1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Zheng, M.
Han, X.
Gao, X.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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
To be Published
0353
Strand polarity of trinucleotide repeat sequences:
NMR studies of parallel/anti-pararell duplex,{d(GAC)3}2
10.2210/pdb1np5/pdb
pdb_00001np5
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
2749.826
5'-D(*GP*AP*CP*GP*AP*CP*GP*AP*C)-3'
2
syn
polymer
no
no
(DG)(DA)(DC)(DG)(DA)(DC)(DG)(DA)(DC)
GACGACGAC
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
-22.889
12
4
A
1
B
101
-179.998
A_DG1:DG101_B
1
-19.562
-3.205
-0.001
-7.847
-7.337
8
2
A
2
B
102
-179.993
A_DA2:DA102_B
2
19.030
-7.098
0.001
4.087
7.250
2
15
A
3
B
103
179.996
A_DC3:DC103_B
3
22.036
1.888
0.000
2.009
7.680
12
4
A
4
B
104
-179.999
A_DG4:DG104_B
4
-38.789
-3.486
0.000
-7.631
-12.959
8
2
A
5
B
105
-179.998
A_DA5:DA105_B
5
24.679
-6.298
0.000
4.673
-0.065
2
15
A
6
B
106
-179.996
A_DC6:DC106_B
6
-7.635
-2.040
0.000
-1.544
-24.869
12
4
A
7
B
107
179.996
A_DG7:DG107_B
7
37.158
3.370
0.000
7.490
32.920
7
2
A
8
B
108
180.000
A_DA8:DA108_B
8
-32.699
5.909
0.000
-4.869
4.240
2
15
A
9
B
109
-179.986
A_DC9:DC109_B
9
32.862
-1.573
0.000
-1.527
3.977
-1.385
A
A
1
2
-0.082
B
B
101
102
3.977
0.002
0.000
-0.001
AA_DG1DA2:DA102DG101_BB
1
0.000
-0.011
-1.385
-0.208
-0.022
2.416
-108.394
A
A
2
3
-0.014
B
B
102
103
2.416
0.023
0.000
0.000
AA_DA2DC3:DC103DA102_BB
2
0.004
0.003
-108.394
0.000
0.000
3.384
-118.820
A
A
3
4
-0.002
B
B
103
104
3.384
0.004
0.000
-0.001
AA_DC3DG4:DG104DC103_BB
3
0.014
0.008
-118.820
0.000
0.000
4.819
-8.935
A
A
4
5
-0.022
B
B
104
105
4.819
0.003
0.000
0.000
AA_DG4DA5:DA105DG104_BB
4
0.001
0.004
-8.935
-0.012
0.004
2.694
69.618
A
A
5
6
-0.006
B
B
105
106
2.694
-0.007
0.000
0.000
AA_DA5DC6:DC106DA105_BB
5
0.008
-0.007
69.618
0.000
0.000
2.852
-117.530
A
A
6
7
-0.003
B
B
106
107
2.852
0.005
0.000
0.000
AA_DC6DG7:DG107DC106_BB
6
-0.008
-0.005
-117.530
0.000
0.000
4.968
-10.452
A
A
7
8
0.027
B
B
107
108
4.968
-0.005
0.000
0.000
AA_DG7DA8:DA108DG107_BB
7
0.005
0.025
-10.452
0.012
0.011
3.131
-111.290
A
A
8
9
-0.003
B
B
108
109
3.131
0.006
0.000
0.000
AA_DA8DC9:DC109DA108_BB
8
-0.006
-0.003
-111.290
0.000
0.000
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-02-11
1
1
2008-04-29
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
RCSB
Y
RCSB
2003-01-17
REL
REL
This sequence is found in triplet repeat expansion involving neurogenetic diseases.
