0.028123
0.000000
0.000000
0.000000
0.025815
0.000000
0.000000
0.000000
0.030762
0.000000
0.000000
0.000000
Mack, D.R.
Chiu, T.K.
Dickerson, R.E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
35.558
38.737
32.508
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
Mg 2
24.305
MAGNESIUM ION
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
147
N
MG
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
312
1037
1049
10.1006/jmbi.2001.4994
11580248
Intrinsic bending and deformability at the T-A step of CCTTTAAAGG: a comparative analysis of T-A and A-T steps within A-tracts.
2001
10.2210/pdb1ikk/pdb
pdb_00001ikk
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
116
1
IMAGE PLATE
1997-01-01
RIGAKU RAXIS IV
Yale mirrors
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU
3044.016
5'-D(*CP*CP*TP*TP*TP*AP*AP*AP*GP*G)-3'
2
syn
polymer
24.305
MAGNESIUM ION
4
syn
non-polymer
18.015
water
133
nat
water
no
no
(DC)(DC)(DT)(DT)(DT)(DA)(DA)(DA)(DG)(DG)
CCTTTAAAGG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
1
1.84
33.11
VAPOR DIFFUSION, SITTING DROP
Spermine-HCL, Mg(OAc)2, MPD, VAPOR DIFFUSION, SITTING DROP, temperature 277K
277
Spermine-HCl
1
Mg(OAc)2
1
MPD
1
MPD
2
18.336
1
19
A
1
B
20
-2.929
A_DC1:DG20_B
1
-4.917
0.019
-0.220
-0.079
16.041
1
19
A
2
B
19
-0.112
A_DC2:DG19_B
2
-19.308
0.056
-0.140
-0.053
4.006
1
20
A
3
B
18
-1.232
A_DT3:DA18_B
3
-15.139
-0.245
-0.111
-0.082
8.665
1
20
A
4
B
17
3.744
A_DT4:DA17_B
4
-22.400
0.066
0.185
-0.101
-0.691
1
20
A
5
B
16
5.704
A_DT5:DA16_B
5
-16.329
-0.057
0.045
-0.207
13.388
1
20
A
6
B
15
2.391
A_DA6:DT15_B
6
-13.186
0.133
-0.103
-0.153
10.633
1
20
A
7
B
14
0.090
A_DA7:DT14_B
7
-23.478
0.022
0.027
-0.044
3.017
1
20
A
8
B
13
-2.973
A_DA8:DT13_B
8
-18.536
0.088
0.176
-0.182
-12.588
1
19
A
9
B
12
0.794
A_DG9:DC12_B
9
-20.122
-0.155
-0.174
-0.033
-7.163
1
19
A
10
B
11
0.075
A_DG10:DC11_B
10
-1.504
-0.171
-0.038
-0.054
3.344
38.744
A
A
1
2
-1.564
B
B
20
19
3.369
-1.037
-0.467
0.223
AA_DC1DC2:DG19DG20_BB
1
1.437
-2.167
38.705
0.467
0.884
3.501
36.976
A
A
2
3
1.361
B
B
19
18
3.512
0.863
0.116
-0.535
AA_DC2DT3:DA18DG19_BB
2
1.281
-2.020
36.945
-0.969
0.003
3.049
39.825
A
A
3
4
3.107
B
B
18
17
3.138
2.108
0.208
-0.381
AA_DT3DT4:DA17DA18_BB
3
-6.129
9.035
39.315
-0.791
-0.981
3.331
36.043
A
A
4
5
-3.028
B
B
17
16
3.321
-1.872
0.212
-0.157
AA_DT4DT5:DA16DA17_BB
4
1.885
-3.050
35.948
0.017
-0.071
3.120
28.802
A
A
5
6
13.532
B
B
16
15
2.979
6.672
-0.282
1.008
AA_DT5DA6:DT15DA16_BB
5
0.879
-1.783
28.021
0.617
0.754
3.168
43.179
A
A
6
7
-6.360
B
B
15
14
3.280
-4.672
-0.598
1.018
AA_DA6DA7:DT14DT15_BB
6
-0.870
1.184
42.930
1.836
0.728
3.287
37.845
A
A
7
8
-2.522
B
B
14
13
3.290
-1.635
0.408
-0.084
AA_DA7DA8:DT13DT14_BB
7
-0.316
0.487
37.809
0.081
-0.670
3.549
37.799
A
A
8
9
6.912
B
B
13
12
3.611
4.466
0.390
-0.467
AA_DA8DG9:DC12DT13_BB
8
1.835
-2.840
37.501
-1.352
-0.343
3.116
38.191
A
A
9
10
-3.265
B
B
12
11
3.148
-2.135
0.680
0.185
AA_DG9DG10:DC11DC12_BB
9
-0.951
1.455
38.122
0.540
-1.154
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Refinement description
Data collection
