1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Gao, X.
Mirau, P.
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
C7 H14 O4
162.184
2,6-dideoxy-4-O-methyl-alpha-D-galactopyranose
4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE; 2-deoxy-4-O-methyl-alpha-D-fucopyranose; 2,6-dideoxy-4-O-methyl-alpha-D-galactose; 2,6-dideoxy-4-O-methyl-D-galactose; 2,6-dideoxy-4-O-methyl-galactose
D-saccharide, alpha linking
C8 H14 O4
174.194
(2R,3R,6R)-6-hydroxy-2-methyltetrahydro-2H-pyran-3-yl acetate
[O4]-ACETOXY-2,3-DIDEOXYFUCOSE
D-saccharide, beta linking
C6 H12 O3
132.158
(2R,5S,6R)-6-methyltetrahydro-2H-pyran-2,5-diol
2,3-DIDEOXYFUCOSE
D-saccharide, beta linking
C21 H24 O9
420.410
(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose
None
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
C9 H16 O5
204.220
n
3-C-methyl-4-O-acetyl-alpha-L-Olivopyranose
4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L-ARABINO-HEXOPYRANOSE; 3-C-methyl-4-O-acetyl-alpha-L-Olivose; 3-C-methyl-4-O-acetyl-L-Olivose; 3-C-methyl-4-O-acetyl-Olivose
L-saccharide, alpha linking
Mg 2
24.305
MAGNESIUM ION
non-polymer
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
223
259
279
10.1016/0022-2836(92)90730-8
1731073
Structure refinement of the chromomycin dimer-DNA oligomer complex in solution.
1992
10.2210/pdb1d83/pdb
pdb_00001d83
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
2426.617
DNA (5'-D(*AP*AP*GP*GP*CP*CP*TP*T)-3')
2
syn
polymer
432.506
3-C-methyl-4-O-acetyl-alpha-L-Olivopyranose-(1-3)-(2R,5S,6R)-6-methyltetrahydro-2H-pyran-2,5-diol-(1-3)-(2R,5S,6R)-6-methyltetrahydro-2H-pyran-2,5-diol
2
man
branched
318.363
2,6-dideoxy-4-O-methyl-alpha-D-galactopyranose-(1-3)-(2R,3R,6R)-6-hydroxy-2-methyltetrahydro-2H-pyran-3-yl acetate
2
man
branched
420.410
(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose
2
syn
non-polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
DEOXYRIBONUCLEIC ACID
no
no
(DA)(DA)(DG)(DG)(DC)(DC)(DT)(DT)
AAGGCCTT
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
-18.128
1
20
A
1
B
18
-6.534
A_DA1:DT18_B
1
11.369
0.356
-1.256
-0.212
7.583
1
20
A
2
B
17
2.349
A_DA2:DT17_B
2
22.375
0.338
-0.083
0.064
31.514
1
19
A
3
B
16
-9.401
A_DG3:DC16_B
3
12.267
-0.644
0.000
-0.499
9.564
1
19
A
4
B
15
-5.922
A_DG4:DC15_B
4
-5.484
-0.091
1.967
-1.238
-9.968
1
19
A
5
B
14
-5.902
A_DC5:DG14_B
5
-5.292
0.095
1.974
-1.223
-31.815
1
19
A
6
B
13
-9.377
A_DC6:DG13_B
6
12.629
0.685
0.022
-0.470
-7.924
1
20
A
7
B
12
2.336
A_DT7:DA12_B
7
22.780
-0.260
-0.053
0.089
18.221
1
20
A
8
B
11
-6.662
A_DT8:DA11_B
8
11.835
-0.250
-1.256
-0.226
3.207
32.218
A
A
1
2
-26.424
B
B
18
17
3.352
-14.021
0.280
-0.854
AA_DA1DA2:DT17DT18_BB
1
-8.238
15.525
27.907
1.159
-2.090
2.439
23.337
A
A
2
3
13.837
B
B
17
16
2.744
5.534
-0.714
-1.240
AA_DA2DG3:DC16DT17_BB
2
-2.586
6.466
22.535
-4.591
1.051
4.972
36.712
A
A
3
4
-15.592
B
B
16
15
4.966
-9.647
0.892
-1.748
AA_DG3DG4:DC15DC16_BB
3
-7.446
12.036
34.697
-0.711
-3.009
3.344
34.462
A
A
4
5
11.052
B
B
15
14
3.913
6.510
0.001
-2.737
AA_DG4DC5:DG14DC15_BB
4
0.030
-0.051
33.859
