0.015065
0.000000
0.005522
0.000000
0.042034
0.000000
0.000000
0.000000
0.028692
0.00000
0.00000
0.00000
Cardin, C.J.
Gale, B.C.
Thorpe, J.H.
Teixeira, S.C.M.
Gan, Y.
Moraes, M.I.A.A.
Brogden, A.L.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
110.13
90.00
66.380
23.790
37.120
Ca 2
40.078
CALCIUM ION
non-polymer
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
CA
N
2
N
O
N
3
N
P
N
4
N
O
N
5
N
O
N
6
N
O
N
7
N
C
N
8
R
C
N
9
N
O
N
10
S
C
N
11
N
O
N
12
N
C
N
13
R
C
Y
14
N
N
Y
15
N
C
Y
16
N
N
Y
17
N
C
Y
18
N
C
N
19
N
N
Y
20
N
N
Y
21
N
C
Y
22
N
N
Y
23
N
C
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
H
N
38
N
O
N
39
N
P
N
40
N
O
N
41
N
O
N
42
N
O
N
43
N
C
N
44
R
C
N
45
N
O
N
46
S
C
N
47
N
O
N
48
N
C
N
49
R
C
N
50
N
N
N
51
N
C
N
52
N
O
N
53
N
N
N
54
N
C
N
55
N
N
N
56
N
C
N
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
P
N
74
N
O
N
75
N
O
N
76
N
O
N
77
N
C
N
78
R
C
N
79
N
O
N
80
S
C
N
81
N
O
N
82
N
C
N
83
R
C
Y
84
N
N
Y
85
N
C
Y
86
N
N
Y
87
N
C
N
88
N
C
N
89
N
O
N
90
N
N
N
91
N
C
N
92
N
N
N
93
N
N
Y
94
N
C
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
H
N
109
N
O
N
110
N
P
N
111
N
O
N
112
N
O
N
113
N
O
N
114
N
C
N
115
R
C
N
116
N
O
N
117
S
C
N
118
N
O
N
119
N
C
N
120
R
C
N
121
N
N
N
122
N
C
N
123
N
O
N
124
N
N
N
125
N
C
N
126
N
O
N
127
N
C
N
128
N
C
N
129
N
C
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
H
N
145
N
O
N
146
N
H
N
147
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
To be Published
0353
Structural analysis of two Holliday junctions formed by the sequences TCGGTACCGA and CCGGTACCGG
10.2210/pdb1nvn/pdb
pdb_00001nvn
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
SINGLE WAVELENGTH
M
x-ray
1
0.811
1.0
X11
EMBL/DESY, HAMBURG
0.811
SYNCHROTRON
EMBL/DESY, HAMBURG BEAMLINE X11
3045.992
5'-D(CpCpGpGpTpApCpCpGpG)-3'
2
syn
polymer
40.078
CALCIUM ION
2
syn
non-polymer
18.015
water
91
nat
water
no
no
(DC)(DC)(DG)(DG)(DT)(DA)(DC)(DC)(DG)(DG)
CCGGTACCGG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
1
2.16
42.97
VAPOR DIFFUSION, SITTING DROP
6.5
MPD, CaCl2, cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 290K
290
-8.683
1
19
A
1
B
10
-3.670
A_DC1:DG10_B
1
-10.858
0.004
0.322
-0.295
1.879
1
19
A
2
B
9
-4.887
A_DC2:DG9_B
2
-3.743
0.033
0.099
-0.121
5.787
1
19
A
3
B
8
-4.533
A_DG3:DC8_B
3
2.706
-0.039
0.310
-0.253
-0.327
1
19
A
4
B
7
-1.789
A_DG4:DC7_B
4
-18.122
-0.293
0.389
-0.187
-11.785
1
20
A
5
B
6
-2.395
A_DT5:DA6_B
5
-9.012
-0.252
0.149
-0.009
7.506
1
20
A
6
B
5
-1.327
A_DA6:DT5_B
6
-10.953
0.076
0.161
-0.042
3.508
36.871
A
A
1
2
5.736
B
B
10
9
3.359
3.607
0.093
2.039
AA_DC1DC2:DG9DG10_BB
1
6.105
-9.709
36.206
2.706
0.729
3.269
39.342
A
A
2
3
-0.933
B
B
9
8
3.321
-0.628
0.258
2.417
AA_DC2DG3:DC8DG9_BB
2
-1.818
2.702
39.297
3.666
-0.601
3.907
36.050
A
A
3
4
5.267
B
B
8
7
3.679
3.245
-1.096
1.439
AA_DG3DG4:DC7DC8_BB
3
-5.205
8.449
35.542
1.788
0.908
3.597
41.734
A
A
4
5
-6.830
B
B
7
6
3.645
-4.849
0.595
0.576
AA_DG4DT5:DA6DC7_BB
4
4.004
-5.640
41.278
1.376
-0.366
3.162
32.216
A
A
5
6
9.886
B
B
6
5
2.984
5.461
0.099
1.321
AA_DT5DA6:DT5DA6_BB
5
-0.022
0.041
31.762
1.460
-0.183
chem_comp_atom
chem_comp_bond
database_2
diffrn_source
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-02-25