Database references
Derived calculations
Refinement description
1
0
2001-10-05
1
1
2008-04-27
1
2
2011-07-13
1
3
2019-07-24
1
4
2024-02-07
1
5
2024-04-03
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_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_atom_id
_struct_conn.ptnr1_label_comp_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_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2001-05-03
REL
REL
MG
MAGNESIUM ION
HOH
water
It was synthesized on a Eppendorf ECOSYN D300 Synthesizer
sample
1D56
NDB entry bdj036
PDB
experimental model
MO6
22
2
MG
MG
22
A
MO6
23
2
MG
MG
23
A
MO6
21
2
MG
MG
21
B
MO6
24
2
MG
MG
24
B
HOH
27
3
HOH
HOH
27
A
HOH
28
3
HOH
HOH
28
A
HOH
29
3
HOH
HOH
29
A
HOH
30
3
HOH
HOH
30
A
HOH
32
3
HOH
HOH
32
A
HOH
34
3
HOH
HOH
34
A
HOH
36
3
HOH
HOH
36
A
HOH
38
3
HOH
HOH
38
A
HOH
39
3
HOH
HOH
39
A
HOH
40
3
HOH
HOH
40
A
HOH
41
3
HOH
HOH
41
A
HOH
42
3
HOH
HOH
42
A
HOH
43
3
HOH
HOH
43
A
HOH
44
3
HOH
HOH
44
A
HOH
47
3
HOH
HOH
47
A
HOH
48
3
HOH
HOH
48
A
HOH
49
3
HOH
HOH
49
A
HOH
50
3
HOH
HOH
50
A
HOH
51
3
HOH
HOH
51
A
HOH
52
3
HOH
HOH
52
A
HOH
53
3
HOH
HOH
53
A
HOH
54
3
HOH
HOH
54
A
HOH
55
3
HOH
HOH
55
A
HOH
56
3
HOH
HOH
56
A
HOH
62
3
HOH
HOH
62
A
HOH
63
3
HOH
HOH
63
A
HOH
64
3
HOH
HOH
64
A
HOH
65
3
HOH
HOH
65
A
HOH
70
3
HOH
HOH
70
A
HOH
72
3
HOH
HOH
72
A
HOH
73
3
HOH
HOH
73
A
HOH
74
3
HOH
HOH
74
A
HOH
75
3
HOH
HOH
75
A
HOH
76
3
HOH
HOH
76
A
HOH
77
3
HOH
HOH
77
A
HOH
78
3
HOH
HOH
78
A
HOH
81
3
HOH
HOH
81
A
HOH
82
3
HOH
HOH
82
A
HOH
83
3
HOH
HOH
83
A
HOH
84
3
HOH
HOH
84
A
HOH
86
3
HOH
HOH
86
A
HOH
94
3
HOH
HOH
94
A
HOH
95
3
HOH
HOH
95
A
HOH
99
3
HOH
HOH
99
A
HOH
101
3
HOH
HOH
101
A
HOH
105
3
HOH
HOH
105
A
HOH
109
3
HOH
HOH
109
A
HOH
111
3
HOH
HOH
111
A
HOH
113
3
HOH
HOH
113
A
HOH
118
3
HOH
HOH
118
A
HOH
119
3
HOH
HOH
119
A
HOH
120
3
HOH
HOH
120
A
HOH
122
3
HOH
HOH
122
A
HOH
125
3
HOH
HOH
125
A
HOH
127
3
HOH
HOH
127
A
HOH
129
3
HOH
HOH
129
A
HOH
133
3
HOH
HOH
133
A
MO6
21
3
HOH
HOH
135
A
MO6
21
3
HOH
HOH
137
A
MO6
21
3
HOH
HOH
138
A
MO6
21
3
HOH
HOH
139
A
MO6
22
3
HOH
HOH
140
A
MO6
22
3
HOH
HOH
141
A
MO6
22
3
HOH
HOH
142
A
MO6
22
3
HOH
HOH
144
A
MO6
23
3
HOH
HOH
148
A
HOH
25
3
HOH
HOH
25
B
HOH
26
3
HOH
HOH
26
B
HOH
31
3
HOH
HOH
31
B
HOH
33
3
HOH
HOH
33
B
HOH
35
3
HOH
HOH
35
B
HOH
37
3
HOH
HOH
37
B
HOH
45
3
HOH
HOH
45
B
HOH
46
3
HOH
HOH
46
B
HOH
57
3
HOH
HOH
57
B
HOH
58
3
HOH
HOH
58
B
HOH
59
3
HOH
HOH
59
B
HOH
60
3
HOH
HOH
60
B
HOH
61
3
HOH
HOH
61
B
HOH
66
3
HOH
HOH
66
B
HOH
67
3
HOH
HOH
67
B
HOH
68
3
HOH
HOH
68
B
HOH
69
3
HOH
HOH
69
B
HOH
71
3
HOH
HOH
71
B
HOH
79
3
HOH
HOH
79
B
HOH
80
3
HOH
HOH
80
B
HOH
85
3
HOH
HOH
85
B
HOH
87
3
HOH
HOH
87
B
HOH
88
3
HOH
HOH
88
B
HOH
89
3
HOH
HOH
89
B
HOH
90
3
HOH
HOH
90
B
HOH
91
3
HOH
HOH
91
B
HOH
92
3
HOH
HOH
92
B
HOH
93
3
HOH
HOH
93
B
HOH
96
3
HOH
HOH
96
B
HOH
97
3
HOH
HOH
97
B
HOH
98
3
HOH
HOH
98
B
HOH
100
3
HOH
HOH
100
B
HOH
102
3
HOH
HOH
102
B
HOH
103
3
HOH
HOH
103
B
HOH
104
3
HOH
HOH
104
B
HOH
106
3
HOH
HOH
106
B
HOH
107
3
HOH
HOH
107
B
HOH
108
3
HOH
HOH
108
B
HOH
110
3
HOH
HOH
110
B
HOH
112
3
HOH
HOH
112
B
HOH
114
3
HOH
HOH
114
B
HOH
115
3