-5.753
0.004
4.975
36.698
A
A
5
6
-15.530
B
B
14
13
4.966
-9.606
-0.892
-1.753
AA_DC5DC6:DG13DG14_BB
5
7.404
-11.969
34.701
-0.727
3.002
2.443
23.365
A
A
6
7
13.845
B
B
13
12
2.749
5.544
0.713
-1.238
AA_DC6DT7:DA12DG13_BB
6
2.551
-6.372
22.565
-4.584
-1.059
3.199
32.231
A
A
7
8
-26.550
B
B
12
11
3.346
-14.086
-0.287
-0.860
AA_DT7DT8:DA11DA12_BB
7
8.313
-15.669
27.868
1.154
2.113
atom_site
chem_comp
entity
pdbx_branch_scheme
pdbx_chem_comp_identifier
pdbx_database_status
pdbx_entity_branch
pdbx_entity_branch_descriptor
pdbx_entity_branch_link
pdbx_entity_branch_list
pdbx_entity_nonpoly
pdbx_nonpoly_scheme
pdbx_struct_assembly
pdbx_struct_conn_angle
pdbx_struct_oper_list
pdbx_unobs_or_zero_occ_atoms
struct_asym
struct_conn
struct_site
struct_site_gen
atom_site
chem_comp
database_2
struct_conn
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Version format compliance
Advisory
Atomic model
Data collection
Derived calculations
Other
Structure summary
Atomic model
Database references
Derived calculations
Structure summary
1
0
1993-07-15
1
1
2008-03-24
1
2
2011-07-13
2
0
2020-07-29
3
0
2023-08-02
_atom_site.B_iso_or_equiv
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.auth_asym_id
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.label_asym_id
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_entity_id
_atom_site.type_symbol
_chem_comp.mon_nstd_flag
_chem_comp.name
_chem_comp.type
_pdbx_database_status.process_site
_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.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr2_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.ptnr3_label_atom_id
_pdbx_struct_conn_angle.value
_struct_conn.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_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.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
_atom_site.B_iso_or_equiv
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.auth_atom_id
_atom_site.label_atom_id
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
CDR
24
n
C
CDR
1
CDR
25
n
C
CDR
2
ERI
26
n
C
ERI
3
ARI
32
n
D
ARI
1
BRI
31
n
D
1GL
2
ARI
22
n
E
ARI
1
BRI
21
n
E
1GL
2
CDR
34
n
F
CDR
1
CDR
35
n
F
CDR
2
ERI
36
n
F
ERI
3
a-D-2-deoxy-Fucp4OMe
Y
BNL
1992-07-22
REL
oligosaccharide
oligosaccharide
WURCS=2.0/2,3,2/[ad222m-1b_1-5][ad611m-1a_1-5_3*C_4*OCC/3=O]/1-1-2/a3-b1_b3-c1
2
PDB2Glycan
1.1.0
WURCS
[][b-D-2,6-deoxy-Glcp]{[(3+1)][b-D-2,6-deoxy-Glcp]{[(3+1)][a-L-2,6-deoxy-Glcp4Ac]{}}}
2
PDB-CARE
LINUCS
WURCS=2.0/2,2,1/[ad212m-1b_1-5_4*OCC/3=O][ad112m-1a_1-5_4*OC]/1-2/a3-b1
3
PDB2Glycan
1.1.0
WURCS
[][b-D-2-deoxy-Fucp4Ac]{[(3+1)][a-D-2-deoxy-Fucp4Me]{}}
3
PDB-CARE
LINUCS
C3
O1
CDR
CDR
1
2
2
H3
HO1
sing
C3
O1
CDR
ERI
2
3
2
H3
HO1
sing
C3
O1
ARI
1GL
1
2
3
H3
HO1
sing
n
n
n
n
n
CPH
(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose
MG
MAGNESIUM ION
CHEMICALY SYNTHESIZED
sample
CHROMOMYCIN BINDS AS A MG2 CATION-COORDINATED DIMER. EACH CHROMOMYCIN IS REPRESENTED AS A SET OF SIX HET GROUPS: 1GL - ARI - CPH - CDR - CDR - ERI. THE COORDINATING MG IS PRESENTED AS A SEPARATE HET GROUP.
