0.015552
0.000000
0.005673
0.000000
0.039946
0.000000
0.000000
0.000000
0.028943
0.00000
0.00000
0.00000
Thorpe, J.H.
Gale, B.C.
Teixeira, S.C.M.
Cardin, C.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
110.04
90.00
64.302
25.034
36.778
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
Sr 2
87.620
STRONTIUM 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
SR
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
327
97
109
10.1016/S0022-2836(03)00088-3
12614611
Conformational and hydration effects of site-selective sodium, calcium and
strontium ion binding to the DNA Holliday junction structure
d(TCGGTACCGA)(4)
2003
10.2210/pdb1m6g/pdb
pdb_00001m6g
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
CCD
2002-05-19
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
0.811
1.0
X11
EMBL/DESY, HAMBURG
0.811
SYNCHROTRON
EMBL/DESY, HAMBURG BEAMLINE X11
SECTION OF HOLLIDAY JUNCTION
3045.005
5'-D(*TP*CP*GP*GP*TP*AP*CP*CP*GP*A)-3'
2
syn
polymer
87.620
STRONTIUM ION
5
syn
non-polymer
18.015
water
107
nat
water
no
no
(DT)(DC)(DG)(DG)(DT)(DA)(DC)(DC)(DG)(DA)
TCGGTACCGA
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
1
2.19
43.86
VAPOR DIFFUSION, SITTING DROP
7.0
cacodylate, strontium chloride, MPD, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 290K
290
cacodylate
1
SrCl2
1
MPD
1
-3.996
1
20
A
1
B
20
5.256
A_DT1:DA20_B
1
-16.171
0.105
0.235
-0.093
0.904
1
19
A
2
B
19
-2.495
A_DC2:DG19_B
2
-2.388
0.047
0.182
-0.083
2.121
1
19
A
3
B
18
-0.960
A_DG3:DC18_B
3
-3.593
-0.319
0.241
-0.256
-0.399
1
19
A
4
B
17
-0.580
A_DG4:DC17_B
4
-16.140
-0.101
0.328
-0.242
-2.273
1
20
A
5
B
16
-0.728
A_DT5:DA16_B
5
-10.811
-0.269
0.061
-0.101
1.808
1
20
A
6
B
15
-2.644
A_DA6:DT15_B
6
-14.991
0.715
0.027
0.109
3.526
40.595
A
A
1
2
3.600
B
B
20
19
3.398
2.493
0.089
2.351
AA_DT1DC2:DG19DA20_BB
1
3.619
-5.226
40.366
3.094
0.299
3.149
37.839
A
A
2
3
-3.289
B
B
19
18
3.307
-2.131
-0.118
2.806
AA_DC2DG3:DC18DG19_BB
2
0.286
-0.441
37.780
4.598
0.218
3.681
43.209
A
A
3
4
4.397
B
B
18
17
3.555
3.230
0.017
2.189
AA_DG3DG4:DC17DC18_BB
3
-4.680
6.372
42.851
2.621
-0.532
3.297
26.359
A
A
4
5
-1.566
B
B
17
16
3.367
-0.713
-0.573
-0.341
AA_DG4DT5:DA16DC17_BB
4
2.792
-6.135
26.203
-0.553
2.020
3.275
43.522
A
A
5
6
-1.391
B
B
16
15
3.295
-1.031
-0.714
1.389
AA_DT5DA6:DT15DA16_BB
5
-0.823
1.110
43.503
1.973
0.883
diffrn_source
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Refinement description
Data collection
Database references
Derived calculations
1
0
2003-05-06
1
1
2008-04-28
1
2
2011-07-13
1
3
2019-07-24
1
4
2024-02-14
_diffrn_source.pdbx_synchrotron_site
_software.classification
_software.name
_software.version
_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.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
UD0018 IS DNA double helix, four-way junction
UD0015 IS DNA double helix, four-way junction
UD0008 IS DNA double helix, four-way junction
UD0006 IS DNA quadruple helix, mismatch
DD0031 IS B-DNA double helix, modified
RCSB
Y
RCSB
2002-07-16
REL
REL
SR
STRONTIUM ION
HOH
water
SR
23
2
SR
SR
23
A
SR
24
2
SR
SR
24
A
SR
21
2
SR
SR
21
B
SR
22
2
SR
SR
22
B
SR
25
2
SR
SR
25
B
HOH
41
3
HOH
HOH
41
A
HOH
45
3
HOH
HOH
45
A
HOH
46
3
HOH
HOH
46
A
HOH
48
3
HOH
HOH