HOH
HOH
115
B
HOH
116
3
HOH
HOH
116
B
HOH
117
3
HOH
HOH
117
B
HOH
121
3
HOH
HOH
121
B
HOH
123
3
HOH
HOH
123
B
HOH
124
3
HOH
HOH
124
B
HOH
126
3
HOH
HOH
126
B
HOH
128
3
HOH
HOH
128
B
HOH
130
3
HOH
HOH
130
B
HOH
131
3
HOH
HOH
131
B
HOH
132
3
HOH
HOH
132
B
MO6
21
3
HOH
HOH
134
B
MO6
21
3
HOH
HOH
136
B
MO6
22
3
HOH
HOH
143
B
MO6
22
3
HOH
HOH
145
B
MO6
23
3
HOH
HOH
146
B
MO6
23
3
HOH
HOH
147
B
MO6
23
3
HOH
HOH
149
B
MO6
23
3
HOH
HOH
150
B
MO6
23
3
HOH
HOH
151
B
MO6
24
3
HOH
HOH
152
B
MO6
24
3
HOH
HOH
153
B
MO6
24
3
HOH
HOH
154
B
MO6
24
3
HOH
HOH
155
B
MO6
24
3
HOH
HOH
156
B
MO6
24
3
HOH
HOH
157
B
C
1
n
1
DC
1
A
C
2
n
2
DC
2
A
T
3
n
3
DT
3
A
T
4
n
4
DT
4
A
T
5
n
5
DT
5
A
A
6
n
6
DA
6
A
A
7
n
7
DA
7
A
A
8
n
8
DA
8
A
G
9
n
9
DG
9
A
G
10
n
10
DG
10
A
C
11
n
1
DC
11
B
C
12
n
2
DC
12
B
T
13
n
3
DT
13
B
T
14
n
4
DT
14
B
T
15
n
5
DT
15
B
A
16
n
6
DA
16
B
A
17
n
7
DA
17
B
A
18
n
8
DA
18
B
G
19
n
9
DG
19
B
G
20
n
10
DG
20
B
author_defined_assembly
2
dimeric
A
HOH
140
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
A
HOH
141
G
O
HOH
1_555
180.0
A
HOH
140
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
A
HOH
142
G
O
HOH
1_555
81.1
A
HOH
141
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
A
HOH
142
G
O
HOH
1_555
98.9
A
HOH
140
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
A
HOH
144
G
O
HOH
1_555
89.9
A
HOH
141
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
A
HOH
144
G
O
HOH
1_555
90.1
A
HOH
142
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
A
HOH
144
G
O
HOH
1_555
89.9
A
HOH
140
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
143
H
O
HOH
1_555
98.9
A
HOH
141
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
143
H
O
HOH
1_555
81.1
A
HOH
142
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
143
H
O
HOH
1_555
180.0
A
HOH
144
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
143
H
O
HOH
1_555
90.1
A
HOH
140
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
145
H
O
HOH
1_555
90.1
A
HOH
141
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
145
H
O
HOH
1_555
89.9
A
HOH
142
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
145
H
O
HOH
1_555
90.1
A
HOH
144
G
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
145
H
O
HOH
1_555
180.0
B
HOH
143
H
O
HOH
1_555
A
MG
22
C
MG
MG
1_555
B
HOH
145
H
O
HOH
1_555
89.9
A
HOH
148
G
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
146
H
O
HOH
1_555
80.9
A
HOH
148
G
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
147
H
O
HOH
1_555
99.1
B
HOH
146
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
147
H
O
HOH
1_555
180.0
A
HOH
148
G
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
149
H
O
HOH
1_555
180.0
B
HOH
146
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
149
H
O
HOH
1_555
99.1
B
HOH
147
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
149
H
O
HOH
1_555
80.9
A
HOH
148
G
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
150
H
O
HOH
1_555
90.2
B
HOH
146
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
150
H
O
HOH
1_555
90.0
B
HOH
147
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
150
H
O