sample
This structure was determined using standard 2D homonuclear techniques
structures with the least restraint violations
10
1
2D NOESY
2D TOCSY
DQF-COSY
COSY-35
1H-31P COSY
4.7
ambient
273
K
distance geometry, restraint molecular dynamics
1
minimized average structure
2 mM 5'-d(GACGACGAC), 0.1 M NaCl, 10 mM Sodium Phosphate, 0.1 mM EDTA
90 % H20, 10 % D2O
Bruker
processing
UXNMR
940101
Accelrys
processing
Felix
95
Brunger
structure solution
X-PLOR
3.01
Borgias, B.A.
refinement
MARDIGRAS
3.0
600
Bruker
AMX
G
1
n
1
DG
1
A
A
2
n
2
DA
2
A
C
3
n
3
DC
3
A
G
4
n
4
DG
4
A
A
5
n
5
DA
5
A
C
6
n
6
DC
6
A
G
7
n
7
DG
7
A
A
8
n
8
DA
8
A
C
9
n
9
DC
9
A
G
101
n
1
DG
101
B
A
102
n
2
DA
102
B
C
103
n
3
DC
103
B
G
104
n
4
DG
104
B
A
105
n
5
DA
105
B
C
106
n
6
DC
106
B
G
107
n
7
DG
107
B
A
108
n
8
DA
108
B
C
109
n
9
DC
109
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
A
B
OP1
H21
DA
DG
2
101
1.48
1
A
B
H21
OP1
DG
DA
1
102
1.48
1
A
A
H2'
O4'
DA
DC
8
9
1.54
1
B
B
H2'
O4'
DA
DC
108
109
1.54
1
A
DA
2
0.071
SIDE CHAIN
1
A
DA
5
0.055
SIDE CHAIN
1
B
DA
102
0.071
SIDE CHAIN
1
B
DA
105
0.055
SIDE CHAIN
1
2.72
0.30
108.30
111.02
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
4.64
0.50
113.10
117.74
A
A
A
N7
C8
N9
DG
DG
DG
1
1
1
N
1
-2.98
0.40
106.40
103.42
A
A
A
C8
N9
C4
DG
DG
DG
1
1
1
N
1
4.31
0.30
108.30
112.61
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
1
4.13
0.50
113.80
117.93
A
A
A
N7
C8
N9
DA
DA
DA
2
2
2
N
1
2.32
0.30
108.30
110.62
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
4.77
0.50
113.10
117.87
A
A
A
N7
C8
N9
DG
DG
DG
4
4
4
N
1
-2.54
0.40
106.40
103.86
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
1
3.19
0.30
108.30
111.49
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
1
3.93
0.50
113.80
117.73
A
A
A
N7
C8
N9
DA
DA
DA
5
5
5
N
1
2.53
0.30
108.30
110.83
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
1
4.84
0.50
113.10
117.94
A
A
A
N7
C8
N9
DG
DG
DG
7
7
7
N
1
-2.49
0.40
106.40
103.91
A
A
A
C8
N9
C4
DG
DG
DG
7
7
7
N
1
3.73
0.50
113.80
117.53
A
A
A
N7
C8
N9
DA
DA
DA
8
8
8
N
1
2.85
0.30
108.30
111.15
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
2.76
0.30
108.30
111.06
B
B
B
O4'
C1'
N9
DG
DG
DG
101
101
101
N
1
4.69
0.50
113.10
117.79
B
B
B
N7
C8
N9
DG
DG
DG
101
101
101
N
1
-3.03
0.40
106.40
103.37
B
B
B
C8
N9
C4
DG
DG
