0.028653
0.000000
0.000000
0.000000
0.025543
0.000000
0.000000
0.000000
0.048450
0.00000
0.00000
0.00000
Cruse, W.B.T.
Salisbury, S.A.
Brown, T.
Cosstick, R.
Eckstein, F.
Kennard, O.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
34.900
39.150
20.640
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
H2 O
18.015
WATER
non-polymer
C9 H14 N3 O6 P S
323.263
n
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
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
N
17
N
C
N
18
N
O
N
19
N
N
N
20
N
C
N
21
N
N
N
22
N
N
Y
23
N
C
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
O
N
39
N
H
N
40
N
H
N
41
N
N
N
42
N
C
N
43
N
N
N
44
N
C
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
R
C
N
50
N
C
N
51
S
C
N
52
R
C
N
53
N
O
N
54
N
O
N
55
N
C
N
56
N
O
N
57
N
P
N
58
N
O
N
59
N
S
N
60
N
O
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
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
N
29
N
sing
Y
30
N
doub
N
31
N
doub
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
doub
N
37
N
sing
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
doub
N
47
N
doub
N
48
N
sing
N
49
N
sing
N
50
N
doub
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
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
doub
N
74
N
sing
N
75
N
sing
N
76
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
192
891
905
10.1016/0022-2836(86)90035-5
3108513
Chiral phosphorothioate analogues of B-DNA. The crystal structure of Rp-d[Gp(S)CpGp(S)CpGp(S)C].
1986
10.2210/pdb1d97/pdb
pdb_00001d97
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
291.00
1
DIFFRACTOMETER
SYNTEX P21
x-ray
1
1.0
1858.403
DNA (5'-D(RP*GP*(SC)P*GP*(SC)P*GP*(SC))-3')
2
syn
polymer
18.015
water
72
nat
water
no
yes
(DG)(SC)(DG)(SC)(DG)(SC)
GCGCGC
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
1.90
35.16
VAPOR DIFFUSION
VAPOR DIFFUSION, temperature 287.00K
287.00
WATER
1
ISOPROPANOL
1
NA CACODYLATE
1
MGCL2
1
SPERMINE_HCL
1
4.136
1
19
A
1
B
12
-1.113
A_DG1:SC12_B
1
-9.904
-0.350
0.370
-0.012
-4.777
1
19
A
2
B
11
-2.486
A_SC2:DG11_B
2
3.557
-0.254
0.109
-0.293
3.446
1
19
A
3
B
10
-5.981
A_DG3:SC10_B
3
-13.676
0.248
0.412
-0.226
0.564
1
19
A
4
B
9
-1.847
A_SC4:DG9_B
4
-8.339
0.387
0.204
-0.288
1.859
1
19
A
5
B
8
0.687
A_DG5:SC8_B
5
-9.318
0.000
0.152
-0.164
-7.715
1
19
A
6
B
7
0.040
A_SC6:DG7_B
6
-5.203
-0.119
0.324
-0.231
3.730
37.300
A
A
1
2
2.193
B
B
12
11
3.665
1.401
0.900
0.360
AA_DG1SC2:DG11SC12_BB
1
2.722
-4.261
37.179
0.352
-0.999
3.339
36.399
A
A
2
3
-3.218
B
B
11
10
3.291
-2.006
-1.200
0.896
AA_SC2DG3:SC10DG11_BB
2
-3.633
5.828
36.170
1.718
1.408
3.549
38.594
A
A
3
4
-2.309
B
B
10
9
3.495
-1.523
0.980
0.692
AA_DG3SC4:DG9SC10_BB
3
4.137
-6.273
38.351
1.250
-0.931
3.408
31.463
A
A
4
5
-1.827
B
B
9
8
3.388
-0.990
-0.895
0.546
AA_SC4DG5:SC8DG9_BB
4
-1.547
2.854
31.410
1.200
1.350
3.547
37.184
A
A
5
6
-1.461
B
B
8
7
3.590
-0.931
