1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Kettani, A.
Kumar, R.A.
Patel, D.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
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
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
N
13
N
N
N
14
N
C
N
15
N
O
N
16
N
N
N
17
N
C
N
18
N
N
N
19
N
C
N
20
N
C
N
21
N
H
N
22
N
H
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
O
N
36
N
P
N
37
N
O
N
38
N
O
N
39
N
O
N
40
N
C
N
41
R
C
N
42
N
O
N
43
S
C
N
44
N
O
N
45
N
C
N
46
R
C
Y
47
N
N
Y
48
N
C
Y
49
N
N
Y
50
N
C
N
51
N
C
N
52
N
O
N
53
N
N
N
54
N
C
N
55
N
N
N
56
N
N
Y
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
N
84
N
N
N
85
N
C
N
86
N
O
N
87
N
N
N
88
N
C
N
89
N
O
N
90
N
C
N
91
N
C
N
92
N
C
N
93
N
H
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
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
N
24
N
sing
N
25
N
sing
N
26
N
doub
N
27
N
sing
N
28
N
doub
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
doub
N
39
N
sing
N
40
N
sing
N
41
N
sing
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
Y
59
N
sing
Y
60
N
sing
Y
61
N
doub
N
62
N
sing
Y
63
N
sing
N
64
N
sing
Y
65
N
doub
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
sing
N
77
N
doub
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
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
doub
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
doub
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
254
638
656
10.1006/jmbi.1995.0644
7500339
Solution structure of a DNA quadruplex containing the fragile X syndrome triplet repeat.
1995
10.2210/pdb1a6h/pdb
pdb_00001a6h
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
3421.219
DNA (5'-D(GP*CP*GP*GP*TP*TP*TP*GP*CP*GP*G)-3')
2
syn
polymer
no
no
(DG)(DC)(DG)(DG)(DT)(DT)(DT)(DG)(DC)(DG)(DG)
GCGGTTTGCGG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
database_2
pdbx_database_status
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Other
Data collection
1
0
1998-06-17
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-16
1
4
2024-05-22
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_pdbx_nmr_software.name
1998-06-17
SPRSDE
Y
BNL
1998-02-25
REL
ALL CONFORMERS PRESENTED
4
4
IN D(2)O: NOESY
COSY-45
COSY-90
TOCSY
(1)H-(31)P COSY
(1H)-(13)C HMQC. NOESY BUILDUP AT 50
100
150
200 AND 300 ; IN H(2)O: NOESY (80 AND 250 MS)
(1)H-(15)N HMQC
6.5
317
K