1
BRUNGER
refinement
X-PLOR
CPH
33
4
CPH
CPH
33
A
MG
1
5
MG
MG
1
B
CPH
23
4
CPH
CPH
23
B
A
1
n
1
DA
1
A
A
2
n
2
DA
2
A
G
3
n
3
DG
3
A
G
4
n
4
DG
4
A
C
5
n
5
DC
5
A
C
6
n
6
DC
6
A
T
7
n
7
DT
7
A
T
8
n
8
DT
8
A
A
11
n
1
DA
11
B
A
12
n
2
DA
12
B
G
13
n
3
DG
13
B
G
14
n
4
DG
14
B
C
15
n
5
DC
15
B
C
16
n
6
DC
16
B
T
17
n
7
DT
17
B
T
18
n
8
DT
18
B
author_defined_assembly
2
dimeric
A
CPH
33
G
O1
CPH
1_555
B
MG
1
H
MG
MG
1_555
A
CPH
33
G
O9
CPH
1_555
76.7
A
CPH
33
G
O1
CPH
1_555
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O1
CPH
1_555
108.8
A
CPH
33
G
O9
CPH
1_555
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O1
CPH
1_555
105.3
A
CPH
33
G
O1
CPH
1_555
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O9
CPH
1_555
109.5
A
CPH
33
G
O9
CPH
1_555
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O9
CPH
1_555
170.1
B
CPH
23
I
O1
CPH
1_555
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O9
CPH
1_555
80.4
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
H22
HO8
DG
CPH
14
23
1.19
1
A
A
H22
HO8
DG
CPH
4
33
1.20
1
A
A
H22
O8
DG
CPH
4
33
1.56
1
B
B
H22
O8
DG
CPH
14
23
1.56
1
A
DA
1
0.098
SIDE CHAIN
1
A
DC
5
0.074
SIDE CHAIN
1
A
DC
6
0.092
SIDE CHAIN
1
B
DA
11
0.099
SIDE CHAIN
1
B
DC
15
0.074
SIDE CHAIN
1
B
DC
16
0.091
SIDE CHAIN
1
5.18
0.70
110.30
115.48
A
A
A
C1'
O4'
C4'
DA
DA
DA
1
1
1
N
1
-8.68
0.80
105.90
97.22
A
A
A
O4'
C1'
C2'
DA
DA
DA
1
1
1
N
1
14.79
0.30
108.30
123.09
A
A
A
O4'
C1'
N9
DA
DA
DA
1
1
1
N
1
4.45
0.50
129.30
133.75
A
A
A
N1
C2
N3
DA
DA
DA
1
1
1
N
1
-5.37
0.50
103.90
98.53
A
A
A
C5
N7
C8
DA
DA
DA
1
1
1
N
1
11.68
0.50
113.80
125.48
A
A
A
N7
C8
N9
DA
DA
DA
1
1
1
N
1
-7.33
0.40
105.80
98.47
A
A
A
C8
N9
C4
DA
DA
DA
1
1
1
N
1
11.76
1.80
126.30
138.06
A
A
A
C4
N9
C1'
DA
DA
DA
1
1
1
N
1
7.45
1.10
109.80
117.25
A
A
A
C5'
C4'
O4'
DA
DA
DA
2
2
2
N
1
-23.91
2.50
109.70
85.79
A
A
A
C4'
C3'
O3'
DA
DA
DA
2
2
2
N
1
8.73
1.40
114.30
123.03
A
A
A
N9
C1'
C2'
DA
DA
DA
2
2
2
N
1
13.49
0.30
108.30
121.79
A
A
A
O4'
C1'
N9
DA
DA
DA
2
2
2
N
1
-5.99
0.60
118.60
112.61
A
A
A
N1
C6
N6
DA
DA
DA
2
2
2
N
1
5.42
0.80
123.70
129.12
