0.039763
0.000000
0.000000
0.000000
0.025100
0.000000
0.000000
0.000000
0.015244
0.00000
0.00000
0.00000
Mcdonough, M.
El-Sagheer, A.H.
Brown, T.
Schofield, C.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
25.149
39.840
65.598
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
Chem. Commun. (Camb.)
1364-548X
50
1794
1796
10.1039/c3cc48151d
24287551
Structural insights into how 5-hydroxymethylation influences transcription factor binding.
2014
10.2210/pdb4c64/pdb
pdb_00004c64
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
MIRRORS
PIXEL
2011-08-05
DECTRIS PILATUS 2M
SI (111) DOUBLE CRYSTAL
SINGLE WAVELENGTH
M
x-ray
1
0.917300
1.0
I04-1
Diamond
0.917300
SYNCHROTRON
DIAMOND BEAMLINE I04-1
DICKERSON-DREW SEQUENCE DODECAMER
3663.392
5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*GP)-3'
2
syn
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
131
nat
water
no
no
(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)
CGCGAATTCGCG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
1
2.02
39
NONE
7.5
40% MPD, SPERMINE, MAGNESIUM CHLORIDE, SODIUM CACODYLATE PH 7.5
5.631
1
19
A
1
B
24
0.037
A_DC1:DG24_B
1
-16.083
0.208
0.054
-0.144
6.219
1
19
A
2
B
23
-2.340
A_DG2:DC23_B
2
-9.297
-0.247
0.382
-0.185
-0.872
1
19
A
3
B
22
-0.909
A_DC3:DG22_B
3
-7.517
0.141
0.121
-0.117
12.016
1
19
A
4
B
21
1.129
A_DG4:DC21_B
4
-9.430
-0.235
0.000
-0.042
5.630
1
20
A
5
B
20
2.690
A_DA5:DT20_B
5
-15.742
0.093
-0.078
-0.072
1.183
1
20
A
6
B
19
4.646
A_DA6:DT19_B
6
-16.030
0.067
0.064
-0.108
-0.462
1
20
A
7
B
18
3.233
A_DT7:DA18_B
7
-16.302
-0.007
0.110
-0.121
-1.419
1
20
A
8
B
17
3.748
A_DT8:DA17_B
8
-12.855
-0.062
-0.060
-0.156
-11.578
1
19
A
9
B
16
-2.113
A_DC9:DG16_B
9
-9.553
0.248
0.069
-0.148
4.507
1
19
A
10
B
15
2.920
A_DG10:DC15_B
10
-9.239
-0.156
0.223
-0.063
3.884
1
19
A
11
B
14
-0.583
A_DC11:DG14_B
11
-16.831
0.112
0.106
-0.138
5.383
1
19
A
12
B
13
-1.927
A_DG12:DC13_B
12
-8.733
-0.209
0.364
-0.176
3.229
35.287
A
A
1
2
10.378
B
B
24
23
3.270
6.252
-0.148
0.040
AA_DC1DG2:DC23DG24_BB
1
-3.029
5.027
34.618
-0.864
-0.207
3.456
42.410
A
A
2
3
-7.960
B
B
23
22
3.521
-5.738
0.575
0.510
AA_DG2DC3:DG22DC23_BB
2
2.882
-3.998
41.943
1.331
-0.481
3.131
27.763
A
A
3
4
21.554
B
B
22
21
3.105
10.105
-0.276
0.719
AA_DC3DG4:DC21DG22_BB
3
1.924
-4.104
25.822
-0.909
1.034
3.363
39.095
A
A
4
5
5.162
B
B
21
20
3.390
3.450
-0.061
-0.172
AA_DG4DA5:DT20DC21_BB
4
-0.093
0.139
38.948
-0.686
0.080
3.252
35.188
A
A
5
6
2.898
B
B
20
19
3.281
1.751
0.085
-0.421
AA_DA5DA6:DT19DT20_BB
5
-1.313
2.174
35.122
-0.956
-0.336
3.261
32.340
A
A
6
7
-3.805
B
B
19
18
3.227
-2.118
-0.034
-0.629
AA_DA6DT7:DA18DT19_BB
6
-0.445
0.799
32.269
-0.757
-0.017
3.204
34.939
A
A
7
8
-2.620
B
B
18
17
3.197
-1.572
-0.018
-0.397
AA_DT7DT8:DA17DA18_BB
7
2.172
-3.620
34.839
-0.429
0.352
3.488
42.580
A
A
8
9
-1.608
B
B
17
16
3.481
-1.167
-0.218
-0.260