48
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
57
3
HOH
HOH
57
A
HOH
58
3
HOH
HOH
58
A
HOH
59
3
HOH
HOH
59
A
HOH
60
3
HOH
HOH
60
A
HOH
61
3
HOH
HOH
61
A
HOH
62
3
HOH
HOH
62
A
HOH
64
3
HOH
HOH
64
A
HOH
65
3
HOH
HOH
65
A
HOH
66
3
HOH
HOH
66
A
HOH
79
3
HOH
HOH
79
A
HOH
80
3
HOH
HOH
80
A
HOH
81
3
HOH
HOH
81
A
HOH
82
3
HOH
HOH
82
A
HOH
87
3
HOH
HOH
87
A
HOH
94
3
HOH
HOH
94
A
HOH
97
3
HOH
HOH
97
A
HOH
98
3
HOH
HOH
98
A
HOH
99
3
HOH
HOH
99
A
HOH
100
3
HOH
HOH
100
A
HOH
101
3
HOH
HOH
101
A
HOH
108
3
HOH
HOH
108
A
HOH
110
3
HOH
HOH
110
A
HOH
112
3
HOH
HOH
112
A
HOH
114
3
HOH
HOH
114
A
HOH
116
3
HOH
HOH
116
A
HOH
117
3
HOH
HOH
117
A
HOH
118
3
HOH
HOH
118
A
HOH
119
3
HOH
HOH
119
A
HOH
120
3
HOH
HOH
120
A
HOH
121
3
HOH
HOH
121
A
HOH
122
3
HOH
HOH
122
A
HOH
133
3
HOH
HOH
133
A
HOH
137
3
HOH
HOH
137
A
HOH
139
3
HOH
HOH
139
A
HOH
141
3
HOH
HOH
141
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
26
3
HOH
HOH
26
B
HOH
27
3
HOH
HOH
27
B
HOH
28
3
HOH
HOH
28
B
HOH
29
3
HOH
HOH
29
B
HOH
30
3
HOH
HOH
30
B
HOH
31
3
HOH
HOH
31
B
HOH
32
3
HOH
HOH
32
B
HOH
33
3
HOH
HOH
33
B
HOH
34
3
HOH
HOH
34
B
HOH
35
3
HOH
HOH
35
B
HOH
36
3
HOH
HOH
36
B
HOH
37
3
HOH
HOH
37
B
HOH
38
3
HOH
HOH
38
B
HOH
39
3
HOH
HOH
39
B
HOH
40
3
HOH
HOH
40
B
HOH
42
3
HOH
HOH
42
B
HOH
43
3
HOH
HOH
43
B
HOH
44
3
HOH
HOH
44
B
HOH
47
3
HOH
HOH
47
B
HOH
49
3
HOH
HOH
49
B
HOH
50
3
HOH
HOH
50
B
HOH
51
3
HOH
HOH
51
B
HOH
52
3
HOH
HOH
52
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
73
3
HOH
HOH
73
B
HOH
74
3
HOH
HOH
74
B
HOH
75
3
HOH
HOH
75
B
HOH
78
3
HOH
HOH
78
B
HOH
83
3
HOH
HOH
83
B
HOH
84
3
HOH
HOH
84
B
HOH
85
3
HOH
HOH
85
B
HOH
86
3
HOH
HOH
86
B
HOH
88
3
HOH
HOH
88
B
HOH
89
3
HOH
HOH
89
B
HOH
91
3
HOH
HOH
91
B
HOH
92
3
HOH
HOH
92
B
HOH
93
3
HOH
HOH
93
B
HOH
95
3
HOH
HOH
95
B
HOH
102
3
HOH
HOH
102
B
HOH
104
3
HOH
HOH
104
B
HOH
105
3
HOH
HOH
105
B
HOH
106
3
HOH
HOH
106
B
HOH
109
3
HOH
HOH
109
B
HOH
111
3
HOH
HOH
111
B
HOH
113
3
HOH
HOH
113
B
HOH
115
3
HOH
HOH
115
B
HOH
123
3
HOH
HOH
123
B
HOH
124
3
HOH
HOH
124
B
HOH
125
3
HOH
HOH
125
B
HOH
126
3
HOH
HOH
126
B
HOH
129
3
HOH
HOH
129
B
HOH
130
3
HOH
HOH
130
B
HOH
131
3
HOH
HOH
131
B
HOH
132
3
HOH
HOH
132
B
HOH
135
3
HOH
HOH
135
B
HOH
140
3
HOH
HOH
140
B
HOH
142
3
HOH
HOH
142
B
T
1
n
1
DT
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
A
10
n
10
DA
10
A
T
11
n
1
DT
11
B
C
12
n
2
DC
12
B
G
13
n
3
DG
13
B
G
14
n
4
DG
14
B
T
15
n
5
DT
15
B
A
16
n
6
DA
16
B
C
17
n
7
DC
17
B
C
18
n
8
DC
18
B
G
19
n
9
DG
19
B
A
20
n
10
DA
20
B
author_defined_assembly
4
tetrameric
A
HOH
41
H
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
38
I
O
HOH
1_555
143.8
A
HOH
41
H
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
39
I
O
HOH
1_555
132.4
B
HOH
38
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
39
I
O
HOH
1_555
74.0
A
HOH
41
H
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
40
I
O
HOH
1_555
78.7
B
HOH
38
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
40
I
O
HOH
1_555
82.5
B
HOH
39
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
40
I
O
HOH
1_555
82.1
A
HOH
41
H
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
42
I
O
HOH
1_555
79.6
B
HOH
38
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
42
I
O
HOH
1_555
71.1
B
HOH
