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
DC
8
A
N3
DC
8
1_555
B
DG
113
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
8
A
N4
DC
8
1_555
B
DG
113
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
8
A
O2
DC
8
1_555
B
DG
113
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
9
1_555
B
DC
112
B
N3
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
9
1_555
B
DC
112
B
O2
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
9
1_555
B
DC
112
B
N4
DC
2
1_555
hydrog
WATSON-CRICK
A
DC
10
A
N3
DC
10
1_555
B
DG
111
B
N1
DG
1
1_555
hydrog
WATSON-CRICK
A
DC
10
A
N4
DC
10
1_555
B
DG
111
B
O6
DG
1
1_555
hydrog
WATSON-CRICK
A
DC
10
A
O2
DC
10
1_555
B
DG
111
B
N2
DG
1
1_555
DNA
DNA, DOUBLE HELIX, A-FORM, ANTISENSE MODIFICATION, NUCLEIC ACID ANALOGUE, RNA AFFINITY, NUCLEASE RESISTANCE, PROTEIN BINDING AFFINITY, HIGH RESOLUTION STRUCTURE, HYDRATION
1MLX
PDB
1
1MLX
1
10
1MLX
1
10
1MLX
A
1
1
10
111
120
1MLX
111
120
1MLX
B
1
1
10
19
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