0.021645
0.012497
0.000000
0.000000
0.024994
0.000000
0.000000
0.000000
0.013986
0.00000
0.00000
0.00000
Bingman, C.A.
Jain, S.
Zon, G.
Sundaralingam, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
46.200
46.200
71.500
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
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
20
6637
6647
10.1093/nar/20.24.6637
1480485
Crystal and molecular structure of the alternating dodecamer d(GCGTACGTACGC) in the A-DNA form: comparison with the isomorphous non-alternating dodecamer d(CCGTACGTACGG).
1992
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
227
738
756
Crystal and Molecular Structure of the A-DNA Dodecamer d(CCGTACGTACGG): Choice of Fragment Helical Axis
1992
10.2210/pdb117d/pdb
pdb_0000117d
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
OSCILLATION CAMERA
x-ray
1
1.0
ROTATING ANODE
ELLIOTT GX-6
3663.392
DNA (5'-D(*GP*CP*GP*TP*AP*CP*GP*TP*AP*CP*GP*C)-3')
1
syn
polymer
18.015
water
33
nat
water
no
no
(DG)(DC)(DG)(DT)(DA)(DC)(DG)(DT)(DA)(DC)(DG)(DC)
GCGTACGTACGC
A
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
3.01
59.09
VAPOR DIFFUSION
6.50
pH 6.50, VAPOR DIFFUSION, temperature 277.00K
277.00
WATER
1
SPERMINE
1
[CO(NH3)6]3+
1
NA CACODYLATE
1
WATER
2
PROPANOL
2
-12.290
1
19
A
1
A
12
0.320
A_DG1:DC12_A
1
-3.917
-0.274
-0.129
-0.085
-4.831
1
19
A
2
A
11
-3.669
A_DC2:DG11_A
2
-7.088
0.071
0.373
-0.164
2.240
1
19
A
3
A
10
-0.077
A_DG3:DC10_A
3
-9.199
-0.040
0.279
-0.118
0.674
1
20
A
4
A
9
2.734
A_DT4:DA9_A
4
-9.323
-0.042
0.139
-0.189
6.923
1
20
A
5
A
8
-1.724
A_DA5:DT8_A
5
-11.609
-0.088
0.249
-0.077
7.301
1
19
A
6
A
7
-0.579
A_DC6:DG7_A
6
-13.981
0.355
-0.204
-0.190
-7.301
1
19
A
7
A
6
-0.579
A_DG7:DC6_A
7
-13.981
-0.355
-0.204
-0.190
-6.923
1
20
A
8
A
5
-1.724
A_DT8:DA5_A
8
-11.609
0.088
0.249
-0.077
-0.674
1
20
A
9
A
4
2.735
A_DA9:DT4_A
9
-9.323
0.042
0.139
-0.189
-2.240
1
19
A
10
A
3
-0.077
A_DC10:DG3_A
10
-9.199
0.040
0.279
-0.118
4.831
1
19
A
11
A
2
-3.669
A_DG11:DC2_A
11
-7.088
-0.071
0.373
-0.164
12.290
1
19
A
12
A
1
0.320
A_DC12:DG1_A
12
-3.917
0.274
-0.129
-0.085
3.068
29.304
A
A
1
2
10.399
A
A
12
11
3.340
5.223
-0.216
-1.282
AA_DG1DC2:DG11DC12_AA
1
-3.342
6.654
28.654
-3.651
-0.287
2.815
34.698
A
A
2
3
3.895
A
A
11
10
2.940
2.321
0.470
-1.746
AA_DC2DG3:DC10DG11_AA
2
-0.349
0.586
34.621
-3.241
-0.836
3.319
29.971
A
A
3
4
2.570
A
A
10
9
3.424
1.327
-0.215
-1.595
AA_DG3DT4:DA9DC10_AA
3
2.732
-5.292
29.820
-3.366
0.998
2.721
31.982
A
A
4
5
14.020
A
A
9
8
3.083
7.653
-0.180
-1.167
AA_DT4DA5:DT8DA9_AA
4
0.802
-1.469
31.066
-3.365
0.458
2.896
34.641
A
A
5
6
19.555
A
A
8
7
3.412
11.429
0.262
-1.075
AA_DA5DC6:DG7DT8_AA
5
2.365
-4.046
32.672
-3.554
-0.078
1.316
36.858
A
A
6
7
41.797
A
A
7
6
3.541
24.327
0.000
-2.140
AA_DC6DG7:DC6DG7_AA
6
0.000
0.000
27.902
-6.204
0.000
2.896
34.641
A
A
7
8
19.555
A
A
6
5
3.412
11.429
-0.262