A SET OF FOUR STRUCTURES WERE OBTAINED USING METRIC MATRIX DISTANCE GEOMETRY, AND SUBSEQUENTLY REFINED BY DISTANCE-RESTRAINED MOLECULAR DYNAMICS USING A SET OF INTER-PROTON DISTANCES AND DIHEDRAL ANGLE RESTRAINTS DERIVED FROM THE NMR DATA. THE FOUR DISTANCE-REFINED STRUCTURES WERE REFINED FURTHER USING RELAXATION-MATRIX BASED NOE INTENSITY-RESTRAINED MOLECULAR DYNAMICS. ALL CALCULATIONS WERE CARRIED OUT USING THE X-PLOR PROGRAM. THE FINAL FOUR STRUCTURES WERE OBTAINED BY CONJUGATE GRADIENT MINIMIZATION OF THE STRUCTURES OBTAINED BY RELAXATION MATRIX BASED NOE INTENSITY-RESTRAINED MOLECULAR DYNAMICS. THE UNWEIGHTED R(1/6) VALUE WAS USED TO MONITOR THE REFINEMENT. THE R(1/6)-FACTOR IS DEFINED: R(1/6) = SUM{|I(OBS)^(1/6) - K*I(CALC)^(1/6)|} / SUM{I(OBS)^(1/6)}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
DISTANCE GEOMETRY AND RESTRAINED MOLECULAR DYNAMICS
BRUNGER
refinement
X-PLOR
structure solution
VARIAN VNMR
VNMR
structure solution
Felix
structure solution
X-PLOR
500
Varian
VARIAN UNITY PLUS
600
Varian
VARIAN UNITY PLUS
G
1
n
1
DG
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
T
6
n
6
DT
6
A
T
7
n
7
DT
7
A
G
8
n
8
DG
8
A
C
9
n
9
DC
9
A
G
10
n
10
DG
10
A
G
11
n
11
DG
11
A
G
1
n
1
DG
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
T
6
n
6
DT
6
B
T
7
n
7
DT
7
B
G
8
n
8
DG
8
B
C
9
n
9
DC
9
B
G
10
n
10
DG
10
B
G
11
n
11
DG
11
B
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
B
B
H2'
OP2
DG
DT
4
6
1.44
1
A
A
H2'
OP2
DG
DT
4
6
1.52
1
4.43
0.30
108.30
112.73
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
-6.79
0.80
105.90
99.11
A
A
A
O4'
C1'
C2'
DC
DC
DC
2
2
2
N
1
-4.99
0.70
102.20
97.21
A
A
A
C4'
C3'
C2'
DG
DG
DG
3
3
3
N
1
7.93
1.20
102.50
110.43
A
A
A
C3'
C2'
C1'
DG
DG
DG
4
4
4
N
1
4.58
0.30
108.30
112.88
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
4.38
0.30
108.30
112.68
A
A
A
O4'
C1'
N1
DT
DT
DT
5
5
5
N
1
10.26
1.20
115.70
125.96
A
A
A
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
1
3.12
0.30
108.30
111.42
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
1
5.62
0.60
119.00
124.62
A
A
A
C4
C5
C7
DT
DT
DT
6
6
6
N
1
-7.44
0.60
122.90
115.46
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
1
9.02
1.20
119.70
128.72
A
A
A
C3'
O3'
P
DT
DT
DT
6
6
7
Y
1
2.53
0.30
108.30
110.83
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
-5.24
0.60
122.90
117.66
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
1
-5.05
0.70
102.20
97.15
A
A
A
C4'
C3'
C2'
DG
DG
DG
8
8
8
N
1
-4.49
0.70
108.00
103.51
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
4.53
0.30
108.30
112.83
B
B
B
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
-6.80
0.80
105.90
99.10
B
B
B
O4'
C1'
C2'
DC
DC
DC
2
2
2
N
1
-5.12
0.70
102.20
97.08
B
B
B
C4'
C3'
C2'
DG