39
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
42
I
O
HOH
1_555
145.1
B
HOH
40
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
42
I
O
HOH
1_555
93.9
A
HOH
41
H
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
125
I
O
HOH
1_555
68.1
B
HOH
38
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
125
I
O
HOH
1_555
131.8
B
HOH
39
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
125
I
O
HOH
1_555
64.3
B
HOH
40
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
125
I
O
HOH
1_555
69.1
B
HOH
42
I
O
HOH
1_555
A
SR
23
C
SR
SR
1_555
B
HOH
125
I
O
HOH
1_555
145.7
A
HOH
45
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
A
HOH
46
H
O
HOH
1_555
135.2
A
HOH
45
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
A
HOH
48
H
O
HOH
1_555
67.5
A
HOH
46
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
A
HOH
48
H
O
HOH
1_555
67.8
A
HOH
45
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
A
HOH
87
H
O
HOH
1_555
59.9
A
HOH
46
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
A
HOH
87
H
O
HOH
1_555
153.9
A
HOH
48
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
A
HOH
87
H
O
HOH
1_555
119.7
A
HOH
45
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
43
I
O
HOH
1_555
121.2
A
HOH
46
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
43
I
O
HOH
1_555
86.8
A
HOH
48
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
43
I
O
HOH
1_555
130.3
A
HOH
87
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
43
I
O
HOH
1_555
102.1
A
HOH
45
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
44
I
O
HOH
1_555
135.4
A
HOH
46
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
44
I
O
HOH
1_555
83.7
A
HOH
48
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
44
I
O
HOH
1_555
139.9
A
HOH
87
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
44
I
O
HOH
1_555
76.0
B
HOH
43
I
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
44
I
O
HOH
1_555
72.2
A
HOH
45
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
83.6
A
HOH
46
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
85.5
A
HOH
48
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
78.8
A
HOH
87
H
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
120.0
B
HOH
43
I
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
56.4
B
HOH
44
I
O
HOH
1_555
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
127.9
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
27
I
O
HOH
1_555
81.4
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
28
I
O
HOH
1_555
77.1
B
HOH
27
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
28
I
O
HOH
1_555
73.3
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
29
I
O
HOH
1_555
139.5
B
HOH
27
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
29
I
O
HOH
1_555
70.6
B
HOH
28
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
29
I
O
HOH
1_555
67.3
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
30
I
O
HOH
1_555
82.8
B
HOH
27
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
30
I
O
HOH
1_555
149.7
B
HOH
28
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
30
I
O
HOH
1_555
78.1
B
HOH
29
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
30
I
O
HOH
1_555
107.2
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
