1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Nonin, S.
Tuan, A.P.
Leroy, J.L.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
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 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N3 O4
241.244
n
5-METHYL-2'-DEOXYCYTIDINE
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
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
N
83
N
N
N
84
N
C
N
85
N
O
N
86
N
N
N
87
N
C
N
88
N
O
N
89
N
C
N
90
N
C
N
91
N
C
N
92
N
H
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
N
N
108
N
C
N
109
N
N
N
110
N
C
N
111
N
C
N
112
N
C
N
113
N
O
N
114
N
N
N
115
R
C
N
116
N
C
N
117
S
C
N
118
R
C
N
119
N
O
N
120
N
O
N
121
N
C
N
122
N
O
N
123
N
C
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
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
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
N
97
N
sing
N
98
N
sing
N
99
N
doub
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
doub
N
107
N
sing
N
108
N
sing
N
109
N
sing
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
doub
N
117
N
sing
N
118
N
sing
N
119
N
doub
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
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
UK
Structure
STRUE6
2005
0969-2126
5
1231
1246
10.1016/S0969-2126(97)00273-6
9331414
Solution structure and base pair opening kinetics of the i-motif dimer of d(5mCCTTTACC): a noncanonical structure with possible roles in chromosome stability.
1997
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
261
399
414
10.1006/jmbi.1996.0472
8780782
Structure and Conversion Kinetics of a Bi-Stable DNA I-Motif: Broken Symmetry in the [D(5Mcctcc)]4 Tetramer
1996
UK
Structure
STRUE6
2005
0969-2126
3
101
120
7743125
Solution Structures of the I-Motif Tetramers of D(Tcc), D(5Methylcct) and D(T5Methylcc): Novel Noe Connections between Amino Protons and Sugar Protons
1995
10.2210/pdb1bae/pdb
pdb_00001bae
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
I-MOTIF DIMER FORMED BY TWO D(5MCCTTTACC) STRANDS
2271.602
DNA (5'-D(*MCYP*CP*TP*TP*TP*AP*CP*C)-3')
2
syn
polymer
no
yes
(MCY)(DC)(DT)(DT)(DT)(DA)(DC)(DC)
CCTTTACC
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
11.839
2
15
A
2
B
8
179.963
A_DC2:DC8_B
1
-2.758
2.186
0.095
1.775
-9.671
2
15
B
1
A
7
178.921
B_MCY1:DC7_A
2
-13.582
2.225
-0.098
1.921
-9.665
2
15
A
1
B
7
178.921
A_MCY1:DC7_B
3
-13.591
2.226
-0.100
1.920
11.821
2
15
B
2
A
8
179.935
B_DC2:DC8_A
4
-2.728
2.186
0.093
1.777
-0.772
-177.884
A
B
2
1
51.189
B
A
8
7
-0.207
-102.106
-3.138
1.976
AB_DC2MCY1:DC7DC8_AB
1
-142.058
-71.218
-130.470
-1.051
-1.482
0.000
-179.975
B
A
1
1
63.294
A
B
7
7
0.028
-126.588
1.364
-2.259
BA_MCY1MCY1:DC7DC7_BA
2
-127.174
-63.587
-174.831
1.130
0.682
0.772
177.914
A
B
1
2
51.157
B
A
7
8
0.220
102.053
3.134
-1.978
AB_MCY1DC2:DC8DC7_AB
3
142.062
-71.213
131.513
-1.051
-1.481
citation
ndb_struct_conf_na
pdbx_database_status
pdbx_entity_src_syn
pdbx_nmr_ensemble
pdbx_nmr_exptl
pdbx_nmr_exptl_sample
pdbx_nmr_exptl_sample_conditions
pdbx_nmr_representative
pdbx_nmr_sample_details
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_assembly_prop
pdbx_struct_oper_list
chem_comp_atom
chem_comp_bond
database_2
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Experimental preparation
Other
Source and taxonomy
Data collection
Database references
Derived calculations
1
0
1998-01-14