A
A
A
C5
C6
N6
DA
DA
DA
2
2
2
N
1
13.75
1.20
119.70
133.45
A
A
A
C3'
O3'
P
DA
DA
DG
2
2
3
Y
1
9.25
1.20
102.50
111.75
A
A
A
C3'
C2'
C1'
DG
DG
DG
3
3
3
N
1
-10.20
0.80
105.90
95.70
A
A
A
O4'
C1'
C2'
DG
DG
DG
3
3
3
N
1
11.89
0.30
108.30
120.19
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
1
-3.09
0.50
104.30
101.21
A
A
A
C5
N7
C8
DG
DG
DG
3
3
3
N
1
6.30
0.50
113.10
119.40
A
A
A
N7
C8
N9
DG
DG
DG
3
3
3
N
1
-5.89
0.40
106.40
100.51
A
A
A
C8
N9
C4
DG
DG
DG
3
3
3
N
1
8.10
1.30
127.00
135.10
A
A
A
C8
N9
C1'
DG
DG
DG
3
3
3
N
1
7.35
1.20
119.70
127.05
A
A
A
C3'
O3'
P
DG
DG
DG
3
3
4
Y
1
3.09
0.50
106.80
109.89
A
A
A
O4'
C1'
C2'
DG
DG
DG
4
4
4
N
1
-15.05
1.90
112.60
97.55
A
A
A
N9
C1'
C2'
DG
DG
DG
4
4
4
N
1
4.46
0.30
108.30
112.76
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
-3.89
0.50
111.90
108.01
A
A
A
C2
N3
C4
DG
DG
DG
4
4
4
N
1
3.03
0.40
110.80
113.83
A
A
A
C4
C5
N7
DG
DG
DG
4
4
4
N
1
3.66
0.50
104.30
107.96
A
A
A
C5
N7
C8
DG
DG
DG
4
4
4
N
1
-5.65
0.50
113.10
107.45
A
A
A
N7
C8
N9
DG
DG
DG
4
4
4
N
1
5.50
0.40
106.40
111.90
A
A
A
C8
N9
C4
DG
DG
DG
4
4
4
N
1
-6.57
0.40
105.40
98.83
A
A
A
N9
C4
C5
DG
DG
DG
4
4
4
N
1
7.10
0.60
126.00
133.10
A
A
A
N3
C4
N9
DG
DG
DG
4
4
4
N
1
-3.52
0.40
104.50
100.98
A
A
A
O4'
C4'
C3'
DC
DC
DC
5
5
5
N
1
-5.44
0.80
105.90
100.46
A
A
A
O4'
C1'
C2'
DC
DC
DC
5
5
5
N
1
11.49
0.30
108.30
119.79
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
1
5.56
0.70
110.30
115.86
A
A
A
C1'
O4'
C4'
DC
DC
DC
6
6
6
N
1
-10.37
0.80
105.90
95.53
A
A
A
O4'
C1'
C2'
DC
DC
DC
6
6
6
N
1
9.59
0.30
108.30
117.89
A
A
A
O4'
C1'
N1
DC
DC
DC
6
6
6
N
1
6.69
0.70
118.00
124.69
A
A
A
N3
C4
N4
DC
DC
DC
6
6
6
N
1
-5.45
0.70
120.20
114.75
A
A
A
C5
C4
N4
DC
DC
DC
6
6
6
N
1
7.64
0.70
110.30
117.94
A
A
A
C1'
O4'
C4'
DT
DT
DT
7
7
7
N
1
-5.11
0.80
105.90
100.79
A
A
A
O4'
C1'
C2'
DT
DT
DT
7
7
7
N
1
9.73
0.30
108.30
118.03
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
-5.01
0.60
119.90
114.89
A
A
A
N3
C4
O4
DT
DT
DT
7
7
7
N
1
5.69
0.70
124.90
130.59
A
A
A
C5
C4
O4
DT
DT
DT
7
7
7
N
1
6.22
0.60
119.00
125.22
A
A
A
C4
C5
C7