1.196
-0.382
AA_DG5SC6:DG7SC8_BB
5
-1.550
2.432
37.141
-0.464
-2.101
chem_comp_atom
chem_comp_bond
database_2
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
1993-07-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
BNL
Y
NDB
1992-10-17
REL
HOH
water
HOH
13
2
HOH
HOH
13
A
HOH
14
2
HOH
HOH
14
A
HOH
15
2
HOH
HOH
15
A
HOH
17
2
HOH
HOH
17
A
HOH
21
2
HOH
HOH
21
A
HOH
25
2
HOH
HOH
25
A
HOH
27
2
HOH
HOH
27
A
HOH
29
2
HOH
HOH
29
A
HOH
30
2
HOH
HOH
30
A
HOH
34
2
HOH
HOH
34
A
HOH
35
2
HOH
HOH
35
A
HOH
37
2
HOH
HOH
37
A
HOH
38
2
HOH
HOH
38
A
HOH
41
2
HOH
HOH
41
A
HOH
43
2
HOH
HOH
43
A
HOH
44
2
HOH
HOH
44
A
HOH
45
2
HOH
HOH
45
A
HOH
46
2
HOH
HOH
46
A
HOH
47
2
HOH
HOH
47
A
HOH
58
2
HOH
HOH
58
A
HOH
59
2
HOH
HOH
59
A
HOH
65
2
HOH
HOH
65
A
HOH
67
2
HOH
HOH
67
A
HOH
68
2
HOH
HOH
68
A
HOH
71
2
HOH
HOH
71
A
HOH
73
2
HOH
HOH
73
A
HOH
74
2
HOH
HOH
74
A
HOH
76
2
HOH
HOH
76
A
HOH
78
2
HOH
HOH
78
A
HOH
79
2
HOH
HOH
79
A
HOH
80
2
HOH
HOH
80
A
HOH
81
2
HOH
HOH
81
A
HOH
84
2
HOH
HOH
84
A
HOH
16
2
HOH
HOH
16
B
HOH
18
2
HOH
HOH
18
B
HOH
19
2
HOH
HOH
19
B
HOH
20
2
HOH
HOH
20
B
HOH
22
2
HOH
HOH
22
B
HOH
23
2
HOH
HOH
23
B
HOH
24
2
HOH
HOH
24
B
HOH
26
2
HOH
HOH
26
B
HOH
28
2
HOH
HOH
28
B
HOH
31
2
HOH
HOH
31
B
HOH
32
2
HOH
HOH
32
B
HOH
33
2
HOH
HOH
33
B
HOH
36
2
HOH
HOH
36
B
HOH
39
2
HOH
HOH
39
B
HOH
40
2
HOH
HOH
40
B
HOH
42
2
HOH
HOH
42
B
HOH
48
2
HOH
HOH
48
B
HOH
49
2
HOH
HOH
49
B
HOH
50
2
HOH
HOH
50
B
HOH
51
2
HOH
HOH
51
B
HOH
52
2
HOH
HOH
52
B
HOH
53
2
HOH
HOH
53
B
HOH
54
2
HOH
HOH
54
B
HOH
55
2
HOH
HOH
55
B
HOH
56
2
HOH
HOH
56
B
HOH
57
2
HOH
HOH
57
B
HOH
60
2
HOH
HOH
60
B
HOH
61
2
HOH
HOH
61
B
HOH
62
2
HOH
HOH
62
B
HOH
63
2
HOH
HOH
63
B
HOH
64
2
HOH
HOH
64
B
HOH
66
2
HOH
HOH
66
B
HOH
69
2
HOH
HOH
69
B
HOH
70
2
HOH
HOH
70
B
HOH
72
2
HOH
HOH
72
B
HOH
75
2
HOH
HOH
75
B
HOH
77
2
HOH
HOH
77
B
HOH
82
2
HOH
HOH
82
B
HOH
83
2
HOH
HOH
83
B
G
1
n
1
DG
1
A
+C
2
n
2
SC
2
A
G
3
n
3
DG
3
A
+C
4
n
4
SC
4
A
G
5
n
5
DG
5
A
+C
6
n
6
SC
6
A
G
7
n
1
DG
7
B
+C
8
n
2
SC
8
B
G
9
n
3
DG
9
B
+C
10
n
4
SC
10
B
G
11
n
5
DG
11
B
+C
12
n
6
SC
12
B
author_defined_assembly
2
dimeric
A
SC
2
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
A
SC
2
DC
A
SC
4
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
A
SC
4
DC
A
SC
6
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
A
SC
6
DC
B
SC
8
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
B
SC
2
DC
B
SC
10
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
B
SC
4
DC
B
SC
12
2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE
B
SC
6
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
1
A
C4'
SC
6
PLANAR
1
B
B
OP2
O
DG
HOH
9
36
2.03
1
A
A
O
O
HOH
HOH
21
37
2.07
1
B
B
OP1
O
DG
HOH
11
56
2.12
1
B
B
O
O
HOH
HOH
53
57
2.13
1
B
B
O
O
HOH
HOH
28
69
2.13
1
B
B
OP1
O
SC
HOH
12
57
2.19
1
B
B
O4'
O
DG
HOH
7
75
2.19
1
-9.86
1.50
119.60
109.74
A
A
A
OP1
P
OP2
DG
DG
DG
3
3
3
N
1
-4.60
0.70
119.90