AA_DT8DC9:DG16DA17_BB
8
-0.202
0.278
42.564
-0.233
0.279
3.021
25.860
A
A
9
10
9.100
B
B
16
15
3.020
4.049
0.618
0.744
AA_DC9DG10:DC15DG16_BB
9
-2.620
5.888
25.414
0.613
-2.058
3.192
45.306
A
A
10
11
-13.530
B
B
15
14
3.342
-10.335
-1.298
0.620
AA_DG10DC11:DG14DC15_BB
10
-2.503
3.276
44.105
1.736
1.459
3.259
32.040
A
A
11
12
9.288
B
B
14
13
3.246
5.106
0.250
0.368
AA_DC11DG12:DC13DG14_BB
11
-0.509
0.926
31.638
-0.253
-0.544
citation
citation_author
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Database references
Database references
Database references
Data collection
Database references
Derived calculations
Other
Refinement description
1
0
2013-10-02
1
1
2013-12-11
1
2
2014-02-12
1
3
2018-02-21
1
4
2023-12-20
_citation.journal_abbrev
_citation.journal_id_ISSN
_citation.page_last
_citation.pdbx_database_id_DOI
_citation.title
_citation_author.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
_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.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.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
ULTRA HIGH RESOLUTION DICKERSON-DREW DODECAMER B-DNA WITH 5-HYDROXYMETHYL-CYTOSINE MODIFICATION
ULTRA HIGH RESOLUTION DICKERSON-DREW DODECAMER B-DNA WITH 5-METHYLCYSTOSINE MODIFICATION
PDBE
Y
PDBE
2013-09-17
REL
REL
1
A
O
HOH
2008
6.32
1
B
O
HOH
2002
6.25
MG
MAGNESIUM ION
HOH
water
32630
SYNTHETIC CONSTRUCT
sample
1BNA
PDB ENTRY 1BNA
PDB
experimental model
MG
100
2
MG
MG
100
A
HOH
2001
3
HOH
HOH
2001
A
HOH
2002
3
HOH
HOH
2002
A
HOH
2003
3
HOH
HOH
2003
A
HOH
2004
3
HOH
HOH
2004
A
HOH
2005
3
HOH
HOH
2005
A
HOH
2006
3
HOH
HOH
2006
A
HOH
2007
3
HOH
HOH
2007
A
HOH
2008
3
HOH
HOH
2008
A
HOH
2009
3
HOH
HOH
2009
A
HOH
2010
3
HOH
HOH
2010
A
HOH
2011
3
HOH
HOH
2011
A
HOH
2012
3
HOH
HOH
2012
A
HOH
2013
3
HOH
HOH
2013
A
HOH
2014
3
HOH
HOH
2014
A
HOH
2015
3
HOH
HOH
2015
A
HOH
2016
3
HOH
HOH
2016
A
HOH
2017
3
HOH
HOH
2017
A
HOH
2018
3
HOH
HOH
2018
A
HOH
2019
3
HOH
HOH
2019
A
HOH
2020
3
HOH
HOH
2020
A
HOH
2021
3
HOH
HOH
2021
A
HOH
2022
3
HOH
HOH
2022
A
HOH
2023
3
HOH
HOH
2023
A
HOH
2024
3
HOH
HOH
2024
A
HOH
2025
3
HOH
HOH
2025
A
HOH
2026
3
HOH
HOH
2026
A
HOH
2027
3
HOH
HOH
2027
A
HOH
2028
3
HOH
HOH
2028
A
HOH
2029
3
HOH
HOH
2029
A
HOH
2030
3
HOH
HOH
2030
A
HOH
2031
3
HOH
HOH
2031
A
HOH
2032
3
HOH
HOH
2032
A
HOH
2033
3
HOH
HOH
2033
A
HOH
2034
3
HOH
HOH
2034
A
HOH
2035
3
HOH
HOH
2035
A
HOH
2036
3
HOH
HOH
2036
A
HOH
2037
3
HOH
HOH
2037
A
HOH
2038
3
HOH
HOH
2038
A
HOH
2039
3
HOH
HOH
2039
A
HOH
2040
3
HOH
HOH
2040
A
HOH
2041
3
HOH
HOH
2041
A
HOH
2042
3
HOH
HOH
2042
A
HOH
2043
3
HOH
HOH
2043
A
HOH
2044
3
HOH
HOH
2044
A
HOH
2045
3
HOH
HOH
2045
A
HOH
2046
3
HOH
HOH
2046
A
HOH
2047
3
HOH
HOH
2047
A
HOH
2048
3
HOH
HOH
2048
A
HOH
2049
3
HOH
HOH
2049
A
HOH
2050
3
HOH
HOH
2050
A
HOH
2051
3
HOH
HOH
2051
A
HOH
2052
3
HOH
HOH
2052
A
HOH
2053
3
HOH
HOH
2053
A
HOH
2054
3
HOH
HOH
