0.037893
0.021878
0.000000
0.000000
0.043755
0.000000
0.000000
0.000000
0.010124
0.000000
0.000000
0.000000
Johansson, E.M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
26.390
26.390
98.780
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
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
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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
300
551
561
10.1006/jmbi.2000.3907
10884351
A new crystal form for the dodecamer C-G-C-G-A-A-T-T-C-G-C-G: symmetry effects on sequence-dependent DNA structure.
2000
10.2210/pdb1ehv/pdb
pdb_00001ehv
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
284
1
IMAGE PLATE
1999-03-14
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
1.0
1.0
PX9.5
SRS
1.0
SYNCHROTRON
SRS BEAMLINE PX9.5
3663.392
DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3')
1
syn
polymer
18.015
water
48
nat
water
no
no
(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)
CGCGAATTCGCG
A
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
1
2.71
54.62
VAPOR DIFFUSION, HANGING DROP
6.8
KCL, BACL2, MPD, SPERMINE TETRAHYDROCHLORIDE, SODIUM CACODYLATE, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 284K
284
KCL
1
BACL2
1
SODIUM CACODYLATE
1
SPERMINE TETRAHYDROCHLORIDE
1
MPD
1
MPD
2
-15.122
1
19
A
14
A
23
-3.175
A_DG14:DC23_A
1
0.626
-0.244
-0.112
-0.142
2.398
1
19
A
15
A
22
-4.396
A_DC15:DG22_A
2
2.098
0.245
0.053
-0.054
16.487
1
19
A
16
A
21
-1.796
A_DG16:DC21_A
3
-11.936
-0.076
-0.169
0.114
-3.990
1
20
A
17
A
20
2.556
A_DA17:DT20_A
4
-18.956
0.095
-0.252
-0.080
-0.157
1
20
A
18
A
19
4.869
A_DA18:DT19_A
5
-17.759
-0.025
-0.226
-0.090
0.157
1
20
A
19
A
18
4.869
A_DT19:DA18_A
6
-17.759
0.025
-0.226
-0.090
3.990
1
20
A
20
A
17
2.556
A_DT20:DA17_A
7
-18.956
-0.095
-0.252
-0.080
-16.487
1
19
A
21
A
16
-1.796
A_DC21:DG16_A
8
-11.936
0.076
-0.169
0.114
-2.398
1
19
A
22
A
15
-4.396
A_DG22:DC15_A
9
2.098
-0.245
0.053
-0.054
15.122
1
19
A
23
A
14
-3.175
A_DC23:DG14_A
10
0.626
0.244
-0.112
-0.142
2.946
37.739
A
A
14
15
-8.927
A
A
23
22
3.017
-5.753
0.893
0.398
AA_DG14DC15:DG22DC23_AA
1
0.921
-1.429
37.303
1.296
-1.272
3.013
27.170
A
A
15
16
15.486
A
A
22
21
3.016
7.163
-0.192
0.637
AA_DC15DG16:DC21DG22_AA
2
4.189
-9.057
25.894
-0.345
1.404
3.685
40.921
A
A
16
17
4.654
A
A
21
20
3.709
3.250
-0.113
-0.197
AA_DG16DA17:DT20DC21_AA
3
-1.045
1.496
40.785
-0.684
0.032
3.106
35.111
A
A
17
18
-4.654
A
A
20
19
3.098
-2.804
-0.141
-0.189
AA_DA17DA18:DT19DT20_AA
4
-1.590
2.639
34.967
0.085
0.008
3.123
35.876
A
A
18
19
-0.278
A
A
19
18
3.120
-0.171
0.000
-0.738
AA_DA18DT19:DA18DT19_AA
5
0.000
0.000
35.876
-1.175
0.000
3.106
35.111
A
A
19
20
-4.654
A
A
18
17
3.098
-2.804
0.141
-0.189
AA_DT19DT20:DA17DA18_AA
6
1.590
-2.639