1
1
2008-04-29
1
2
2011-07-13
1
3
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_diffrn_source.pdbx_synchrotron_site
_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
Holliday junction formed by the sequence TCGGTACCGA in the presence of one calcium ion
Holliday junction formed by TCGGTACCGA in the presence of Na and Ca ions
Holliday junction formed by TCGGTACCGA with a spine of Sr ions
Holliday junction formed by CCGGTACCGG in the more symmetrical form
Holliday junction formed by CCGGTACmCGG with a methylated base
Holliday junction formed by CCGGTACCGG in the presence of a Na ion
RCSB
Y
RCSB
2003-02-04
REL
REL
CA
CALCIUM ION
HOH
water
Chemically synthesized
sample
CA
101
2
CA
CA
101
A
CA
102
2
CA
CA
102
B
HOH
111
3
HOH
HOH
111
A
HOH
112
3
HOH
HOH
112
A
HOH
114
3
HOH
HOH
114
A
HOH
115
3
HOH
HOH
115
A
HOH
116
3
HOH
HOH
116
A
HOH
119
3
HOH
HOH
119
A
HOH
120
3
HOH
HOH
120
A
HOH
121
3
HOH
HOH
121
A
HOH
124
3
HOH
HOH
124
A
HOH
125
3
HOH
HOH
125
A
HOH
126
3
HOH
HOH
126
A
HOH
127
3
HOH
HOH
127
A
HOH
128
3
HOH
HOH
128
A
HOH
129
3
HOH
HOH
129
A
HOH
130
3
HOH
HOH
130
A
HOH
136
3
HOH
HOH
136
A
HOH
139
3
HOH
HOH
139
A
HOH
143
3
HOH
HOH
143
A
HOH
144
3
HOH
HOH
144
A
HOH
145
3
HOH
HOH
145
A
HOH
146
3
HOH
HOH
146
A
HOH
147
3
HOH
HOH
147
A
HOH
148
3
HOH
HOH
148
A
HOH
149
3
HOH
HOH
149
A
HOH
150
3
HOH
HOH
150
A
HOH
154
3
HOH
HOH
154
A
HOH
155
3
HOH
HOH
155
A
HOH
156
3
HOH
HOH
156
A
HOH
159
3
HOH
HOH
159
A
HOH
160
3
HOH
HOH
160
A
HOH
161
3
HOH
HOH
161
A
HOH
162
3
HOH
HOH
162
A
HOH
163
3
HOH
HOH
163
A
HOH
164
3
HOH
HOH
164
A
HOH
174
3
HOH
HOH
174
A
HOH
176
3
HOH
HOH
176
A
HOH
177
3
HOH
HOH
177
A
HOH
180
3
HOH
HOH
180
A
HOH
181
3
HOH
HOH
181
A
HOH
188
3
HOH
HOH
188
A
HOH
192
3
HOH
HOH
192
A
HOH
193
3
HOH
HOH
193
A
HOH
103
3
HOH
HOH
103
B
HOH
104
3
HOH
HOH
104
B
HOH
105
3
HOH
HOH
105
B
HOH
106
3
HOH
HOH
106
B
HOH
107
3
HOH
HOH
107
B
HOH
108
3
HOH
HOH
108
B
HOH
109
3
HOH
HOH
109
B
HOH
110
3
HOH
HOH
110
B
HOH
113
3
HOH
HOH
113
B
HOH
117
3
HOH
HOH
117
B
HOH
118
3
HOH
HOH
118
B
HOH
122
3
HOH
HOH
122
B
HOH
123
3
HOH
HOH
123
B
HOH
131
3
HOH
HOH
131
B
HOH
132
3
HOH
HOH
132
B
HOH
133
3
HOH
HOH
133
B
HOH
134
3
HOH
HOH
134
B
HOH
135
3
HOH
HOH
135
B
HOH
137
3
HOH
HOH
137
B
HOH
138
3
HOH
HOH
138
B
HOH
140
3
HOH
HOH
140
B
HOH
141
3
HOH
HOH
141
B
HOH
142
3
HOH
HOH
142
B
HOH
151
3
HOH
HOH
151
B
HOH
152
3
HOH
HOH
152
B
HOH
153
3
HOH
HOH
153
B
HOH
157
3
HOH
HOH
157
B
HOH
158
3
HOH
HOH
158
B
HOH
165
3
HOH
HOH
165
B
HOH
166
3
HOH
HOH
166
B
HOH
167
3
HOH
HOH
167
B
HOH
168
3
HOH
HOH
168
B
HOH
169
3
HOH
HOH
169
B
HOH
170
3
HOH
HOH
170
B
HOH
171
3
HOH
HOH
171
B
HOH
172
3
HOH
HOH
172
B
HOH
173
3
HOH
HOH
173
B
HOH
175
3
HOH
HOH
175
B
HOH
178
3
HOH
HOH
178
B
HOH
179
3
HOH
HOH
179
B
HOH
182
3
HOH
HOH
182
B
HOH
183
3
HOH
HOH
183
B
HOH
184
3
HOH
HOH
184
B
HOH
185
3
HOH
HOH
185
B
HOH
186
3
HOH
HOH
186
B
HOH
187
3
HOH
HOH
187
B
HOH
189
3
HOH
HOH
189
B
HOH
190
3
HOH
HOH
190
B
HOH
191
3
HOH
HOH
191
B
C
1
n
1
DC
1
A
C
2
n
2
DC
2
A
G
3
n
3
DG
3
A
G
4
n
4
DG
4
A
T
5
n
5
DT
5
A
A
6
n
6
DA
6
A
C
7
n
7
DC
7
A
C
8
n
8
DC
8
A
G
9
n
9
DG
9
A
G
10
n
10
DG
10
A
C
1
n
1
DC
1
B
C
2
n
2
DC
2
B
G
3
n
3
DG
3
B
G
4
n
4
DG
4
B
T
5
n
5
DT
5
B
A
6
n
6
DA
6
B
C
7
n
7
DC
7
B
C
8
n
8
DC
8
B
G
9
n
9
DG
9