HOH
1_555
90.0
B
HOH
149
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
150
H
O
HOH
1_555
89.8
A
HOH
148
G
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
151
H
O
HOH
1_555
89.8
B
HOH
146
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
151
H
O
HOH
1_555
90.0
B
HOH
147
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
151
H
O
HOH
1_555
89.9
B
HOH
149
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
151
H
O
HOH
1_555
90.2
B
HOH
150
H
O
HOH
1_555
A
MG
23
D
MG
MG
1_555
B
HOH
151
H
O
HOH
1_555
180.0
A
HOH
135
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
A
HOH
137
G
O
HOH
1_555
81.3
A
HOH
135
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
A
HOH
138
G
O
HOH
1_555
90.1
A
HOH
137
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
A
HOH
138
G
O
HOH
1_555
90.3
A
HOH
135
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
A
HOH
139
G
O
HOH
1_555
89.9
A
HOH
137
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
A
HOH
139
G
O
HOH
1_555
89.6
A
HOH
138
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
A
HOH
139
G
O
HOH
1_555
180.0
A
HOH
135
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
134
H
O
HOH
1_555
180.0
A
HOH
137
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
134
H
O
HOH
1_555
98.7
A
HOH
138
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
134
H
O
HOH
1_555
89.9
A
HOH
139
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
134
H
O
HOH
1_555
90.1
A
HOH
135
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
136
H
O
HOH
1_555
98.7
A
HOH
137
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
136
H
O
HOH
1_555
180.0
A
HOH
138
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
136
H
O
HOH
1_555
89.6
A
HOH
139
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
136
H
O
HOH
1_555
90.4
B
HOH
134
H
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
B
HOH
136
H
O
HOH
1_555
81.3
B
HOH
152
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
153
H
O
HOH
1_555
180.0
B
HOH
152
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
154
H
O
HOH
1_555
80.8
B
HOH
153
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
154
H
O
HOH
1_555
99.2
B
HOH
152
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
155
H
O
HOH
1_555
99.2
B
HOH
153
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
155
H
O
HOH
1_555
80.8
B
HOH
154
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
155
H
O
HOH
1_555
180.0
B
HOH
152
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
156
H
O
HOH
1_555
89.9
B
HOH
153
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
156
H
O
HOH
1_555
90.2
B
HOH
154
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
156
H
O
HOH
1_555
90.0
B
HOH
155
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
156
H
O
HOH
1_555
90.0
B
HOH
152
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
157
H
O
HOH
1_555
90.1
B
HOH
153
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
157
H
O
HOH
1_555
89.8
B
HOH
154
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
157
H
O
HOH
1_555
90.0
B
HOH
155
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