2054
A
HOH
2055
3
HOH
HOH
2055
A
HOH
2056
3
HOH
HOH
2056
A
HOH
2057
3
HOH
HOH
2057
A
HOH
2058
3
HOH
HOH
2058
A
HOH
2059
3
HOH
HOH
2059
A
HOH
2060
3
HOH
HOH
2060
A
HOH
2061
3
HOH
HOH
2061
A
HOH
2062
3
HOH
HOH
2062
A
HOH
2063
3
HOH
HOH
2063
A
HOH
2064
3
HOH
HOH
2064
A
HOH
2065
3
HOH
HOH
2065
A
HOH
2066
3
HOH
HOH
2066
A
HOH
2067
3
HOH
HOH
2067
A
HOH
2068
3
HOH
HOH
2068
A
HOH
2069
3
HOH
HOH
2069
A
HOH
2070
3
HOH
HOH
2070
A
HOH
2071
3
HOH
HOH
2071
A
HOH
2072
3
HOH
HOH
2072
A
HOH
2073
3
HOH
HOH
2073
A
HOH
2074
3
HOH
HOH
2074
A
HOH
2075
3
HOH
HOH
2075
A
HOH
2076
3
HOH
HOH
2076
A
HOH
2077
3
HOH
HOH
2077
A
HOH
2078
3
HOH
HOH
2078
A
HOH
2079
3
HOH
HOH
2079
A
HOH
2080
3
HOH
HOH
2080
A
HOH
2081
3
HOH
HOH
2081
A
HOH
2082
3
HOH
HOH
2082
A
HOH
2001
3
HOH
HOH
2001
B
HOH
2002
3
HOH
HOH
2002
B
HOH
2003
3
HOH
HOH
2003
B
HOH
2004
3
HOH
HOH
2004
B
HOH
2005
3
HOH
HOH
2005
B
HOH
2006
3
HOH
HOH
2006
B
HOH
2007
3
HOH
HOH
2007
B
HOH
2008
3
HOH
HOH
2008
B
HOH
2009
3
HOH
HOH
2009
B
HOH
2010
3
HOH
HOH
2010
B
HOH
2011
3
HOH
HOH
2011
B
HOH
2012
3
HOH
HOH
2012
B
HOH
2013
3
HOH
HOH
2013
B
HOH
2014
3
HOH
HOH
2014
B
HOH
2015
3
HOH
HOH
2015
B
HOH
2016
3
HOH
HOH
2016
B
HOH
2017
3
HOH
HOH
2017
B
HOH
2018
3
HOH
HOH
2018
B
HOH
2019
3
HOH
HOH
2019
B
HOH
2020
3
HOH
HOH
2020
B
HOH
2021
3
HOH
HOH
2021
B
HOH
2022
3
HOH
HOH
2022
B
HOH
2023
3
HOH
HOH
2023
B
HOH
2024
3
HOH
HOH
2024
B
HOH
2025
3
HOH
HOH
2025
B
HOH
2026
3
HOH
HOH
2026
B
HOH
2027
3
HOH
HOH
2027
B
HOH
2028
3
HOH
HOH
2028
B
HOH
2029
3
HOH
HOH
2029
B
HOH
2030
3
HOH
HOH
2030
B
HOH
2031
3
HOH
HOH
2031
B
HOH
2032
3
HOH
HOH
2032
B
HOH
2033
3
HOH
HOH
2033
B
HOH
2034
3
HOH
HOH
2034
B
HOH
2035
3
HOH
HOH
2035
B
HOH
2036
3
HOH
HOH
2036
B
HOH
2037
3
HOH
HOH
2037
B
HOH
2038
3
HOH
HOH
2038
B
HOH
2039
3
HOH
HOH
2039
B
HOH
2040
3
HOH
HOH
2040
B
HOH
2041
3
HOH
HOH
2041
B
HOH
2042
3
HOH
HOH
2042
B
HOH
2043
3
HOH
HOH
2043
B
HOH
2044
3
HOH
HOH
2044
B
HOH
2045
3
HOH
HOH
2045
B
HOH
2046
3
HOH
HOH
2046
B
HOH
2047
3
HOH
HOH
2047
B
HOH
2048
3
HOH
HOH
2048
B
HOH
2049
3
HOH
HOH
2049
B
DC
1
n
1
DC
1
A
DG
2
n
2
DG
2
A
DC
3
n
3
DC
3
A
DG
4
n
4
DG
4
A
DA
5
n
5
DA
5
A
DA
6
n
6
DA
6
A
DT
7
n
7
DT
7
A
DT
8
n
8
DT
8
A
DC
9
n
9
DC
9
A
DG
10
n
10
DG
10
A
DC
11
n
11
DC
11
A
DG
12
n
12
DG
12
A
DC
13
n
1
DC
13
B
DG
14
n
2
DG
14
B
DC
15
n
3
DC
15
B
DG
16
n
4
DG
16
B
DA
17
n
5
DA
17
B
DA
18
n
6
DA
18
B
DT
19
n
7
DT
19
B
DT
20
n
8
DT
20
B
DC
21
n
9
DC
21
B
DG
22
n
10
DG
22
B
DC
23
n
11
DC
23
B
DG
24
n
12
DG
24
B
author_and_software_defined_assembly
PISA
2
dimeric
1180
-8.4
4550
A
HOH
2003
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2021
D
O
HOH
1_555
90.6
A
HOH
2003
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2080
D
O
HOH
1_555
87.0
A
HOH
2021
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2080
D
O
HOH
1_555
173.0
A
HOH
2003
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2081
D
O
HOH
1_555
91.9
A
HOH
