0.034371
0.000000
0.000000
0.000000
0.018970
0.000000
0.000000
0.000000
0.024886
0.000000
0.000000
0.000000
Yang, X.-L.
Robinson, H.
Gao, Y.-G.
Wang, A.H.-J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.00
90.00
90.00
29.094
52.714
40.183
C14 H8 O2
208.212
1,4-BIS-[2-(2-HYDROXY-ETHYLAMINO)-ETHYLAMINO]-ANTHRAQUINONE
non-polymer
Co 2
58.933
COBALT (II) 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
Mg 2
24.305
MAGNESIUM ION
non-polymer
US
Biochemistry
BICHAW
0033
0006-2960
39
10950
10957
10.1021/bi001319z
10998231
Binding of a macrocyclic bisacridine and ametantrone to CGTACG involves similar unusual intercalation platforms.
2000
10.2210/pdb1fdg/pdb
pdb_00001fdg
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
110
1
CCD
1999-08-28
CUSTOM-MADE
SINGLE WAVELENGTH
M
x-ray
1
0.7251
1.0
19-ID
APS
0.7251
SYNCHROTRON
APS BEAMLINE 19-ID
1809.217
DNA (5'-D(*CP*GP*TP*AP*CP*G)-3')
2
syn
polymer
58.933
COBALT (II) ION
2
syn
non-polymer
208.212
1,4-BIS-[2-(2-HYDROXY-ETHYLAMINO)-ETHYLAMINO]-ANTHRAQUINONE
1
syn
non-polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
27
nat
water
no
no
(DC)(DG)(DT)(DA)(DC)(DG)
CGTACG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
1
2.04
39.67
VAPOR DIFFUSION, SITTING DROP
6.0
MPD, sodium cacodylate buffer, magnesium chloride, cobalt chloride, spermine, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
298
-8.667
1
19
A
2
B
11
2.134
A_DG2:DC11_B
1
4.576
-0.328
-0.128
-0.142
1.843
1
20
A
3
B
10
2.866
A_DT3:DA10_B
2
-0.724
0.209
0.082
-0.057
-2.735
1
20
A
4
B
9
-0.944
A_DA4:DT9_B
3
0.947
0.388
-0.358
-0.080
14.681
1
19
A
5
B
8
-0.544
A_DC5:DG8_B
4
-5.606
0.177
0.026
0.077
3.056
27.852
A
A
2
3
8.655
B
B
11
10
3.141
4.145
-0.093
-0.317
AA_DG2DT3:DA10DC11_BB
1
-2.645
5.524
27.423
-1.604
-0.411
3.312
35.995
A
A
3
4
4.729
B
B
10
9
3.382
2.915
-0.200
-0.330
AA_DT3DA4:DT9DA10_BB
2
3.548
-5.756
35.711
-0.960
0.842
2.569
28.491
A
A
4
5
7.004
B
B
9
8
2.939
3.412
0.847
-0.839
AA_DA4DC5:DG8DT9_BB
3
-6.244
12.817
27.606
-2.372
-2.942
database_2
pdbx_entity_src_syn
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Source and taxonomy
1
0
2000-08-07
1
1
2008-04-27
1
2
2011-07-13
1
3
2022-09-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr2_auth_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Bisacridine/CGTACG complex in same crystal lattice
RCSB
Y
RCSB
2000-07-20
REL
REL
CO
COBALT (II) ION
9TA
1,4-BIS-[2-(2-HYDROXY-ETHYLAMINO)-ETHYLAMINO]-ANTHRAQUINONE
MG
MAGNESIUM ION
HOH
water
synthetic DNA moleclue
32630
synthetic construct
sample
CO5
21
2
CO
CO
21
A
TMR
13
3
9TA
9TA
13
B
MG2
23
4
MG
MG
23
B
NCO
22
2
CO
CO
22
B
HOH
101
5
HOH
HOH
101
A
HOH
104
5
HOH
HOH
104
A
HOH
105
5
HOH
HOH
105
A
HOH
107
5
HOH
HOH
107
A
HOH
108