157
H
O
HOH
1_555
90.0
B
HOH
156
H
O
HOH
1_555
B
MG
24
F
MG
MG
1_555
B
HOH
157
H
O
HOH
1_555
180.0
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
8.21
0.30
108.30
116.51
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
9.24
1.40
114.30
123.54
A
A
A
N1
C1'
C2'
DT
DT
DT
4
4
4
N
1
-5.65
0.70
108.00
102.35
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
-4.52
0.60
122.30
117.78
A
A
A
N3
C2
O2
DT
DT
DT
4
4
4
N
1
11.96
1.40
114.30
126.26
A
A
A
N1
C1'
C2'
DT
DT
DT
5
5
5
N
1
-10.57
0.70
108.00
97.43
A
A
A
O4'
C1'
N1
DT
DT
DT
5
5
5
N
1
2.80
0.30
108.30
111.10
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
-8.46
0.70
108.00
99.54
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
1
-5.45
0.70
108.00
102.55
A
A
A
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
-7.80
0.70
108.00
100.20
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
2.93
0.30
108.30
111.23
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
-5.91
0.70
108.00
102.09
B
B
B
O4'
C1'
N1
DT
DT
DT
13
13
13
N
1
9.57
1.40
114.30
123.87
B
B
B
N1
C1'
C2'
DT
DT
DT
14
14
14
N
1
-9.77
0.70
108.00
98.23
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
1
-9.54
0.70
108.00
98.46
B
B
B
O4'
C1'
N1
DT
DT
DT
15
15
15
N
1
3.47
0.50
106.80
110.27
B
B
B
O4'
C1'
C2'
DA
DA
DA
17
17
17
N
1
3.68
0.60
118.60
122.28
B
B
B
N1
C6
N6
DA
DA
DA
17
17
17
N
1
4.26
0.30
108.30
112.56
B
B
B
O4'
C1'
N9
DA
DA
DA
18
18
18
N
1
-6.14
0.70
108.00
101.86
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
1
-5.46
0.70
108.00
102.54
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
0.2360000
0.1770000
0.1920000
0.1840000
1.60
40.0
627
6236
5756
random
1
THROUGHOUT
4.0
2.0
MOLECULAR REPLACEMENT
NDB entry bdj036
1.60
40.0
109
541
28
404
0
2.32
0.013
31.9
1.60
40.0
1IKK
6276
6263
-3.0
0.0840000
1
26.2
10.5
99.2
0.2680000
1.60
1.72
11.2
8.1
98.0
refinement
SHELXL-97
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
phasing
CNS
Intrinsic Bending and Deformability at the T-A step of CCTTTAAAGG: A Comparative Analysis of T-A and A-T steps within A-tracts
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
metalc
1.988
A
MG
22
C
MG
MG
1_555
A
HOH
140
G
O
HOH
1_555
metalc
2.223
A
MG
22
C
MG
MG
1_555
A
HOH
141
G
O
HOH
1_555
metalc
2.225
A
MG
22
C
MG
MG
1_555
A
HOH
142
G
O
HOH
1_555
metalc
2.031
A
MG
22
C
MG
MG
1_555
A
HOH
144
G
O
HOH
1_555
metalc
1.989
A
MG
22
C
MG
MG
1_555
B
HOH
143
H
O
HOH
1_555
metalc
2.034
A
MG
22
C
MG
MG
1_555
B
HOH
145
H
O
HOH
1_555
metalc
2.224
A
MG
23
D
MG
MG
1_555
A
HOH
148
G
O
HOH
1_555
metalc
1.992
A
MG
23
D
MG
MG
1_555
B
HOH
146
H
O
HOH
1_555
metalc
2.225
A
MG
23
D
MG
MG
1_555
B
HOH
147
H
O
HOH
1_555
metalc
1.989
A
MG
23
D
MG
MG
1_555
B
HOH
149
H
O
HOH
1_555
metalc
2.030
A
MG
23
D
MG
MG
1_555
B
HOH
150
H
O
HOH
1_555
metalc
2.034
A
MG
23
D
MG
MG
1_555
B
HOH
151
H
O
HOH
1_555
metalc
2.224
A
HOH
135
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
metalc
1.991
A
HOH
137
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
metalc
2.033
A
HOH
138
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
metalc
2.027
A
HOH
