0.025569
0.014762
0.000000
0.000000
0.029524
0.000000
0.000000
0.000000
0.012621
0.00000
0.00000
0.00000
Ramakrishnan, B.
Sundaralingam, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
39.110
39.110
79.230
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
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
N
13
N
N
N
14
N
C
N
15
N
O
N
16
N
N
N
17
N
C
N
18
N
N
N
19
N
C
N
20
N
C
N
21
N
H
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
H
N
35
N
O
N
36
N
P
N
37
N
O
N
38
N
O
N
39
N
O
N
40
N
C
N
41
R
C
N
42
N
O
N
43
S
C
N
44
N
O
N
45
N
C
N
46
R
C
Y
47
N
N
Y
48
N
C
Y
49
N
N
Y
50
N
C
N
51
N
C
N
52
N
O
N
53
N
N
N
54
N
C
N
55
N
N
N
56
N
N
Y
57
N
C
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
H
N
72
N
O
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
N
24
N
sing
N
25
N
sing
N
26
N
doub
N
27
N
sing
N
28
N
doub
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
doub
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
N
58
N
sing
Y
59
N
sing
Y
60
N
sing
Y
61
N
doub
N
62
N
sing
Y
63
N
sing
N
64
N
sing
Y
65
N
doub
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
sing
US
Biochemistry
BICHAW
0033
0006-2960
32
11458
11468
10.1021/bi00093a025
8218212
Evidence for crystal environment dominating base sequence effects on DNA conformation: crystal structures of the orthorhombic and hexagonal polymorphs of the A-DNA decamer d(GCGGGCCCGC) and comparison with their isomorphous crystal structures.
1993
10.2210/pdb138d/pdb
pdb_0000138d
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
290.00
1
AREA DETECTOR
SIEMENS
x-ray
1
1.0
ROTATING ANODE
3046.980
DNA (5'-D(*GP*CP*GP*GP*GP*CP*CP*CP*GP*C)-3')
1
syn
polymer
18.015
water
38
nat
water
no
no
(DG)(DC)(DG)(DG)(DG)(DC)(DC)(DC)(DG)(DC)
GCGGGCCCGC
A
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
2.87
57.15
VAPOR DIFFUSION, HANGING DROP
7.00
pH 7.00, VAPOR DIFFUSION, HANGING DROP
WATER
1
NA CACODYLATE
1
[CO(NH3)6]CL3
1
WATER
2
MPD
2
-3.305
1
19
A
1
A
10
-4.078
A_DG1:DC10_A
1
-7.021
-0.287
-0.127
-0.216
-0.627
1
19
A
2
A
9
-1.069
A_DC2:DG9_A
2
-7.871
0.220
-0.085
-0.359
1.214
1
19
A
3
A
8
-2.546
A_DG3:DC8_A
3
-8.167
-0.103
-0.022
-0.299
10.461
1
19
A
4
A
7
1.514
A_DG4:DC7_A
4
-9.885
-0.143
0.168
-0.214
2.939
1
19
A
5
A
6
-3.332
A_DG5:DC6_A
5
-17.284
-0.428
-0.235
-0.141
-2.939
1
19
A
6
A
5
-3.332
A_DC6:DG5_A
6
-17.284
0.428
-0.235
-0.141
-10.461
1
19
A
7
A
4
1.514
A_DC7:DG4_A
7
-9.885
0.143
0.168
-0.214
-1.214
1
19
A
8
A
3
-2.546
A_DC8:DG3_A
8
-8.167
0.103
-0.022
-0.299
0.627
1
19
A
9
A
2
-1.069
A_DG9:DC2_A
9
-7.871
-0.220
-0.085
-0.359
3.305
1
19
A
10
A
1
-4.078
A_DC10:DG1_A
10
-7.021
0.287
-0.127
-0.216
3.166
32.875
A
A
1
2
8.482
A
A
10
9
3.327
4.784
0.476
-0.943
AA_DG1DC2:DG9DC10_AA
1
0.445
-0.790
32.531
-2.484
-0.765
2.500
35.412
A
A
2
3
21.311
A
A
9
8
3.224
12.692
-0.137
-1.500
AA_DC2DG3:DC8DG9_AA
2
-0.308
0.518
33.126
-4.158
0.184
2.697
26.155
A
A
3
4
13.776
A
A
8
7
3.120
6.151
-0.457
-1.604
AA_DG3DG4:DC7DC8_AA
3
-4.138
9.267
25.100
-5.061
-0.011
2.941