5
HOH
HOH
108
A
HOH
109
5
HOH
HOH
109
A
HOH
113
5
HOH
HOH
113
A
HOH
114
5
HOH
HOH
114
A
HOH
119
5
HOH
HOH
119
A
HOH
120
5
HOH
HOH
120
A
CO5
21
5
HOH
HOH
123
A
CO5
21
5
HOH
HOH
124
A
CO5
21
5
HOH
HOH
125
A
CO5
21
5
HOH
HOH
126
A
CO5
21
5
HOH
HOH
127
A
HOH
102
5
HOH
HOH
102
B
HOH
103
5
HOH
HOH
103
B
HOH
106
5
HOH
HOH
106
B
HOH
110
5
HOH
HOH
110
B
HOH
111
5
HOH
HOH
111
B
HOH
112
5
HOH
HOH
112
B
HOH
115
5
HOH
HOH
115
B
HOH
116
5
HOH
HOH
116
B
HOH
117
5
HOH
HOH
117
B
HOH
118
5
HOH
HOH
118
B
NCO
22
5
HOH
HOH
121
B
NCO
22
5
HOH
HOH
122
B
C
1
n
1
DC
1
A
G
2
n
2
DG
2
A
T
3
n
3
DT
3
A
A
4
n
4
DA
4
A
C
5
n
5
DC
5
A
G
6
n
6
DG
6
A
C
7
n
1
DC
7
B
G
8
n
2
DG
8
B
T
9
n
3
DT
9
B
A
10
n
4
DA
10
B
C
11
n
5
DC
11
B
G
12
n
6
DG
12
B
author_defined_assembly
2
dimeric
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
123
G
O
HOH
1_555
87.9
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
124
G
O
HOH
1_555
92.6
A
HOH
123
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
124
G
O
HOH
1_555
90.1
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
125
G
O
HOH
1_555
87.3
A
HOH
123
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
125
G
O
HOH
1_555
89.6
A
HOH
124
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
125
G
O
HOH
1_555
179.7
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
126
G
O
HOH
1_555
90.4
A
HOH
123
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
126
G
O
HOH
1_555
178.3
A
HOH
124
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
126
G
O
HOH
1_555
90.0
A
HOH
125
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
126
G
O
HOH
1_555
90.3
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
127
G
O
HOH
1_555
176.9
A
HOH
123
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
127
G
O
HOH
1_555
90.9
A
HOH
124
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
127
G
O
HOH
1_555
90.2
A
HOH
125
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
127
G
O
HOH
1_555
89.8
A
HOH
126
G
O
HOH
1_555
A
CO
21
C
CO
CO
1_555
A
HOH
127
G
O
HOH
1_555
90.8
B
DG
12
B
N7
DG
6
1_555
B
CO
22
F
CO
CO
1_555
B
HOH
121
H
O
HOH
1_555
88.5
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
MG
23
E
MG
1
B
CO
22
F
CO
1
A
O5'
DC
1
A
O5'
DC
1
1
Y
1
A
C5'
DC
1
A
C5'
DC
1
1
Y
1
A
C4'
DC
1
A
C4'
DC
1
1
Y
1
A
O4'
DC
1
A
O4'
DC
1
1
Y
1
A
C3'
DC
1
A
C3'
DC
1
1
Y
1
A
C2'
DC
1
A
C2'
DC
1
1
Y
1
A
C1'
DC
1
A
C1'
DC
1
1
Y
1
A
N1
DC
1
A
N1
DC
1
1
Y
1
A
C2
DC
1
A
C2
DC
1
1
Y
1
A
O2
DC
1
A
O2
DC
1
1
Y
1
A
N3
DC
1
A
N3
DC
1
1
Y
1
A
C4
DC
1
A
C4
DC
1
1
Y
1
A
N4
DC
1
A
N4
DC
1
1
Y
1
A
C5
DC
1
A
C5
DC
1
1
Y
1
A
C6
DC
1
A
C6
DC
1
1
Y
1
B
B
CO
O
CO
HOH
22
122
1.46
1
B
B
O
O
HOH
HOH
121
122
2.18
1
A
DG
2
0.068
SIDE CHAIN
1
A
DG
6
0.059
SIDE CHAIN
1
B
DG
12
0.050
SIDE CHAIN
1
3.08