-1.075
AA_DG7DT8:DA5DC6_AA
7
-2.365
4.046
32.672
-3.554
0.078
2.721
31.982
A
A
8
9
14.020
A
A
5
4
3.083
7.653
0.180
-1.167
AA_DT8DA9:DT4DA5_AA
8
-0.802
1.469
31.066
-3.365
-0.458
3.319
29.971
A
A
9
10
2.570
A
A
4
3
3.424
1.327
0.215
-1.595
AA_DA9DC10:DG3DT4_AA
9
-2.732
5.292
29.820
-3.366
-0.998
2.815
34.698
A
A
10
11
3.895
A
A
3
2
2.940
2.321
-0.470
-1.746
AA_DC10DG11:DC2DG3_AA
10
0.349
-0.586
34.621
-3.241
0.836
3.068
29.304
A
A
11
12
10.399
A
A
2
1
3.340
5.223
0.216
-1.282
AA_DG11DC12:DG1DC2_AA
11
3.342
-6.654
28.654
-3.651
0.287
audit_author
citation_author
database_2
repository
Initial release
Version format compliance
Version format compliance
Database references
Structure summary
1
0
1993-04-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2023-03-22
_audit_author.name
_citation_author.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
BNL
Y
NDB
1993-02-10
REL
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
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
G
1
n
1
DG
1
A
C
2
n
2
DC
2
A
G
3
n
3
DG
3
A
T
4
n
4
DT
4
A
A
5
n
5
DA
5
A
C
6
n
6
DC
6
A
G
7
n
7
DG
7
A
T
8
n
8
DT
8
A
A
9
n
9
DA
9
A
C
10
n
10
DC
10
A
G
11
n
11
DG
11
A
C
12
n
12
DC
12
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
0.5000000000
0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
12_565
x,x-y+1,-z+1/6
crystal symmetry operation
-23.1000000000
40.0103736548
11.9166666667
1
3.57
0.30
108.30
111.87
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
-8.31
1.20
119.70
111.39
A
A
A
C3'
O3'
P
DG
DG
DC
1
1
2
Y
1
-11.11
1.60
120.90
109.79
A
A
A
P
O5'
C5'
DC
DC
DC
2
2
2
N
1
3.00
0.30
108.30
111.30
A
A
A
O4'
C1'
N1
DC
DC
DC
2
2
2
N
1
-12.10
1.20
119.70
107.60
A
A
A
C3'
O3'
P
DC
DC
DG
2
2
3
Y
1
12.13
1.20
110.70
122.83
A
A
A
O5'
P
OP1
DG
DG
DG
3
3
3
N
1
-5.68
0.80
109.40
103.72
A
A
A
O5'
C5'
C4'
DG
DG
DG
3
3
3
N
1
3.12
0.50
111.50
114.62
A
A
A
C5
C6
N1
DG
DG
DG
3
3
3
N
1
-3.67
0.60
127.20
123.53
A
A
A
C2
N3
C4
DT
DT
DT
4
4
4
N
1
4.26
0.30
108.30
112.56
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
1
-7.74
0.80
109.40
101.66
A
A
A
O5'
C5'
C4'
DC
DC
DC
6
6
6
N
1
4.82
0.30
108.30
113.12
A
A
A
O4'
C1'
N1
DC
DC
DC
6
6
6
N
1
8.07
1.20
110.70
118.77
A
A
A
O5'
P
OP1
DT
DT
DT
8
8
8
N
1
-5.47
0.60
127.20
121.73
A
A
A
C2
N3
C4
DT
DT
DT
8
8
8
N
1
4.35
0.60
115.20
119.55
A
A
A
N3
C4
C5
DT
DT
DT
8
8
8
N
1
-4.48
0.60
119.90
115.42
A
A
A
N3
C4
O4
DT
DT
DT
8
8
8
N
1
4.88
0.60
118.60
123.48
A
A
A
C6
N1
C2
DA
DA
DA
9
9
9
N
1
-3.94
0.50
129.30
125.36
A
A
A
N1
C2
N3
DA
DA
DA
9
9
9
N
1
-3.42
0.50
117.70
114.28
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
1
3.14
0.50
111.50
114.64
A
A
A
C5
C6
N1
DG
DG
DG
11
11
11
N
1
-5.49
0.80
109.40
103.91
A
A
A
O5'
C5'
C4'
DC
DC
DC
12
12
12
N
1
4.73
0.30
108.30
113.03
A
A
A
O4'
C1'
N1
DC
DC
DC
12
12
12
N
1
A
A
O3'
O
DC
HOH
12
23
2.17
1_555
5_554
0.1420000
2.550
8.000