B
G
10
n
10
DG
10
B
author_defined_assembly
4
tetrameric
A
HOH
115
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
A
HOH
116
E
O
HOH
1_555
92.1
A
HOH
115
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
A
HOH
143
E
O
HOH
1_555
121.3
A
HOH
116
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
A
HOH
143
E
O
HOH
1_555
85.0
A
HOH
115
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
A
HOH
159
E
O
HOH
1_555
145.3
A
HOH
116
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
A
HOH
159
E
O
HOH
1_555
56.4
A
HOH
143
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
A
HOH
159
E
O
HOH
1_555
74.3
A
HOH
115
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
B
HOH
142
F
O
HOH
1_555
72.3
A
HOH
116
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
B
HOH
142
F
O
HOH
1_555
112.0
A
HOH
143
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
B
HOH
142
F
O
HOH
1_555
158.9
A
HOH
159
E
O
HOH
1_555
A
CA
101
C
CA
CA
1_555
B
HOH
142
F
O
HOH
1_555
104.0
B
HOH
103
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
106
F
O
HOH
1_555
72.9
B
HOH
103
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
107
F
O
HOH
1_555
137.1
B
HOH
106
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
107
F
O
HOH
1_555
64.3
B
HOH
103
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
131
F
O
HOH
1_555
107.9
B
HOH
106
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
131
F
O
HOH
1_555
88.2
B
HOH
107
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
131
F
O
HOH
1_555
69.5
B
HOH
103
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
132
F
O
HOH
1_555
82.9
B
HOH
106
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
132
F
O
HOH
1_555
98.5
B
HOH
107
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
132
F
O
HOH
1_555
105.2
B
HOH
131
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
132
F
O
HOH
1_555
168.7
B
HOH
103
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
141
F
O
HOH
1_555
141.4
B
HOH
106
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
141
F
O
HOH
1_555
143.5
B
HOH
107
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
141
F
O
HOH
1_555
81.0
B
HOH
131
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
141
F
O
HOH
1_555
90.0
B
HOH
132
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
141
F
O
HOH
1_555
79.2
B
HOH
103
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
81.5
B
HOH
106
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
149.0
B
HOH
107
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
137.4
B
HOH
131
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
83.2
B
HOH
132
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
95.4
B
HOH
141
F
O
HOH
1_555
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
66.6
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
2_655
-x+1,y,-z
crystal symmetry operation
66.3800000000
0.0000000000
0.0000000000
1
A
HOH
126
E
HOH
1
B
HOH
151
F
HOH
1
3.37
0.30
108.30
111.67
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
-4.73
0.70
108.00
103.27
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
1
8.42
1.10
109.80
118.22
B
B
B
C5'
C4'
O4'
DG
DG
DG
3
3
3
N
1
1.83
0.30
108.30
110.13
B
B
B
O4'
C1'
N9
DG
DG
DG
3
3
3
N
1
2.19
0.30
108.30
110.49
B
B
B