1
1
2008-03-24
1
2
2011-07-13
1
3
2018-03-14
1
4
2024-04-10
_citation.page_last
_citation.pdbx_database_id_DOI
_citation.pdbx_database_id_PubMed
_pdbx_database_status.process_site
_pdbx_nmr_ensemble.conformer_selection_criteria
_pdbx_nmr_exptl_sample_conditions.label
_pdbx_nmr_exptl_sample_conditions.pH_units
_pdbx_nmr_exptl_sample_conditions.pressure
_pdbx_nmr_software.authors
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
Y
BNL
1997-07-28
REL
32630
synthetic construct
sample
structures with the least restraint violations
50
1
NOESY
NOESY
TOCSY
8
mM
8
mM
1
4.3
pH
ambient
270
K
simulated annealing
1
fewest violations
8 mM d(5mCCTTTACC)
sample_1
90% H2O/10% D2O
solution
8 mM d(5mCCTTTACC)
sample_2
99.99%
solution
BRUNGER
refinement
X-PLOR
3.1
BRUNGER
structure solution
X-PLOR
3.1
360
Home-built
HOME BUILT
600
Bruker
AMX
MCY
1
n
1
MCY
1
A
C
2
n
2
DC
2
A
T
3
n
3
DT
3
A
T
4
n
4
DT
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
MCY
1
n
1
MCY
1
B
C
2
n
2
DC
2
B
T
3
n
3
DT
3
B
T
4
n
4
DT
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
author_defined_assembly
2
dimeric
650
-6
2890
A
MCY
1
5-METHYL-2'-DEOXYCYTIDINE
A
MCY
1
DC
B
MCY
1
5-METHYL-2'-DEOXYCYTIDINE
B
MCY
1
DC
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
identity operation
0.0000000000
0.0000000000
0.0000000000
1
2.28
0.30
108.30
110.58
A
A
A
O4'
C1'
N1
DC
DC
DC
2
2
2
N
1
2.67
0.30
108.30
110.97
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
1
2.16
0.30
108.30
110.46
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
2.96
0.30
108.30
111.26
A
A
A
O4'
C1'
N1
DT
DT
DT
5
5
5
N
1
2.57
0.30
108.30
110.87
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
4.00
0.50
113.80
117.80
A
A
A
N7
C8
N9
DA
DA
DA
6
6
6
N
1
1.90
0.30
108.30
110.20
A
A
A
O4'
C1'
N1
DC
DC
DC
7
7
7
N
1
2.44
0.30
108.30
110.74
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
1
2.32
0.30
108.30
110.62
B
B
B
O4'
C1'
N1
DC
DC
DC
2
2
2
N
1
2.69
0.30
108.30
110.99
B
B
B
O4'
C1'
N1
DT
DT
DT
3
3
3
N
1
2.14
0.30
108.30
110.44
B
B
B
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
3.04
0.30
108.30
111.34
B
B
B
O4'
C1'
N1
DT
DT
DT
5
5
5
N
1
2.60
0.30
108.30
110.90
B
B
B
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
3.97
0.50
113.80
117.77
B
B
B
N7
C8
N9
DA
DA
DA
6
6
6
N
1
1.86
0.30
108.30
110.16
B
B
B
O4'
C1'
N1
DC
DC
DC
7
7
7
N
1
2.44
0.30
108.30
110.74
B
B
B
O4'
C1'
N1
DC
DC
DC
8
8
8
N
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
phasing
X-PLOR
3.1
STRUCTURE OF DNA (5'-D 5MCCTTTACC-3')2, NMR, 1 STRUCTURE
1
N
N
1
N
N
covale
1.612
both
A
MCY
1
A
O3'
MCY
1
1_555
A
DC
2
A
P
DC
2
1_555
covale
1.613
both
B
MCY
1
B
O3'
MCY
1
1_555
B
DC
2
B
P
DC
2
1_555
hydrog
TYPE_15_PAIR
A
MCY
1
A
N4
MCY
1
1_555
B
DC
7
B
O2
DC
7
1_555
hydrog
TYPE_15_PAIR
A
MCY
1
A
O2
MCY
1
1_555
B
DC
7
B
N4
DC
7
1_555
hydrog
TYPE_15_PAIR
A
DC
2
A
N4
DC
2
1_555
B
DC
8
B
O2
DC
8
1_555
hydrog
TYPE_15_PAIR
A
DC
2
A
O2
DC
2
1_555
B
DC
8
B
N4
DC
8
1_555
hydrog
TYPE_15_PAIR
A
DC
7
A
N4
DC
7
1_555
B
MCY
1
B
O2
MCY
1
1_555
hydrog
TYPE_15_PAIR
A
DC
7
A
O2
DC
7
1_555
B
MCY
1
B
N4
MCY
1
1_555
hydrog
TYPE_15_PAIR
A
DC
8
A
N4
DC
8
1_555
B
DC
2
B
O2
DC
2
1_555
hydrog
TYPE_15_PAIR
A
DC
8
A
O2
DC
8
1_555
B
DC
2
B
N4
DC
2
1_555
DNA
DEOXYRIBONUCLEIC ACID, DNA DIMER OF 5MCCTTTACC, I-MOTIF, DIMER, DNA
1BAE
PDB
1
1BAE
1
8
1BAE
1
8
1BAE
A
1
1
8
1
8
1BAE
1
8
1BAE
B
1
1
8
1
P 1