2021
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2081
D
O
HOH
1_555
88.0
A
HOH
2080
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2081
D
O
HOH
1_555
85.6
A
HOH
2003
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2082
D
O
HOH
1_555
176.7
A
HOH
2021
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2082
D
O
HOH
1_555
90.0
A
HOH
2080
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2082
D
O
HOH
1_555
92.8
A
HOH
2081
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
A
HOH
2082
D
O
HOH
1_555
91.3
A
HOH
2003
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
B
HOH
2041
E
O
HOH
1_555
87.8
A
HOH
2021
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
B
HOH
2041
E
O
HOH
1_555
94.3
A
HOH
2080
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
B
HOH
2041
E
O
HOH
1_555
92.2
A
HOH
2081
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
B
HOH
2041
E
O
HOH
1_555
177.7
A
HOH
2082
D
O
HOH
1_555
A
MG
100
C
MG
MG
1_555
B
HOH
2041
E
O
HOH
1_555
88.9
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
B
B
OP1
O
DC
HOH
21
2033
2.07
1
B
DC
23
0.075
SIDE CHAIN
1
-4.31
0.70
108.00
103.69
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
-2.75
0.40
121.90
119.15
A
A
A
N3
C4
C5
DC
DC
DC
9
9
9
N
1
-5.26
0.70
108.00
102.74
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
2.20
0.30
108.30
110.50
B
B
B
O4'
C1'
N9
DG
DG
DG
16
16
16
N
1
-5.52
0.80
109.40
103.88
B
B
B
O5'
C5'
C4'
DC
DC
DC
21
21
21
N
1
-5.92
0.70
108.00
102.08
B
B
B
O4'
C1'
N1
DC
DC
DC
21
21
21
N
1
-3.30
0.40
104.50
101.20
B
B
B
O4'
C4'
C3'
DC
DC
DC
23
23
23
N
1
2.65
0.40
121.90
124.55
B
B
B
N3
C4
C5
DC
DC
DC
23
23
23
N
1
A
A
O3'
C3'
DG
DG
12
12
-0.042
0.006
1.419
1.377
N
1
B
B
O3'
C3'
DC
DC
13
13
-0.088
0.006
1.419
1.331
N
1
B
B
O3'
C3'
DG
DG
22
22
-0.057
0.006
1.419
1.362
N
1
B
B
C2'
C1'
DC
DC
23
23
-0.071
0.010
1.518
1.447
N
23.78
-1.0359
0.0000
0.0000
0.5813
0.0000
0.4545
0.1823
0.1385
0.1426
1.320
25.322
1516
15416
9.8
95.62
0.12
1
0.00
MOLECULAR REPLACEMENT
19.25
0.17
0.40
PDB ENTRY 1BNA
ML
FLAT BULK SOLVENT MODEL
58.660
0.528
1.320
25.322
131
618
1
486
0
0.017
547
2.087
839
30.264
232
0.099
94
0.035
24
0.2526
0.1777
1.3627
126
1127
88.00
0.2391
0.1614
1.4114
132
1185
91.00
0.2079
0.1382
1.4679
128
1225
93.00
0.1797
0.1344
1.5347
129
1171
91.00
0.1832
0.1204
1.6156
136
1258
97.00
0.1799
0.1070
1.7168
137
1266
97.00
0.1608
0.1083
1.8493
141
1293
98.00
0.1787
0.1292
2.0353
142
1299
98.00
0.2268
0.1415
2.3296
143
1314
99.00
0.1948
0.1571
2.9344
147
1343
99.00
0.1607
0.1406
25.3264
155
1419
99.00
16.78
1.30
25.32
4C64
16471
0.0
0.03
1
32.10
6.3
98.0
0.22
1.30
1.37
6.10
1
5.1
95.9
refinement
PHENIX
(PHENIX.REFINE)
data reduction
XDS
data scaling
SCALA
phasing
PHASER
ULTRA HIGH RESOLUTION DICKERSON-DREW DODECAMER B-DNA
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
metalc
2.098
A
MG
100
C
MG
MG
1_555
A
HOH