31
I
O
HOH
1_555
77.4
B
HOH
27
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
31
I
O
HOH
1_555
128.3
B
HOH
28
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
31
I
O
HOH
1_555
142.7
B
HOH
29
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
31
I
O
HOH
1_555
143.2
B
HOH
30
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
31
I
O
HOH
1_555
72.2
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
145.0
B
HOH
27
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
132.3
B
HOH
28
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
117.1
B
HOH
29
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
72.2
B
HOH
30
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
70.5
B
HOH
31
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
73.3
B
HOH
26
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
98.5
B
HOH
27
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
64.6
B
HOH
28
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
137.9
B
HOH
29
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
95.3
B
HOH
30
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
143.7
B
HOH
31
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
72.8
B
HOH
32
I
O
HOH
1_555
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
90.6
B
HOH
34
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
35
I
O
HOH
1_555
80.2
B
HOH
34
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
36
I
O
HOH
1_555
155.7
B
HOH
35
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
36
I
O
HOH
1_555
79.8
B
HOH
34
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
37
I
O
HOH
1_555
63.1
B
HOH
35
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
37
I
O
HOH
1_555
133.2
B
HOH
36
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
37
I
O
HOH
1_555
141.1
B
HOH
34
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
86
I
O
HOH
1_555
82.5
B
HOH
35
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
86
I
O
HOH
1_555
74.5
B
HOH
36
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
86
I
O
HOH
1_555
78.9
B
HOH
37
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
86
I
O
HOH
1_555
124.2
B
HOH
34
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
123
I
O
HOH
1_555
102.2
B
HOH
35
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
123
I
O
HOH
1_555
146.6
B
HOH
36
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
123
I
O
HOH
1_555
87.2
B
HOH
37
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
123
I
O
HOH
1_555
73.3
B
HOH
86
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
123
I
O
HOH
1_555
72.9
B
HOH
34
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
91.4
B
HOH
35
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
69.0
B
HOH
36
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
94.2
B
HOH
37
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
83.1
B
HOH
86
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
143.4
B
HOH
123
I
O
HOH
1_555
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
143.2
B
HOH
49
I
O
HOH
1_555
B
SR
25
G
SR
SR
1_555
B
HOH
50
I
O
HOH
1_555
143.1
B
HOH
49
I
O
HOH
1_555
B
SR
25
G
SR
SR
1_555
B
HOH
51
I
O
HOH
1_555
105.2
B
HOH
50
I
O
HOH
1_555
B
SR
25
G
SR
SR
1_555
B
HOH
51
I
O
HOH
1_555
109.5
B
HOH
49
I
O
HOH