34.967
0.085
-0.008
3.685
40.921
A
A
20
21
4.654
A
A
17
16
3.709
3.250
0.113
-0.197
AA_DT20DC21:DG16DA17_AA
7
1.045
-1.496
40.785
-0.684
-0.032
3.013
27.170
A
A
21
22
15.486
A
A
16
15
3.016
7.163
0.192
0.637
AA_DC21DG22:DC15DG16_AA
8
-4.189
9.057
25.894
-0.345
-1.404
2.946
37.739
A
A
22
23
-8.927
A
A
15
14
3.017
-5.753
-0.893
0.398
AA_DG22DC23:DG14DC15_AA
9
-0.921
1.430
37.303
1.296
1.272
software
chem_comp_atom
chem_comp_bond
database_2
repository
Initial release
Version format compliance
Version format compliance
Refinement description
Data collection
Database references
1
0
2000-07-14
1
1
2008-04-27
1
2
2011-07-13
1
3
2017-10-04
1
4
2024-02-07
_software.classification
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
RCSB
Y
RCSB
2000-02-23
REL
REL
HOH
water
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
47
2
HOH
HOH
47
A
HOH
49
2
HOH
HOH
49
A
HOH
50
2
HOH
HOH
50
A
HOH
51
2
HOH
HOH
51
A
HOH
52
2
HOH
HOH
52
A
HOH
53
2
HOH
HOH
53
A
HOH
54
2
HOH
HOH
54
A
HOH
56
2
HOH
HOH
56
A
HOH
57
2
HOH
HOH
57
A
HOH
58
2
HOH
HOH
58
A
HOH
59
2
HOH
HOH
59
A
HOH
60
2
HOH
HOH
60
A
HOH
61
2
HOH
HOH
61
A
HOH
62
2
HOH
HOH
62
A
HOH
63
2
HOH
HOH
63
A
HOH
65
2
HOH
HOH
65
A
HOH
67
2
HOH
HOH
67
A
HOH
68
2
HOH
HOH
68
A
HOH
69
2
HOH
HOH
69
A
HOH
71
2
HOH
HOH
71
A
HOH
72
2
HOH
HOH
72
A
HOH
73
2
HOH
HOH
73
A
HOH
77
2
HOH
HOH
77
A
HOH
79
2
HOH
HOH
79
A
HOH
80
2
HOH
HOH
80
A
HOH
84
2
HOH
HOH
84
A
HOH
87
2
HOH
HOH
87
A
C
13
n
1
DC
13
A
G
14
n
2
DG
14
A
C
15
n
3
DC
15
A
G
16
n
4
DG
16
A
A
17
n
5
DA
17
A
A
18
n
6
DA
18
A
T
19
n
7
DT
19
A
T
20
n
8
DT
20
A
C
21
n
9
DC
21
A
G
22
n
10
DG
22
A
C
23
n
11
DC
23
A
G
24
n
12
DG
24
A
0.2320000
0.2455000
0.2240000
0.2380000
0.3010000
0.3120000
267
316
10.
10.5
2391
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
5_655
-x+y+1,y,-z+2/3
crystal symmetry operation
26.3900000000
0.0000000000
65.8533333333
1
A
HOH
26
B
HOH
1
A
HOH
39
B
HOH
1
10.02
1.40
114.30
124.32
A
A
A
N1
C1'
C2'
DC
DC
DC
13
13
13
N
1
-7.91
0.70
108.00
100.09
A
A
A
O4'
C1'
N1
DC
DC
DC
13
13
13
N
1
-8.47
0.70
108.00
99.53
A
A
A
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
-8.09
0.70
108.00
99.91
A
A
A
O4'
C1'
N1
DT
DT
DT
19
19
19
N
1
-6.63
0.70
108.00
101.37
A
A
A
O4'
C1'
N1
DT
DT
DT
20
20
20
N
1
10.15
1.40
114.30
124.45
A
A
A
N1
C1'
C2'
DC
DC
DC
21
21
21
N
1
-9.73
0.70
108.00
98.27
A
A
A
O4'
C1'
N1
DC
DC
DC
21
21
21
N
1
-5.57
0.80
102.40
96.83
A
A
A
C3'
C2'
C1'
DG
DG
DG
22
22
22
N
1
8.18
1.30
127.00
135.18
A
A
A
C8
N9
C1'
DG
DG
DG
22
22
22
N
1
-8.30
1.30
126.50
118.20
A
A
A
C4
N9
C1'
DG
DG
DG
22
22
22
N
0.3120000
0.2380000
0.2455000
0.2240000
1.8
10
316
2997
2997
10.5
84.43
RANDOM
1
THROUGHOUT
0
0
PARKINSON ET AL.
1.8
10
48
291
0
243
0
0.006
0.017
0.006
0
0.007
0.006
1.80
25.
1EHV
3916
2685
2.
1.