115.30
A
A
A
N3
C2
N2
DG
DG
DG
3
3
3
N
1
-5.55
0.80
105.90
100.35
A
A
A
O4'
C1'
C2'
DG
DG
DG
5
5
5
N
1
-5.32
0.70
108.00
102.68
A
A
A
O4'
C1'
N9
DG
DG
DG
5
5
5
N
1
7.56
1.20
119.70
127.26
A
A
A
C3'
O3'
P
DG
DG
SC
5
5
6
Y
1
6.96
0.30
108.30
115.26
B
B
B
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
8.30
1.20
119.70
128.00
B
B
B
C3'
O3'
P
DG
DG
SC
9
9
10
Y
1
-5.11
0.80
105.90
100.79
B
B
B
O4'
C1'
C2'
DG
DG
DG
11
11
11
N
1
A
A
OP1
O
SC
HOH
6
41
1.92
1_555
3_555
1
A
A
O
O
HOH
HOH
59
79
2.00
1_555
2_454
0.145
2.170
8.000
1327
1
2.000
TR
isotropic
TR
isotropic
2.170
8.000
72
312
6
234
0
fix
fix
2.170
25.000
1D97
1954
1
refinement
NUCLSQ
CHIRAL PHOSPHOROTHIOATE ANALOGUES OF B-DNA: THE CRYSTAL STRUCTURE OF RP-D(GP(S) CPGP(S)CPGP(S)C)
1
N
N
1
N
N
2
N
N
2
N
N
covale
1.606
both
A
DG
1
A
O3'
DG
1
1_555
A
SC
2
A
P
SC
2
1_555
covale
1.572
both
A
SC
2
A
O3'
SC
2
1_555
A
DG
3
A
P
DG
3
1_555
covale
1.608
both
A
DG
3
A
O3'
DG
3
1_555
A
SC
4
A
P
SC
4
1_555
covale
1.608
both
A
SC
4
A
O3'
SC
4
1_555
A
DG
5
A
P
DG
5
1_555
covale
1.606
both
A
DG
5
A
O3'
DG
5
1_555
A
SC
6
A
P
SC
6
1_555
covale
1.608
both
B
DG
7
B
O3'
DG
1
1_555
B
SC
8
B
P
SC
2
1_555
covale
1.639
both
B
SC
8
B
O3'
SC
2
1_555
B
DG
9
B
P
DG
3
1_555
covale
1.613
both
B
DG
9
B
O3'
DG
3
1_555
B
SC
10
B
P
SC
4
1_555
covale
1.609
both
B
SC
10
B
O3'
SC
4
1_555
B
DG
11
B
P
DG
5
1_555
covale
1.647
both
B
DG
11
B
O3'
DG
5
1_555
B
SC
12
B
P
SC
6
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
B
SC
12
B
N3
SC
6
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
B
SC
12
B
O2
SC
6
1_555
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
B
SC
12
B
N4
SC
6
1_555
hydrog
WATSON-CRICK
A
SC
2
A
N3
SC
2
1_555
B
DG
11
B
N1
DG
5
1_555
hydrog
WATSON-CRICK
A
SC
2
A
N4
SC
2
1_555
B
DG
11
B
O6
DG
5
1_555
hydrog
WATSON-CRICK
A
SC
2
A
O2
SC
2
1_555
B
DG
11
B
N2
DG
5
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
SC
10
B
N3
SC
4
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
SC
10
B
O2
SC
4
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
SC
10
B
N4
SC
4
1_555
hydrog
WATSON-CRICK
A
SC
4
A
N3
SC
4
1_555
B
DG
9
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
A
SC
4
A
N4
SC
4
1_555
B
DG
9
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
SC
4
A
O2
SC
4
1_555
B
DG
9
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DG
5
A
N1
DG
5
1_555
B
SC
8
B
N3
SC
2
1_555
hydrog
WATSON-CRICK
A
DG
5
A
N2
DG
5
1_555
B
SC
8
B
O2
SC
2
1_555
hydrog
WATSON-CRICK
A
DG
5
A
O6
DG
5
1_555
B
SC
8
B
N4
SC
2
1_555
hydrog
WATSON-CRICK
A
SC
6
A
N3
SC
6
1_555
B
DG
7
B
N1
DG
1
1_555
hydrog
WATSON-CRICK
A
SC
6
A
N4
SC
6
1_555
B
DG
7
B
O6
DG
1
1_555
hydrog
WATSON-CRICK
A
SC
6
A
O2
SC
6
1_555
B
DG
7
B
N2
DG
1
1_555
DNA
B-DNA, DOUBLE HELIX, MODIFIED, DNA
1D97
PDB
1
1D97
1
6
1D97
1
6
1D97
A
1
1
6
7
12
1D97
7
12
1D97
B
1
1
6
19
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