1_555
B
SR
25
G
SR
SR
1_555
B
HOH
52
I
O
HOH
1_555
88.4
B
HOH
50
I
O
HOH
1_555
B
SR
25
G
SR
SR
1_555
B
HOH
52
I
O
HOH
1_555
114.5
B
HOH
51
I
O
HOH
1_555
B
SR
25
G
SR
SR
1_555
B
HOH
52
I
O
HOH
1_555
70.6
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_555
-x,y,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
1
-3.81
0.50
117.40
113.59
A
A
A
C4
C5
C6
DC
DC
DC
2
2
2
N
1
-5.94
0.80
105.90
99.96
A
A
A
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
1
3.90
0.30
108.30
112.20
A
A
A
O4'
C1'
N1
DT
DT
DT
5
5
5
N
1
-4.13
0.60
122.30
118.17
A
A
A
N3
C2
O2
DT
DT
DT
5
5
5
N
1
-3.14
0.50
129.30
126.16
A
A
A
N1
C2
N3
DA
DA
DA
6
6
6
N
1
-3.31
0.40
105.80
102.49
A
A
A
N9
C4
C5
DA
DA
DA
6
6
6
N
1
5.06
0.60
118.60
123.66
A
A
A
N1
C6
N6
DA
DA
DA
6
6
6
N
1
3.87
0.30
108.30
112.17
A
A
A
O4'
C1'
N1
DC
DC
DC
7
7
7
N
1
2.36
0.30
108.30
110.66
B
B
B
O4'
C1'
N1
DT
DT
DT
11
11
11
N
1
4.60
0.60
119.00
123.60
B
B
B
C4
C5
C7
DT
DT
DT
11
11
11
N
1
-3.72
0.60
122.90
119.18
B
B
B
C6
C5
C7
DT
DT
DT
11
11
11
N
1
-5.37
0.80
105.90
100.53
B
B
B
O4'
C1'
C2'
DC
DC
DC
12
12
12
N
1
4.43
0.60
119.90
124.33
B
B
B
N1
C6
O6
DG
DG
DG
14
14
14
N
1
-5.01
0.70
108.00
102.99
B
B
B
O4'
C1'
N1
DT
DT
DT
15
15
15
N
1
-5.32
0.60
122.30
116.98
B
B
B
N3
C2
O2
DT
DT
DT
15
15
15
N
1
4.26
0.60
119.90
124.16
B
B
B
N3
C4
O4
DT
DT
DT
15
15
15
N
1
2.40
0.30
108.30
110.70
B
B
B
O4'
C1'
N9
DA
DA
DA
16
16
16
N
1
7.65
0.90
103.10
110.75
B
B
B
C4'
C3'
C2'
DC
DC
DC
17
17
17
N
1
6.52
0.50
106.80
113.32
B
B
B
O4'
C1'
C2'
DC
DC
DC
17
17
17
N
1
8.34
0.30
108.30
116.64
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
1
9.88
1.20
119.70
129.58
B
B
B
C3'
O3'
P
DC
DC
DC
17
17
18
Y
1
-4.88
0.70
108.00
103.12
B
B
B
O4'
C1'
N1
DC
DC
DC
18
18
18
N
1
A
A
O3'
C3'
DC
DC
8
8
-0.037
0.006
1.419
1.382
N
1
A
A
O3'
C3'
DA
DA
10
10
-0.040
0.006
1.419
1.379
N
1
B
B
O3'
C3'
DA
DA
16
16
-0.048
0.006
1.419
1.371
N
18.900
-1.67
0.00
-0.35
2.32
0.00
-0.90
0.946
0.900
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.29566
0.21486
0.2185
0.2148
1.652
34.503
316
6621
4.8
97.64
2.690
0.092
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.203
0.143
0.80
0.80
1.40
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.652
34.503
107
516
5
404
0
0.017
0.021
452
0.002
0.020
192
2.868
3.000
694
1.714
3.000
484
0.096
0.200
60
0.019
0.020
210
0.001
0.020
4
0.147
0.200
52
0.213
0.200
194
0.109
0.200
103
0.163
0.200
55
0.048
0.200
14
0.339
0.200
22
0.123
0.200
14
2.540
3.000
452
3.308
4.500
694
1.713
2.000
452
4.620
2.000
112
3.435
2.000
404
0.332
0.212
1.695
19
408
20
18.9
1.649
34.503
1M6G
6703
0.2957
0.082
1
5.41
0.332
1.652
1.695
408
0.148
4.7
refinement
REFMAC
5.1.19
data scaling
SCALA
refinement
XTALVIEW
data reduction
MOSFLM
data scaling
CCP4
(SCALA)
Structural Characterisation of the Holliday Junction TCGGTACCGA
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
metalc
2.620
A
SR
23
C
SR
SR
1_555
A
HOH
41
H
O
HOH
1_555
metalc
2.609
A
SR
23
C
SR
SR
1_555
B
HOH
38
I
O
HOH
1_555
metalc
2.718
A
SR
23
C
SR
SR
1_555
B
HOH
39
I
O
HOH
1_555
metalc
2.253
A
SR
23
C
SR
SR
1_555
B
HOH
40
I
O
HOH
1_555
metalc
2.609
A
SR
23
C
SR
SR
1_555
B
HOH
42
I
O
HOH
1_555
metalc
2.405
A
SR
23
C
SR
SR
1_555
B
HOH
125
I
O
HOH
1_555
metalc
2.729
A
SR