34.430
A
A
4
5
19.196
A
A
7
6
3.441
11.161
-0.878
-1.183
AA_DG4DG5:DC6DC7_AA
4
-2.268
3.901
32.546
-3.745
1.129
3.122
39.804
A
A
5
6
10.757
A
A
6
5
3.380
7.286
0.000
-1.172
AA_DG5DC6:DG5DC6_AA
5
0.000
0.000
39.159
-2.568
0.000
2.941
34.430
A
A
6
7
19.195
A
A
5
4
3.441
11.160
0.878
-1.183
AA_DC6DC7:DG4DG5_AA
6
2.268
-3.901
32.546
-3.745
-1.129
2.697
26.155
A
A
7
8
13.776
A
A
4
3
3.120
6.151
0.457
-1.604
AA_DC7DC8:DG3DG4_AA
7
4.138
-9.267
25.100
-5.061
0.011
2.500
35.412
A
A
8
9
21.311
A
A
3
2
3.224
12.692
0.137
-1.500
AA_DC8DG9:DC2DG3_AA
8
0.308
-0.518
33.126
-4.158
-0.184
3.166
32.875
A
A
9
10
8.482
A
A
2
1
3.327
4.784
-0.476
-0.943
AA_DG9DC10:DG1DC2_AA
9
-0.445
0.790
32.531
-2.484
0.765
chem_comp_atom
chem_comp_bond
database_2
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
1
0
1994-01-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
BNL
Y
NDB
1993-09-15
REL
REL
HOH
water
HOH
11
2
HOH
HOH
11
A
HOH
12
2
HOH
HOH
12
A
HOH
13
2
HOH
HOH
13
A
HOH
14
2
HOH
HOH
14
A
HOH
15
2
HOH
HOH
15
A
HOH
16
2
HOH
HOH
16
A
HOH
17
2
HOH
HOH
17
A
HOH
18
2
HOH
HOH
18
A
HOH
19
2
HOH
HOH
19
A
HOH
20
2
HOH
HOH
20
A
HOH
21
2
HOH
HOH
21
A
HOH
22
2
HOH
HOH
22
A
HOH
23
2
HOH
HOH
23
A
HOH
24
2
HOH
HOH
24
A
HOH
25
2
HOH
HOH
25
A
HOH
26
2
HOH
HOH
26
A
HOH
27
2
HOH
HOH
27
A
HOH
28
2
HOH
HOH
28
A
HOH
29
2
HOH
HOH
29
A
HOH
30
2
HOH
HOH
30
A
HOH
31
2
HOH
HOH
31
A
HOH
32
2
HOH
HOH
32
A
HOH
33
2
HOH
HOH
33
A
HOH
34
2
HOH
HOH
34
A
HOH
35
2
HOH
HOH
35
A
HOH
36
2
HOH
HOH
36
A
HOH
37
2
HOH
HOH
37
A
HOH
38
2
HOH
HOH
38
A
HOH
39
2
HOH
HOH
39
A
HOH
40
2
HOH
HOH
40
A
HOH
41
2
HOH
HOH
41
A
HOH
42
2
HOH
HOH
42
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
48
2
HOH
HOH
48
A
G
1
n
1
DG
1
A
C
2
n
2
DC
2
A
G
3
n
3
DG
3
A
G
4
n
4
DG
4
A
G
5
n
5
DG
5
A
C
6
n
6
DC
6
A
C
7
n
7
DC
7
A
C
8
n
8
DC
8
A
G
9
n
9
DG
9
A
C
10
n
10
DC
10
A
author_defined_assembly
2
dimeric
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
11_555
-x+y,y,-z+1/2
crystal symmetry operation
0.0000000000
0.0000000000
39.6150000000
1
A
DG
3
0.076
SIDE CHAIN
1
A
DG
4
0.097
SIDE CHAIN
1
A
DC
6
0.070
SIDE CHAIN
1
A
DC
7
0.075
SIDE CHAIN
1
A
DG
9
0.090
SIDE CHAIN
1
-16.95
2.20
105.20
88.25
A
A
A
O3'
P
OP2
DG
DC
DC
1
2
2
Y
1
-2.52
0.40
104.50
101.98
A
A
A
O4'
C4'
C3'
DC
DC
DC
2
2
2
N
1
-3.29
0.40
104.50
101.21
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
1
-6.80
0.70
102.20
95.40
A
A
A
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
1
4.74
0.30
108.30
113.04
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
8.71
1.10
110.50
119.21
A
A
A
O3'
P
OP2
DG
DG
DG
4
5
5
Y
1
-20.91
2.20
105.20
84.29
A
A
A
O3'
P
OP1
DG
DG
DG
4
5
5
Y
1
4.04
0.30
108.30
112.34
A
A
A
O4'
C1'
N9
DG
DG
DG
5
5
5
N
1
9.10
1.10
110.50
119.60
A
A
A
O3'
P
OP2
DG
DC
DC
5
6
6
Y
1
-16.33
2.20
105.20
88.87
A
A
A
O3'
P
OP1
DG
DC
DC
5
6
6
Y
1
-4.42
0.70
102.20
97.78
A
A
A
C4'
C3'
C2'
DC
DC
DC
6
6
6
N
1
14.24
1.90
104.00
118.24
A
A
A
O3'
P
O5'
DC
DC
DC
6
7
7
Y
1
-4.32
0.70
102.20
97.88
A
A
A
C4'
C3'
C2'
DC
DC
DC
7
7
7