1089
1
2.000
TR
isotropic
TR
isotropic
2.550
8.000
33
276
0
243
0
2.400
3.000
3.300
4.500
3.100
3.000
3.900
4.500
0.006
0.025
0.020
0.050
0.024
0.050
0.045
0.075
0.015
0.040
0.048
0.100
0.146
0.090
0.111
0.090
fix
fix
2.550
117D
2008
1115
2.000
1
refinement
NUCLSQ
CRYSTAL AND MOLECULAR STRUCTURE OF THE ALTERNATING DODECAMER D(GCGTACGTACGC) IN THE A-DNA FORM: COMPARISON WITH THE ISOMORPHOUS NON-ALTERNATING DODECAMER D(CCGTACGTACGG)
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
A
DC
12
A
N3
DC
12
12_565
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
A
DC
12
A
O2
DC
12
12_565
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
A
DC
12
A
N4
DC
12
12_565
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
A
DG
11
A
N1
DG
11
12_565
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
A
DG
11
A
O6
DG
11
12_565
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
A
DG
11
A
N2
DG
11
12_565
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
A
DC
10
A
N3
DC
10
12_565
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
A
DC
10
A
O2
DC
10
12_565
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
A
DC
10
A
N4
DC
10
12_565
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
A
DA
9
A
N1
DA
9
12_565
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
A
DA
9
A
N6
DA
9
12_565
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
A
DT
8
A
N3
DT
8
12_565
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
A
DT
8
A
O4
DT
8
12_565
hydrog
WATSON-CRICK
A
DC
6
A
N3
DC
6
1_555
A
DG
7
A
N1
DG
7
12_565
hydrog
WATSON-CRICK
A
DC
6
A
N4
DC
6
1_555
A
DG
7
A
O6
DG
7
12_565
hydrog
WATSON-CRICK
A
DC
6
A
O2
DC
6
1_555
A
DG
7
A
N2
DG
7
12_565
hydrog
WATSON-CRICK
A
DG
7
A
N1
DG
7
1_555
A
DC
6
A
N3
DC
6
12_565
hydrog
WATSON-CRICK
A
DG
7
A
N2
DG
7
1_555
A
DC
6
A
O2
DC
6
12_565
hydrog
WATSON-CRICK
A
DG
7
A
O6
DG
7
1_555
A
DC
6
A
N4
DC
6
12_565
hydrog
WATSON-CRICK
A
DT
8
A
N3
DT
8
1_555
A
DA
5
A
N1
DA
5
12_565
hydrog
WATSON-CRICK
A
DT
8
A
O4
DT
8
1_555
A
DA
5
A
N6
DA
5
12_565
hydrog
WATSON-CRICK
A
DA
9
A
N1
DA
9
1_555
A
DT
4
A
N3
DT
4
12_565
hydrog
WATSON-CRICK
A
DA
9
A
N6
DA
9
1_555
A
DT
4
A
O4
DT
4
12_565
hydrog
WATSON-CRICK
A
DC
10
A
N3
DC
10
1_555
A
DG
3
A
N1
DG
3
12_565
hydrog
WATSON-CRICK
A
DC
10
A
N4
DC
10
1_555
A
DG
3
A
O6
DG
3
12_565
hydrog
WATSON-CRICK
A
DC
10
A
O2
DC
10
1_555
A
DG
3
A
N2
DG
3
12_565
hydrog
WATSON-CRICK
A
DG
11
A
N1
DG
11
1_555
A
DC
2
A
N3
DC
2
12_565
hydrog
WATSON-CRICK
A
DG
11
A
N2
DG
11
1_555
A
DC
2
A
O2
DC
2
12_565
hydrog
WATSON-CRICK
A
DG
11
A
O6
DG
11
1_555
A
DC
2
A
N4
DC
2
12_565
hydrog
WATSON-CRICK
A
DC
12
A
N3
DC
12
1_555
A
DG
1
A
N1
DG
1
12_565
hydrog
WATSON-CRICK
A
DC
12
A
N4
DC
12
1_555
A
DG
1
A
O6
DG
1
12_565
hydrog
WATSON-CRICK
A
DC
12
A
O2
DC
12
1_555
A
DG
1
A
N2
DG
1
12_565
DNA
A-DNA, DOUBLE HELIX, DNA
117D
PDB
1
117D
1
12
117D
1
12
117D
A
1
1
12
178
P 61 2 2