24
D
SR
SR
1_555
A
HOH
45
H
O
HOH
1_555
metalc
2.575
A
SR
24
D
SR
SR
1_555
A
HOH
46
H
O
HOH
1_555
metalc
2.727
A
SR
24
D
SR
SR
1_555
A
HOH
48
H
O
HOH
1_555
metalc
2.669
A
SR
24
D
SR
SR
1_555
A
HOH
87
H
O
HOH
1_555
metalc
2.722
A
SR
24
D
SR
SR
1_555
B
HOH
43
I
O
HOH
1_555
metalc
2.503
A
SR
24
D
SR
SR
1_555
B
HOH
44
I
O
HOH
1_555
metalc
3.044
A
SR
24
D
SR
SR
1_555
B
HOH
47
I
O
HOH
1_555
metalc
2.541
B
SR
21
E
SR
SR
1_555
B
HOH
26
I
O
HOH
1_555
metalc
2.634
B
SR
21
E
SR
SR
1_555
B
HOH
27
I
O
HOH
1_555
metalc
2.747
B
SR
21
E
SR
SR
1_555
B
HOH
28
I
O
HOH
1_555
metalc
2.635
B
SR
21
E
SR
SR
1_555
B
HOH
29
I
O
HOH
1_555
metalc
2.497
B
SR
21
E
SR
SR
1_555
B
HOH
30
I
O
HOH
1_555
metalc
2.605
B
SR
21
E
SR
SR
1_555
B
HOH
31
I
O
HOH
1_555
metalc
2.583
B
SR
21
E
SR
SR
1_555
B
HOH
32
I
O
HOH
1_555
metalc
2.650
B
SR
21
E
SR
SR
1_555
B
HOH
33
I
O
HOH
1_555
metalc
2.641
B
SR
22
F
SR
SR
1_555
B
HOH
34
I
O
HOH
1_555
metalc
2.580
B
SR
22
F
SR
SR
1_555
B
HOH
35
I
O
HOH
1_555
metalc
2.483
B
SR
22
F
SR
SR
1_555
B
HOH
36
I
O
HOH
1_555
metalc
2.682
B
SR
22
F
SR
SR
1_555
B
HOH
37
I
O
HOH
1_555
metalc
2.217
B
SR
22
F
SR
SR
1_555
B
HOH
86
I
O
HOH
1_555
metalc
2.570
B
SR
22
F
SR
SR
1_555
B
HOH
123
I
O
HOH
1_555
metalc
2.762
B
SR
22
F
SR
SR
1_555
B
HOH
124
I
O
HOH
1_555
metalc
2.429
B
SR
25
G
SR
SR
1_555
B
HOH
49
I
O
HOH
1_555
metalc
2.860
B
SR
25
G
SR
SR
1_555
B
HOH
50
I
O
HOH
1_555
metalc
2.402
B
SR
25
G
SR
SR
1_555
B
HOH
51
I
O
HOH
1_555
metalc
2.626
B
SR
25
G
SR
SR
1_555
B
HOH
52
I
O
HOH
1_555
hydrog
WATSON-CRICK
A
DT
1
A
N3
DT
1
1_555
B
DA
20
B
N1
DA
10
1_555
hydrog
WATSON-CRICK
A
DT
1
A
O4
DT
1
1_555
B
DA
20
B
N6
DA
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
DG
3
A
N1
DG
3
1_555
B
DC
18
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
18
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
18
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
17
B
N3
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
17
B
O2
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
17
B
N4
DC
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
DNA
Holliday Junction, Strontium derivative, Four-way junction, DNA
1M6G
PDB
1
1M6G
1
10
1M6G
1
10
1M6G
A
1
1
10
11
20
1M6G
11
20
1M6G
B
1
1
10
BINDING SITE FOR RESIDUE SR B 21
B
SR
21
Software
8
BINDING SITE FOR RESIDUE SR B 22
B
SR
22
Software
7
BINDING SITE FOR RESIDUE SR A 23
A
SR
23
Software
6
BINDING SITE FOR RESIDUE SR A 24
A
SR
24
Software
7
BINDING SITE FOR RESIDUE SR B 25
B
SR
25
Software
4
B
HOH
26
I
HOH
8
1_555
B
HOH
27
I
HOH
8
1_555
B
HOH
28
I
HOH
8
1_555
B
HOH
29
I
HOH
8
1_555
B
HOH
30
I
HOH
8
1_555
B
HOH
31
I
HOH
8
1_555
B
HOH
32
I
HOH
8
1_555
B
HOH
33
I
HOH
8
1_555
B
HOH
34
I
HOH
7
1_555
B
HOH
35
I
HOH
7
1_555
B
HOH
36
I
HOH
7
1_555
B
HOH
37
I
HOH
7
1_555
B
HOH
86
I
HOH
7
1_555
B
HOH
123
I
HOH
7
1_555
B
HOH
124
I
HOH
7
1_555
A
HOH
41
H
HOH
6
1_555
B
HOH
38
I
HOH
6
1_555
B
HOH
39
I
HOH
6
1_555
B
HOH
40
I
HOH
6
1_555
B
HOH
42
I
HOH
6
1_555
B
HOH
125
I
HOH
6
1_555
A
HOH
45
H
HOH
7
1_555
A
HOH
46
H
HOH
7
1_555
A
HOH
48
H
HOH
7
1_555
A
HOH
87
H
HOH
7
1_555
B
HOH
43
I
HOH
7
1_555
B
HOH
44
I
HOH
7
1_555
B
HOH
47
I
HOH
7
1_555
B
HOH
49
I
HOH
4
1_555
B
HOH
50
I
HOH
4
1_555
B
HOH
51
I
HOH
4
1_555
B
HOH
52
I
HOH
4
1_555
5
C 1 2 1