139
G
O
HOH
1_555
B
MG
21
E
MG
MG
1_555
metalc
1.991
B
MG
21
E
MG
MG
1_555
B
HOH
134
H
O
HOH
1_555
metalc
2.227
B
MG
21
E
MG
MG
1_555
B
HOH
136
H
O
HOH
1_555
metalc
1.991
B
MG
24
F
MG
MG
1_555
B
HOH
152
H
O
HOH
1_555
metalc
2.226
B
MG
24
F
MG
MG
1_555
B
HOH
153
H
O
HOH
1_555
metalc
2.226
B
MG
24
F
MG
MG
1_555
B
HOH
154
H
O
HOH
1_555
metalc
1.993
B
MG
24
F
MG
MG
1_555
B
HOH
155
H
O
HOH
1_555
metalc
2.028
B
MG
24
F
MG
MG
1_555
B
HOH
156
H
O
HOH
1_555
metalc
2.032
B
MG
24
F
MG
MG
1_555
B
HOH
157
H
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
20
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
20
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
20
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
B
DG
19
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
B
DG
19
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
B
DG
19
B
N2
DG
9
1_555
hydrog
WATSON-CRICK
A
DT
3
A
N3
DT
3
1_555
B
DA
18
B
N1
DA
8
1_555
hydrog
WATSON-CRICK
A
DT
3
A
O4
DT
3
1_555
B
DA
18
B
N6
DA
8
1_555
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
B
DA
17
B
N1
DA
7
1_555
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
B
DA
17
B
N6
DA
7
1_555
hydrog
WATSON-CRICK
A
DT
5
A
N3
DT
5
1_555
B
DA
16
B
N1
DA
6
1_555
hydrog
WATSON-CRICK
A
DT
5
A
O4
DT
5
1_555
B
DA
16
B
N6
DA
6
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
DT
15
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
DT
15
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N1
DA
7
1_555
B
DT
14
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N6
DA
7
1_555
B
DT
14
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
8
A
N1
DA
8
1_555
B
DT
13
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
A
DA
8
A
N6
DA
8
1_555
B
DT
13
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
9
1_555
B
DC
12
B
N3
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
9
1_555
B
DC
12
B
O2
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
9
1_555
B
DC
12
B
N4
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
11
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
11
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
11
B
N4
DC
1
1_555
DNA
B-DNA double helix, A-tract containing a T-A step, DNA
1IKK
PDB
1
1IKK
1
10
1IKK
1
10
1IKK
A
1
1
10
11
20
1IKK
11
20
1IKK
B
1
1
10
BINDING SITE FOR RESIDUE MG B 21
B
MG
21
Software
6
BINDING SITE FOR RESIDUE MG A 22
A
MG
22
Software
6
BINDING SITE FOR RESIDUE MG A 23
A
MG
23
Software
6
BINDING SITE FOR RESIDUE MG B 24
B
MG
24
Software
6
A
HOH
135
G
HOH
6
1_555
A
HOH
137
G
HOH
6
1_555
A
HOH
138
G
HOH
6
1_555
A
HOH
139
G
HOH
6
1_555
B
HOH
134
H
HOH
6
1_555
B
HOH
136
H
HOH
6
1_555
A
HOH
140
G
HOH
6
1_555
A
HOH
141
G
HOH
6
1_555
A
HOH
142
G
HOH
6
1_555
A
HOH
144
G
HOH
6
1_555
B
HOH
143
H
HOH
6
1_555
B
HOH
145
H
HOH
6
1_555
A
HOH
148
G
HOH
6
1_555
B
HOH
146
H
HOH
6
1_555
B
HOH
147
H
HOH
6
1_555
B
HOH
149
H
HOH
6
1_555
B
HOH
150
H
HOH
6
1_555
B
HOH
151
H
HOH
6
1_555
B
HOH
152
H
HOH
6
1_555
B
HOH
153
H
HOH
6
1_555
B
HOH
154
H
HOH
6
1_555
B
HOH
155
H
HOH
6
1_555
B
HOH
156
H
HOH
6
1_555
B
HOH
157
H
HOH
6
1_555
19
P 21 21 21