DG
DG
3
3
3
N
1
7.70
1.20
102.50
110.20
B
B
B
C3'
C2'
C1'
DG
DG
DG
4
4
4
N
1
4.50
0.30
108.30
112.80
B
B
B
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
4.37
0.30
108.30
112.67
B
B
B
O4'
C1'
N1
DT
DT
DT
5
5
5
N
1
10.28
1.20
115.70
125.98
B
B
B
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
1
2.88
0.30
108.30
111.18
B
B
B
O4'
C1'
N1
DT
DT
DT
6
6
6
N
1
5.39
0.60
119.00
124.39
B
B
B
C4
C5
C7
DT
DT
DT
6
6
6
N
1
-7.29
0.60
122.90
115.61
B
B
B
C6
C5
C7
DT
DT
DT
6
6
6
N
1
9.11
1.20
119.70
128.81
B
B
B
C3'
O3'
P
DT
DT
DT
6
6
7
Y
1
2.58
0.30
108.30
110.88
B
B
B
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
-5.26
0.60
122.90
117.64
B
B
B
C6
C5
C7
DT
DT
DT
7
7
7
N
1
-5.12
0.70
102.20
97.08
B
B
B
C4'
C3'
C2'
DG
DG
DG
8
8
8
N
1
-4.42
0.70
108.00
103.58
B
B
B
O4'
C1'
N1
DC
DC
DC
9
9
9
N
2
4.80
0.30
108.30
113.10
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
2
-6.58
1.00
110.10
103.52
A
A
A
C1'
O4'
C4'
DC
DC
DC
2
2
2
N
2
-5.92
0.80
105.90
99.98
A
A
A
O4'
C1'
C2'
DG
DG
DG
3
3
3
N
2
-4.51
0.70
102.20
97.69
A
A
A
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
2
8.89
0.30
108.30
117.19
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
2
14.69
2.00
112.30
126.99
A
A
A
C4'
C3'
O3'
DT
DT
DT
5
5
5
N
2
-7.18
0.80
105.90
98.72
A
A
A
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
2
9.04
1.20
115.70
124.74
A
A
A
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
2
5.52
0.60
119.00
124.52
A
A
A
C4
C5
C7
DT
DT
DT
6
6
6
N
2
-7.84
0.60
122.90
115.06
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
2
-5.27
0.60
122.90
117.63
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
2
7.28
1.20
119.70
126.98
A
A
A
C3'
O3'
P
DT
DT
DG
7
7
8
Y
2
-4.39
0.70
102.20
97.81
A
A
A
C4'
C3'
C2'
DG
DG
DG
8
8
8
N
2
-5.38
0.70
108.00
102.62
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
2
4.77
0.30
108.30
113.07
B
B
B
O4'
C1'
N9
DG
DG
DG
1
1
1
N
2
-6.64
1.00
110.10
103.46
B
B
B
C1'
O4'
C4'
DC
DC
DC
2
2
2
N
2
-5.92
0.80
105.90
99.98
B
B
B
O4'
C1'
C2'
DG
DG
DG
3
3
3
N
2
-4.49
0.70
102.20
97.71
B
B
B
C4'
C3'
C2'
DG
DG
DG
4
4
4
N
2
8.87
0.30
108.30
117.17
B
B
B
O4'
C1'
N9
DG
DG
DG
4
4
4
N
2
14.70
2.00
112.30
127.00
B
B
B
C4'
C3'
O3'
DT
DT
DT
5
5
5
N
2
-7.19
0.80
105.90
98.71
B
B
B
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
2
8.95
1.20
115.70
124.65
B
B
B
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
2
5.60
0.60
119.00
124.60
B
B
B
C4
C5
C7
DT
DT
DT
6
6
6
N
2
-7.82
0.60
122.90
115.08
B
B
B
C6
C5
C7
DT
DT
DT
6
6
6
N
2
-5.34
0.60
122.90
117.56
B
B
B
C6
C5
C7
DT
DT
DT
7
7