0.50
110.60
113.68
A
A
A
C2
N3
C4
DA
DA
DA
4
4
4
N
1
3.81
0.60
118.90
122.71
B
B
B
N1
C2
O2
DC
DC
DC
11
11
11
N
1
-5.17
0.60
119.90
114.73
B
B
B
N1
C6
O6
DG
DG
DG
12
12
12
N
0.3140000
0.2490000
0.2640000
1.6
20
166
4028
3272
random
1
4
2
G.PARKINSON, J.VOJTECHOVSKY, L.CLOWNEY, A.T.BRUNGER, H.M.BERMAN
1.6
20
20
271
26
225
0
0.008
1.7
28.3
1.6
80
1FDG
57036
57036
0
0
0.0520000
1
32.5
6.8
99.2
0.5230000
1.60
1.66
423
7.2
99.5
phasing
AMoRE
refinement
SHELXL-97
data reduction
d*TREK
data scaling
HKL-2000
BINDING OF A MACROCYCLIC BISACRIDINE AND AMETANTRONE TO CGTACG INVOLVES SIMILAR UNUSUAL INTERCALATION PLATFORMS (AMETANTRONE COMPLEX)
1
N
N
1
N
N
2
N
N
3
N
N
4
N
N
2
N
N
5
N
N
5
N
N
metalc
2.203
A
DG
2
A
N7
DG
2
1_555
A
CO
21
C
CO
CO
1_555
metalc
1.988
A
CO
21
C
CO
CO
1_555
A
HOH
123
G
O
HOH
1_555
metalc
1.995
A
CO
21
C
CO
CO
1_555
A
HOH
124
G
O
HOH
1_555
metalc
2.001
A
CO
21
C
CO
CO
1_555
A
HOH
125
G
O
HOH
1_555
metalc
1.994
A
CO
21
C
CO
CO
1_555
A
HOH
126
G
O
HOH
1_555
metalc
1.996
A
CO
21
C
CO
CO
1_555
A
HOH
127
G
O
HOH
1_555
metalc
2.159
B
DG
12
B
N7
DG
6
1_555
B
CO
22
F
CO
CO
1_555
metalc
1.792
B
CO
22
F
CO
CO
1_555
B
HOH
121
H
O
HOH
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
11
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
11
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
11
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
A
DT
3
A
N3
DT
3
1_555
B
DA
10
B
N1
DA
4
1_555
hydrog
WATSON-CRICK
A
DT
3
A
O4
DT
3
1_555
B
DA
10
B
N6
DA
4
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
B
DT
9
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
B
DT
9
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
8
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
8
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
8
B
N2
DG
2
1_555
DNA
High resolution crystal structure, intercalation platform, MAD, anticancer drug, drug-DNA complex, metal ions, tertiary base pairs, DNA
1FDG
PDB
1
1FDG
1
6
1FDG
1
6
1FDG
A
1
1
6
7
12
1FDG
7
12
1FDG
B
1
1
6
BINDING SITE FOR RESIDUE 9TA B 13
B
9TA
13
Software
7
BINDING SITE FOR RESIDUE MG B 23
B
MG
23
Software
2
BINDING SITE FOR RESIDUE CO B 22
B
CO
22
Software
6
BINDING SITE FOR RESIDUE CO A 21
A
CO
21
Software
6
A
DC
5
A
DC
5
7
2_655
A
DC
5
A
DC
5
7
1_555
A
DG
6
A
DG
6
7
1_555
A
DG
6
A
DG
6
7
2_655
B
DG
8
B
DG
2
7
2_655
B
DG
8
B
DG
2
7
1_555
B
HOH
116
H
HOH
7
3_656
B
DG
8
B
DG
2
2
4_556
B
DG
8
B
DG
2
2
1_555
B
DG
12
B
DG
6
6
1_555
B
DG
12
B
DG
6
6
3_755
B
HOH
121
H
HOH
6
1_555
B
HOH
121
H
HOH
6
3_755
B
HOH
122
H
HOH
6
1_555
B
HOH
122
H
HOH
6
3_755
A
DG
2
A
DG
2
6
1_555
A
HOH
123
G
HOH
6
1_555
A
HOH
124
G
HOH
6
1_555
A
HOH
125
G
HOH
6
1_555
A
HOH
126
G
HOH
6
1_555
A
HOH
127
G
HOH
6
1_555
21
C 2 2 2