0.0480000
1
10.0
9.3
68.7
0.2060000
1.80
1.86
1.86
0.62
model building
X-PLOR
refinement
SHELXL-97
data collection
MAR345
data scaling
SCALEPACK
phasing
X-PLOR
A NEW CRYSTAL STRUCTURE FOR THE DODECAMER C-G-C-G-A-A-T-T-C-G-C-G: SYMMETRY EFFECTS ON SEQUENCE-DEPENDENT DNA STRUCTURE
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
DG
14
A
N1
DG
2
1_555
A
DC
23
A
N3
DC
11
5_655
hydrog
WATSON-CRICK
A
DG
14
A
N2
DG
2
1_555
A
DC
23
A
O2
DC
11
5_655
hydrog
WATSON-CRICK
A
DG
14
A
O6
DG
2
1_555
A
DC
23
A
N4
DC
11
5_655
hydrog
WATSON-CRICK
A
DC
15
A
N3
DC
3
1_555
A
DG
22
A
N1
DG
10
5_655
hydrog
WATSON-CRICK
A
DC
15
A
N4
DC
3
1_555
A
DG
22
A
O6
DG
10
5_655
hydrog
WATSON-CRICK
A
DC
15
A
O2
DC
3
1_555
A
DG
22
A
N2
DG
10
5_655
hydrog
WATSON-CRICK
A
DG
16
A
N1
DG
4
1_555
A
DC
21
A
N3
DC
9
5_655
hydrog
WATSON-CRICK
A
DG
16
A
N2
DG
4
1_555
A
DC
21
A
O2
DC
9
5_655
hydrog
WATSON-CRICK
A
DG
16
A
O6
DG
4
1_555
A
DC
21
A
N4
DC
9
5_655
hydrog
WATSON-CRICK
A
DA
17
A
N1
DA
5
1_555
A
DT
20
A
N3
DT
8
5_655
hydrog
WATSON-CRICK
A
DA
17
A
N6
DA
5
1_555
A
DT
20
A
O4
DT
8
5_655
hydrog
WATSON-CRICK
A
DA
18
A
N1
DA
6
1_555
A
DT
19
A
N3
DT
7
5_655
hydrog
WATSON-CRICK
A
DA
18
A
N6
DA
6
1_555
A
DT
19
A
O4
DT
7
5_655
hydrog
WATSON-CRICK
A
DT
19
A
N3
DT
7
1_555
A
DA
18
A
N1
DA
6
5_655
hydrog
WATSON-CRICK
A
DT
19
A
O4
DT
7
1_555
A
DA
18
A
N6
DA
6
5_655
hydrog
WATSON-CRICK
A
DT
20
A
N3
DT
8
1_555
A
DA
17
A
N1
DA
5
5_655
hydrog
WATSON-CRICK
A
DT
20
A
O4
DT
8
1_555
A
DA
17
A
N6
DA
5
5_655
hydrog
WATSON-CRICK
A
DC
21
A
N3
DC
9
1_555
A
DG
16
A
N1
DG
4
5_655
hydrog
WATSON-CRICK
A
DC
21
A
N4
DC
9
1_555
A
DG
16
A
O6
DG
4
5_655
hydrog
WATSON-CRICK
A
DC
21
A
O2
DC
9
1_555
A
DG
16
A
N2
DG
4
5_655
hydrog
WATSON-CRICK
A
DG
22
A
N1
DG
10
1_555
A
DC
15
A
N3
DC
3
5_655
hydrog
WATSON-CRICK
A
DG
22
A
N2
DG
10
1_555
A
DC
15
A
O2
DC
3
5_655
hydrog
WATSON-CRICK
A
DG
22
A
O6
DG
10
1_555
A
DC
15
A
N4
DC
3
5_655
hydrog
WATSON-CRICK
A
DC
23
A
N3
DC
11
1_555
A
DG
14
A
N1
DG
2
5_655
hydrog
WATSON-CRICK
A
DC
23
A
N4
DC
11
1_555
A
DG
14
A
O6
DG
2
5_655
hydrog
WATSON-CRICK
A
DC
23
A
O2
DC
11
1_555
A
DG
14
A
N2
DG
2
5_655
DNA
DICKERSON DODECAMER, CRYSTAL PACKING, DNA
1EHV
PDB
1
1EHV
13
24
1EHV
13
24
1EHV
A
1
1
12
153
trigonal
P 32 1 2