7
N
2
7.30
1.20
119.70
127.00
B
B
B
C3'
O3'
P
DT
DT
DG
7
7
8
Y
2
-4.35
0.70
102.20
97.85
B
B
B
C4'
C3'
C2'
DG
DG
DG
8
8
8
N
2
-5.31
0.70
108.00
102.69
B
B
B
O4'
C1'
N1
DC
DC
DC
9
9
9
N
3
6.10
0.30
108.30
114.40
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
3
-6.55
1.00
110.10
103.55
A
A
A
C1'
O4'
C4'
DC
DC
DC
2
2
2
N
3
-6.85
0.80
105.90
99.05
A
A
A
O4'
C1'
C2'
DC
DC
DC
2
2
2
N
3
-6.33
0.70
102.20
95.87
A
A
A
C4'
C3'
C2'
DG
DG
DG
3
3
3
N
3
5.68
0.30
108.30
113.98
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
3
-2.82
0.40
104.50
101.68
A
A
A
O4'
C4'
C3'
DT
DT
DT
5
5
5
N
3
15.00
2.00
112.30
127.30
A
A
A
C4'
C3'
O3'
DT
DT
DT
5
5
5
N
3
-5.13
0.80
105.90
100.77
A
A
A
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
3
5.00
0.30
108.30
113.30
A
A
A
O4'
C1'
N1
DT
DT
DT
5
5
5
N
3
9.29
1.20
115.70
124.99
A
A
A
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
3
6.43
0.60
119.00
125.43
A
A
A
C4
C5
C7
DT
DT
DT
6
6
6
N
3
-8.43
0.60
122.90
114.47
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
3
8.01
1.20
119.70
127.71
A
A
A
C3'
O3'
P
DT
DT
DT
6
6
7
Y
3
-2.77
0.40
104.50
101.73
A
A
A
O4'
C4'
C3'
DT
DT
DT
7
7
7
N
3
7.20
1.20
115.70
122.90
A
A
A
C5'
C4'
C3'
DT
DT
DT
7
7
7
N
3
-5.81
0.60
122.90
117.09
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
3
-7.64
1.00
110.10
102.46
A
A
A
C1'
O4'
C4'
DC
DC
DC
9
9
9
N
3
6.13
0.30
108.30
114.43
B
B
B
O4'
C1'
N9
DG
DG
DG
1
1
1
N
3
-6.59
1.00
110.10
103.51
B
B
B
C1'
O4'
C4'
DC
DC
DC
2
2
2
N
3
-6.81
0.80
105.90
99.09
B
B
B
O4'
C1'
C2'
DC
DC
DC
2
2
2
N
3
-6.27
0.70
102.20
95.93
B
B
B
C4'
C3'
C2'
DG
DG
DG
3
3
3
N
3
5.61
0.30
108.30
113.91
B
B
B
O4'
C1'
N9
DG
DG
DG
4
4
4
N
3
-2.77
0.40
104.50
101.73
B
B
B
O4'
C4'
C3'
DT
DT
DT
5
5
5
N
3
15.01
2.00
112.30
127.31
B
B
B
C4'
C3'
O3'
DT
DT
DT
5
5
5
N
3
-5.10
0.80
105.90
100.80
B
B
B
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
3
5.05
0.30
108.30
113.35
B
B
B
O4'
C1'
N1
DT
DT
DT
5
5
5
N
3
9.17
1.20
115.70
124.87
B
B
B
C5'
C4'
C3'
DT
DT
DT
6
6
6
N
3
6.43
0.60
119.00
125.43
B
B
B
C4
C5
C7
DT
DT
DT
6
6
6
N
3
-8.43
0.60
122.90
114.47
B
B
B
C6
C5
C7
DT
DT
DT
6
6
6
N
3
8.08
1.20
119.70
127.78
B
B
B
C3'
O3'
P
DT
DT
DT
6
6
7
Y
3
-2.84
0.40
104.50
101.66
B
B
B
O4'
C4'
C3'
DT
DT
DT
7
7
7
N
3
7.27
1.20
115.70
122.97
B
B
B
C5'
C4'
C3'
DT
DT
DT
7
7
7
N
3
-5.67
0.60
122.90
117.23
B
B
B
C6
C5
C7
DT
DT
DT
7
7
7
N
3
-7.61
1.00
110.10
102.49
B
B
B
C1'
O4'
C4'
DC
DC
DC
9
9
9
N
3
-4.80
0.80
105.90
101.10
B
B
B
O4'
C1'
C2'
DG
DG
DG
11
11
11
N
4
3.95
0.30
108.30
112.25
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