DG
101
101
101
N
1
4.28
0.30
108.30
112.58
B
B
B
O4'
C1'
N9
DA
DA
DA
102
102
102
N
1
4.09
0.50
113.80
117.89
B
B
B
N7
C8
N9
DA
DA
DA
102
102
102
N
1
2.07
0.30
108.30
110.37
B
B
B
O4'
C1'
N1
DC
DC
DC
103
103
103
N
1
2.33
0.30
108.30
110.63
B
B
B
O4'
C1'
N9
DG
DG
DG
104
104
104
N
1
4.73
0.50
113.10
117.83
B
B
B
N7
C8
N9
DG
DG
DG
104
104
104
N
1
-2.52
0.40
106.40
103.88
B
B
B
C8
N9
C4
DG
DG
DG
104
104
104
N
1
3.18
0.30
108.30
111.48
B
B
B
O4'
C1'
N9
DA
DA
DA
105
105
105
N
1
3.97
0.50
113.80
117.77
B
B
B
N7
C8
N9
DA
DA
DA
105
105
105
N
1
2.46
0.30
108.30
110.76
B
B
B
O4'
C1'
N9
DG
DG
DG
107
107
107
N
1
4.84
0.50
113.10
117.94
B
B
B
N7
C8
N9
DG
DG
DG
107
107
107
N
1
-2.47
0.40
106.40
103.93
B
B
B
C8
N9
C4
DG
DG
DG
107
107
107
N
1
3.68
0.50
113.80
117.48
B
B
B
N7
C8
N9
DA
DA
DA
108
108
108
N
1
3.02
0.30
108.30
111.32
B
B
B
O4'
C1'
N1
DC
DC
DC
109
109
109
N
minimized average
(GAC)3 parallel duplex
1
N
N
1
N
N
hydrog
TYPE_4_PAIR
A
DG
1
A
N2
DG
1
1_555
B
DG
101
B
N3
DG
1
1_555
hydrog
TYPE_4_PAIR
A
DG
1
A
N3
DG
1
1_555
B
DG
101
B
N2
DG
1
1_555
hydrog
TYPE_2_PAIR
A
DA
2
A
N6
DA
2
1_555
B
DA
102
B
N7
DA
2
1_555
hydrog
TYPE_2_PAIR
A
DA
2
A
N7
DA
2
1_555
B
DA
102
B
N6
DA
2
1_555
hydrog
TYPE_15_PAIR
A
DC
3
A
N4
DC
3
1_555
B
DC
103
B
O2
DC
3
1_555
hydrog
TYPE_15_PAIR
A
DC
3
A
O2
DC
3
1_555
B
DC
103
B
N4
DC
3
1_555
hydrog
TYPE_4_PAIR
A
DG
4
A
N2
DG
4
1_555
B
DG
104
B
N3
DG
4
1_555
hydrog
TYPE_4_PAIR
A
DG
4
A
N3
DG
4
1_555
B
DG
104
B
N2
DG
4
1_555
hydrog
TYPE_2_PAIR
A
DA
5
A
N6
DA
5
1_555
B
DA
105
B
N7
DA
5
1_555
hydrog
TYPE_2_PAIR
A
DA
5
A
N7
DA
5
1_555
B
DA
105
B
N6
DA
5
1_555
hydrog
TYPE_15_PAIR
A
DC
6
A
N4
DC
6
1_555
B
DC
106
B
O2
DC
6
1_555
hydrog
TYPE_15_PAIR
A
DC
6
A
O2
DC
6
1_555
B
DC
106
B
N4
DC
6
1_555
hydrog
TYPE_4_PAIR
A
DG
7
A
N2
DG
7
1_555
B
DG
107
B
N3
DG
7
1_555
hydrog
TYPE_4_PAIR
A
DG
7
A
N3
DG
7
1_555
B
DG
107
B
N2
DG
7
1_555
hydrog
TYPE_2_PAIR
A
DA
8
A
N6
DA
8
1_555
B
DA
108
B
N7
DA
8
1_555
hydrog
TYPE_2_PAIR
A
DA
8
A
N7
DA
8
1_555
B
DA
108
B
N6
DA
8
1_555
hydrog
TYPE_15_PAIR
A
DC
9
A
N4
DC
9
1_555
B
DC
109
B
O2
DC
9
1_555
hydrog
TYPE_15_PAIR
A
DC
9
A
O2
DC
9
1_555
B
DC
109
B
N4
DC
9
1_555
DNA
DNA trinucleotide repeat, parallel duplex, homo-basepair mismatch, NMR solution structure, DNA
1NP5
PDB
1
1NP5
1
9
1NP5
1
9
1NP5
A
1
1
9
101
109
1NP5
101
109
1NP5
B
1
1
9