N
1
3.90
0.30
108.30
112.20
A
A
A
O4'
C1'
N1
DC
DC
DC
7
7
7
N
1
-5.24
0.80
109.40
104.16
A
A
A
O5'
C5'
C4'
DC
DC
DC
8
8
8
N
1
1.98
0.30
108.30
110.28
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
1
1.81
0.30
108.30
110.11
A
A
A
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
8.31
1.10
110.50
118.81
A
A
A
O3'
P
OP2
DG
DC
DC
9
10
10
Y
1
-13.70
2.20
105.20
91.50
A
A
A
O3'
P
OP1
DG
DC
DC
9
10
10
Y
1
A
A
C6
N1
DG
DG
3
3
-0.042
0.007
1.391
1.349
N
0.1830000
0.1830000
1.800
8.000
2298
1
3.000
TR
isotropic
TR
isotropic
1.800
8.000
38
240
0
202
0
0.017
3.60
31.9
3.90
fix
fix
1.800
15.000
138D
3435
1
refinement
X-PLOR
A-DNA DECAMER D(GCGGGCCCGC)-HEXAGONAL CRYSTAL FORM
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
A
DC
10
A
N3
DC
10
11_555
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
A
DC
10
A
O2
DC
10
11_555
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
A
DC
10
A
N4
DC
10
11_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
A
DG
9
A
N1
DG
9
11_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
A
DG
9
A
O6
DG
9
11_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
A
DG
9
A
N2
DG
9
11_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
A
DC
8
A
N3
DC
8
11_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
A
DC
8
A
O2
DC
8
11_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
A
DC
8
A
N4
DC
8
11_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
A
DC
7
A
N3
DC
7
11_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
A
DC
7
A
O2
DC
7
11_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
A
DC
7
A
N4
DC
7
11_555
hydrog
WATSON-CRICK
A
DG
5
A
N1
DG
5
1_555
A
DC
6
A
N3
DC
6
11_555
hydrog
WATSON-CRICK
A
DG
5
A
N2
DG
5
1_555
A
DC
6
A
O2
DC
6
11_555
hydrog
WATSON-CRICK
A
DG
5
A
O6
DG
5
1_555
A
DC
6
A
N4
DC
6
11_555
hydrog
WATSON-CRICK
A
DC
6
A
N3
DC
6
1_555
A
DG
5
A
N1
DG
5
11_555
hydrog
WATSON-CRICK
A
DC
6
A
N4
DC
6
1_555
A
DG
5
A
O6
DG
5
11_555
hydrog
WATSON-CRICK
A
DC
6
A
O2
DC
6
1_555
A
DG
5
A
N2
DG
5
11_555
hydrog
WATSON-CRICK
A
DC
7
A
N3
DC
7
1_555
A
DG
4
A
N1
DG
4
11_555
hydrog
WATSON-CRICK
A
DC
7
A
N4
DC
7
1_555
A
DG
4
A
O6
DG
4
11_555
hydrog
WATSON-CRICK
A
DC
7
A
O2
DC
7
1_555
A
DG
4
A
N2
DG
4
11_555
hydrog
WATSON-CRICK
A
DC
8
A
N3
DC
8
1_555
A
DG
3
A
N1
DG
3
11_555
hydrog
WATSON-CRICK
A
DC
8
A
N4
DC
8
1_555
A
DG
3
A
O6
DG
3
11_555
hydrog
WATSON-CRICK
A
DC
8
A
O2
DC
8
1_555
A
DG
3
A
N2
DG
3
11_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
9
1_555
A
DC
2
A
N3
DC
2
11_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
9
1_555
A
DC
2
A
O2
DC
2
11_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
9
1_555
A
DC
2
A
N4
DC
2
11_555
hydrog
WATSON-CRICK
A
DC
10
A
N3
DC
10
1_555
A
DG
1
A
N1
DG
1
11_555
hydrog
WATSON-CRICK
A
DC
10
A
N4
DC
10
1_555
A
DG
1
A
O6
DG
1
11_555
hydrog
WATSON-CRICK
A
DC
10
A
O2
DC
10
1_555
A
DG
1
A
N2
DG
1
11_555
DNA
A-DNA, DOUBLE HELIX, DNA
138D
PDB
1
138D
1
10
138D
1
10
138D
A
1
1
10
178
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