4
-6.85
1.00
110.10
103.25
A
A
A
C1'
O4'
C4'
DC
DC
DC
2
2
2
N
4
-5.12
0.80
105.90
100.78
A
A
A
O4'
C1'
C2'
DG
DG
DG
4
4
4
N
4
3.81
0.30
108.30
112.11
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
4
-5.98
0.80
105.90
99.92
A
A
A
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
4
1.98
0.30
108.30
110.28
A
A
A
O4'
C1'
N1
DT
DT
DT
5
5
5
N
4
-3.64
0.60
122.90
119.26
A
A
A
C6
C5
C7
DT
DT
DT
5
5
5
N
4
2.96
0.30
108.30
111.26
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
4
-5.10
0.60
122.90
117.80
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
4
-3.91
0.60
122.90
118.99
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
4
-6.76
0.80
105.90
99.14
A
A
A
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
4
-2.77
0.40
104.50
101.73
A
A
A
O4'
C4'
C3'
DG
DG
DG
10
10
10
N
4
-6.73
1.00
110.10
103.37
A
A
A
C1'
O4'
C4'
DG
DG
DG
10
10
10
N
4
3.99
0.30
108.30
112.29
B
B
B
O4'
C1'
N9
DG
DG
DG
1
1
1
N
4
-6.79
1.00
110.10
103.31
B
B
B
C1'
O4'
C4'
DC
DC
DC
2
2
2
N
4
-5.03
0.80
105.90
100.87
B
B
B
O4'
C1'
C2'
DG
DG
DG
4
4
4
N
4
4.06
0.30
108.30
112.36
B
B
B
O4'
C1'
N9
DG
DG
DG
4
4
4
N
4
-6.01
0.80
105.90
99.89
B
B
B
O4'
C1'
C2'
DT
DT
DT
5
5
5
N
4
2.01
0.30
108.30
110.31
B
B
B
O4'
C1'
N1
DT
DT
DT
5
5
5
N
4
2.93
0.30
108.30
111.23
B
B
B
O4'
C1'
N1
DT
DT
DT
6
6
6
N
4
-4.96
0.60
122.90
117.94
B
B
B
C6
C5
C7
DT
DT
DT
6
6
6
N
4
-4.00
0.60
122.90
118.90
B
B
B
C6
C5
C7
DT
DT
DT
7
7
7
N
4
-6.81
0.80
105.90
99.09
B
B
B
O4'
C1'
C2'
DC
DC
DC
9
9
9
N
4
-2.83
0.40
104.50
101.67
B
B
B
O4'
C4'
C3'
DG
DG
DG
10
10
10
N
4
-6.75
1.00
110.10
103.35
B
B
B
C1'
O4'
C4'
DG
DG
DG
10
10
10
N
1
A
A
C5
C7
DT
DT
5
5
0.037
0.006
1.496
1.533
N
1
A
A
C5
C7
DT
DT
6
6
0.056
0.006
1.496
1.552
N
1
A
A
C5'
C4'
DT
DT
7
7
0.064
0.007
1.512
1.576
N
1
B
B
C5
C7
DT
DT
5
5
0.039
0.006
1.496
1.535
N
1
B
B
C5
C7
DT
DT
6
6
0.052
0.006
1.496
1.548
N
1
B
B
C5'
C4'
DT
DT
7
7
0.066
0.007
1.512
1.578
N
2
A
A
C5
C7
DT
DT
5
5
0.039
0.006
1.496
1.535
N
2
A
A
C5
C7
DT
DT
6
6
0.038
0.006
1.496
1.534
N
2
A
A
C5'
C4'
DT
DT
7
7
0.050
0.007
1.512
1.562
N
2
B
B
C5
C7
DT
DT
5
5
0.040
0.006
1.496
1.536
N
2
B
B
C5
C7
DT
DT
6
6
0.037
0.006
1.496
1.533
N
2
B
B
C5'
C4'
DT
DT
7
7
0.049
0.007
1.512
1.561
N
3
A
A
C5
C7
DT
DT
5
5
0.038
0.006
1.496
1.534
N
3
A
A
C5'
C4'
DT
DT
6
6
0.042
0.007
1.512
1.554
N
3
A
A
C5
C7
DT
DT
6
6
0.045
0.006
1.496
1.541
N
3
B
B
C5
C7
DT
DT
5
5
0.038
0.006
1.496
1.534
N
3
B
B
C5'
C4'
DT
DT
6
6
0.042
0.007
1.512
1.554
N
3
B
B
C5
C7
DT
DT
6
6
0.044
0.006
1.496
1.540
N
model building
X-PLOR
refinement
X-PLOR
phasing
X-PLOR