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
-5.57
0.70
108.00
102.43
B
B
B
O4'
C1'
N1
DC
DC
DC
7
7
7
N
13.443
-0.44
0.00
-0.10
1.55
0.00
-1.18
0.953
0.899
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.26361
0.20629
0.20872
1.80
34.92
236
5229
4920
4.6
98.49
3.566
0.104
RANDOM
1
THROUGHOUT
1.0
1.0
MOLECULAR REPLACEMENT
0.331
0.154
0.80
0.80
1.40
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.80
34.92
91
497
2
404
0
0.008
0.021
452
0.001
0.020
186
1.731
3.000
694
1.501
3.000
472
0.053
0.200
60
0.007
0.020
210
0.000
0.020
2
0.125
0.200
49
0.193
0.200
202
0.094
0.200
102
0.175
0.200
67
0.244
0.200
6
0.107
0.200
20
0.314
0.200
19
0.124
0.200
19
2.111
3.000
452
3.269
4.500
694
0.331
0.253
1.847
28
369
20
20.904
1.8
34.92
1NVN
5158
5158
1.0
1.0
0.06
1
16.78
3.71
98.3
0.2
1.8
2.1
6.06
1885
3.73
98.4
refinement
REFMAC
5.1.24
Structural Characterisation of the Holliday junction formed by the sequence CCGGTACCGG at 1.8 A
1
N
N
1
N
N
2
N
N
2
N
N
3
N
N
3
N
N
metalc
2.183
A
CA
101
C
CA
CA
1_555
A
HOH
115
E
O
HOH
1_555
metalc
2.614
A
CA
101
C
CA
CA
1_555
A
HOH
116
E
O
HOH
1_555
metalc
2.106
A
CA
101
C
CA
CA
1_555
A
HOH
143
E
O
HOH
1_555
metalc
2.207
A
CA
101
C
CA
CA
1_555
A
HOH
159
E
O
HOH
1_555
metalc
2.835
A
CA
101
C
CA
CA
1_555
B
HOH
142
F
O
HOH
1_555
metalc
2.580
B
CA
102
D
CA
CA
1_555
B
HOH
103
F
O
HOH
1_555
metalc
2.518
B
CA
102
D
CA
CA
1_555
B
HOH
106
F
O
HOH
1_555
metalc
2.224
B
CA
102
D
CA
CA
1_555
B
HOH
107
F
O
HOH
1_555
metalc
2.077
B
CA
102
D
CA
CA
1_555
B
HOH
131
F
O
HOH
1_555
metalc
2.423
B
CA
102
D
CA
CA
1_555
B
HOH
132
F
O
HOH
1_555
metalc
2.408
B
CA
102
D
CA
CA
1_555
B
HOH
141
F
O
HOH
1_555
metalc
2.529
B
CA
102
D
CA
CA
1_555
B
HOH
185
F
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
10
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
10
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
10
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
B
DG
9
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
B
DG
9
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
B
DG
9
B
N2
DG
9
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
DC
8
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
8
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
8
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
7
B
N3
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
7
B
O2
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
7
B
N4
DC
7
1_555
hydrog
WATSON-CRICK
A
DT
5
A
N3
DT
5
1_555
B
DA
6
B
N1
DA
6
1_555
hydrog
WATSON-CRICK
A
DT
5
A
O4
DT
5
1_555
B
DA
6
B
N6
DA
6
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
DT
5
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
DT
5
B
O4
DT
5
1_555
DNA
Holliday Junction, Calcium ion, DNA
1NVN
PDB
1
1NVN
1
10
1NVN
1
10
1NVN
A
1
1
10
1
10
1NVN
1
10
1NVN
B
1
1
10
BINDING SITE FOR RESIDUE CA A 101
A
CA
101
Software
5
BINDING SITE FOR RESIDUE CA B 102
B
CA
102
Software
7
A
HOH
115
E
HOH
5
1_555
A
HOH
116
E
HOH
5
1_555
A
HOH
143
E
HOH
5
1_555
A
HOH
159
E
HOH
5
1_555
B
HOH
142
F
HOH
5
1_555
B
HOH
103
F
HOH
7
1_555
B
HOH
106
F
HOH
7
1_555
B
HOH
107
F
HOH
7
1_555
B
HOH
131
F
HOH
7
1_555
B
HOH
132
F
HOH
7
1_555
B
HOH
141
F
HOH
7
1_555
B
HOH
185
F
HOH
7
1_555
5
C 1 2 1