2003
D
O
HOH
1_555
metalc
2.100
A
MG
100
C
MG
MG
1_555
A
HOH
2021
D
O
HOH
1_555
metalc
2.093
A
MG
100
C
MG
MG
1_555
A
HOH
2080
D
O
HOH
1_555
metalc
2.120
A
MG
100
C
MG
MG
1_555
A
HOH
2081
D
O
HOH
1_555
metalc
2.060
A
MG
100
C
MG
MG
1_555
A
HOH
2082
D
O
HOH
1_555
metalc
2.064
A
MG
100
C
MG
MG
1_555
B
HOH
2041
E
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
24
B
N1
DG
12
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
24
B
O6
DG
12
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
24
B
N2
DG
12
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
23
B
N3
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
23
B
O2
DC
11
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
23
B
N4
DC
11
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
B
DG
22
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
B
DG
22
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
B
DG
22
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
21
B
N3
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
21
B
O2
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
21
B
N4
DC
9
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
DT
20
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
DT
20
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
DT
19
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
DT
19
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
A
DT
7
A
N3
DT
7
1_555
B
DA
18
B
N1
DA
6
1_555
hydrog
WATSON-CRICK
A
DT
7
A
O4
DT
7
1_555
B
DA
18
B
N6
DA
6
1_555
hydrog
WATSON-CRICK
A
DT
8
A
N3
DT
8
1_555
B
DA
17
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
DT
8
A
O4
DT
8
1_555
B
DA
17
B
N6
DA
5
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N3
DC
9
1_555
B
DG
16
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N4
DC
9
1_555
B
DG
16
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
9
A
O2
DC
9
1_555
B
DG
16
B
N2
DG
4
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
15
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
15
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
15
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N3
DC
11
1_555
B
DG
14
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N4
DC
11
1_555
B
DG
14
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
11
A
O2
DC
11
1_555
B
DG
14
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
A
DG
12
A
N1
DG
12
1_555
B
DC
13
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
12
A
N2
DG
12
1_555
B
DC
13
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
12
A
O6
DG
12
1_555
B
DC
13
B
N4
DC
1
1_555
DNA
DNA
4C64
PDB
1
4C64
1
12
4C64
1
12
4C64
A
1
1
12
13
24
4C64
13
24
4C64
B
1
1
12
BINDING SITE FOR RESIDUE MG A 100
A
MG
100
Software
6
A
HOH
2003
D
HOH
6
1_555
A
HOH
2021
D
HOH
6
1_555
A
HOH
2080
D
HOH
6
1_555
A
HOH
2081
D
HOH
6
1_555
A
HOH
2082
D
HOH
6
1_555
B
HOH
2041
E
HOH
6
1_555
19
P 21 21 21