DNA QUADRUPLEX CONTAINING GCGC TETRAD, NMR, 4 STRUCTURES
1
N
N
1
N
N
hydrog
TYPE_6_PAIR
A
DG
1
A
N7
DG
1
1_555
A
DG
11
A
N2
DG
11
1_555
hydrog
TYPE_6_PAIR
A
DG
1
A
O6
DG
1
1_555
A
DG
11
A
N1
DG
11
1_555
hydrog
TYPE_6_PAIR
A
DG
1
A
N1
DG
1
1_555
B
DG
4
B
O6
DG
4
1_555
hydrog
TYPE_6_PAIR
A
DG
1
A
N2
DG
1
1_555
B
DG
4
B
N7
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
A
DG
10
A
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
A
DG
10
A
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
A
DG
10
A
N2
DG
10
1_555
hydrog
DC-DG PAIR
A
DC
2
A
N4
DC
2
1_555
B
DG
3
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
A
DC
9
A
N3
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
A
DC
9
A
O2
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
A
DC
9
A
N4
DC
9
1_555
hydrog
DG-DC PAIR
A
DG
3
A
O6
DG
3
1_555
B
DC
2
B
N4
DC
2
1_555
hydrog
TYPE_6_PAIR
A
DG
4
A
N1
DG
4
1_555
A
DG
8
A
O6
DG
8
1_555
hydrog
TYPE_6_PAIR
A
DG
4
A
N2
DG
4
1_555
A
DG
8
A
N7
DG
8
1_555
hydrog
DG-DC PAIR
A
DG
4
A
N1
DG
4
1_555
A
DC
9
A
N3
DC
9
1_555
hydrog
TYPE_6_PAIR
A
DG
4
A
N7
DG
4
1_555
B
DG
1
B
N2
DG
1
1_555
hydrog
TYPE_6_PAIR
A
DG
4
A
O6
DG
4
1_555
B
DG
1
B
N1
DG
1
1_555
hydrog
TYPE_6_PAIR
A
DG
8
A
N1
DG
8
1_555
B
DG
11
B
O6
DG
11
1_555
hydrog
TYPE_6_PAIR
A
DG
8
A
N2
DG
8
1_555
B
DG
11
B
N7
DG
11
1_555
hydrog
DC-DG PAIR
A
DC
9
A
N4
DC
9
1_555
B
DG
10
B
O6
DG
10
1_555
hydrog
DG-DC PAIR
A
DG
10
A
O6
DG
10
1_555
B
DC
9
B
N4
DC
9
1_555
hydrog
TYPE_6_PAIR
A
DG
11
A
N7
DG
11
1_555
B
DG
8
B
N2
DG
8
1_555
hydrog
TYPE_6_PAIR
A
DG
11
A
O6
DG
11
1_555
B
DG
8
B
N1
DG
8
1_555
hydrog
TYPE_6_PAIR
B
DG
1
B
N7
DG
1
1_555
B
DG
11
B
N2
DG
11
1_555
hydrog
TYPE_6_PAIR
B
DG
1
B
O6
DG
1
1_555
B
DG
11
B
N1
DG
11
1_555
hydrog
WATSON-CRICK
B
DC
2
B
N3
DC
2
1_555
B
DG
10
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
B
DC
2
B
N4
DC
2
1_555
B
DG
10
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
B
DC
2
B
O2
DC
2
1_555
B
DG
10
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
B
DG
3
B
N1
DG
3
1_555
B
DC
9
B
N3
DC
9
1_555
hydrog
WATSON-CRICK
B
DG
3
B
N2
DG
3
1_555
B
DC
9
B
O2
DC
9
1_555
hydrog
WATSON-CRICK
B
DG
3
B
O6
DG
3
1_555
B
DC
9
B
N4
DC
9
1_555
hydrog
TYPE_6_PAIR
B
DG
4
B
N1
DG
4
1_555
B
DG
8
B
O6
DG
8
1_555
hydrog
TYPE_6_PAIR
B
DG
4
B
N2
DG
4
1_555
B
DG
8
B
N7
DG
8
1_555
hydrog
DG-DC PAIR
B
DG
4
B
N1
DG
4
1_555
B
DC
9
B
N3
DC
9
1_555
DNA
DEOXYRIBONUCLEIC ACID, DNA QUADRUPLEX, FRAGILE X SYNDROME, D(CGG) TRIPLET REPEAT, GCGC TETRADS, DNA
1A6H
PDB
1
1A6H
1
11
1A6H
1
11
1A6H
A
1
1
11
1
11
1A6H
1
11
1A6H
B
1
1
11
1
P 1