DT
DT
DT
7
7
7
N
1
-5.58
0.60
122.90
117.32
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
1
8.15
1.20
115.70
123.85
A
A
A
C5'
C4'
C3'
DT
DT
DT
8
8
8
N
1
21.07
0.30
108.30
129.37
A
A
A
O4'
C1'
N1
DT
DT
DT
8
8
8
N
1
4.23
0.60
118.00
122.23
A
A
A
C4
C5
C6
DT
DT
DT
8
8
8
N
1
-4.55
0.60
123.70
119.15
A
A
A
C5
C6
N1
DT
DT
DT
8
8
8
N
1
-4.13
0.60
122.90
118.77
A
A
A
C6
C5
C7
DT
DT
DT
8
8
8
N
1
5.16
0.70
110.30
115.46
B
B
B
C1'
O4'
C4'
DA
DA
DA
11
11
11
N
1
-8.63
0.80
105.90
97.27
B
B
B
O4'
C1'
C2'
DA
DA
DA
11
11
11
N
1
14.78
0.30
108.30
123.08
B
B
B
O4'
C1'
N9
DA
DA
DA
11
11
11
N
1
4.78
0.50
129.30
134.08
B
B
B
N1
C2
N3
DA
DA
DA
11
11
11
N
1
-5.38
0.50
103.90
98.52
B
B
B
C5
N7
C8
DA
DA
DA
11
11
11
N
1
11.63
0.50
113.80
125.43
B
B
B
N7
C8
N9
DA
DA
DA
11
11
11
N
1
-7.34
0.40
105.80
98.46
B
B
B
C8
N9
C4
DA
DA
DA
11
11
11
N
1
11.86
1.80
126.30
138.16
B
B
B
C4
N9
C1'
DA
DA
DA
11
11
11
N
1
6.96
1.10
109.80
116.76
B
B
B
C5'
C4'
O4'
DA
DA
DA
12
12
12
N
1
-24.35
2.50
109.70
85.35
B
B
B
C4'
C3'
O3'
DA
DA
DA
12
12
12
N
1
9.15
1.40
114.30
123.45
B
B
B
N9
C1'
C2'
DA
DA
DA
12
12
12
N
1
13.64
0.30
108.30
121.94
B
B
B
O4'
C1'
N9
DA
DA
DA
12
12
12
N
1
-6.17
0.60
118.60
112.43
B
B
B
N1
C6
N6
DA
DA
DA
12
12
12
N
1
5.39
0.80
123.70
129.09
B
B
B
C5
C6
N6
DA
DA
DA
12
12
12
N
1
14.10
1.20
119.70
133.80
B
B
B
C3'
O3'
P
DA
DA
DG
12
12
13
Y
1
9.20
1.20
102.50
111.70
B
B
B
C3'
C2'
C1'
DG
DG
DG
13
13
13
N
1
-9.73
0.80
105.90
96.17
B
B
B
O4'
C1'
C2'
DG
DG
DG
13
13
13
N
1
12.41
0.30
108.30
120.71
B
B
B
O4'
C1'
N9
DG
DG
DG
13
13
13
N
1
-3.51
0.50
104.30
100.79
B
B
B
C5
N7
C8
DG
DG
DG
13
13
13
N
1
7.17
0.50
113.10
120.27
B
B
B
N7
C8
N9
DG
DG
DG
13
13
13
N
1
-6.25
0.40
106.40
100.15
B
B
B
C8
N9
C4
DG
DG
DG
13
13
13
N
1
7.34
1.20
119.70
127.04
B
B
B
C3'
O3'
P
DG
DG
DG
13
13
14
Y
1
-2.57
0.40
104.50
101.93
B
B
B
O4'
C4'
C3'
DG
DG
DG
14
14
14
N
1
3.33
0.50
106.80
110.13
B
B
B
O4'
C1'
C2'
DG
DG
DG
14
14
14
N
1
-15.14
1.90
112.60
97.46
B
B
B
N9
C1'
C2'
DG
DG
DG
14
14
14
N
1
5.29
0.30
108.30
113.59
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
1
-4.15
0.50
111.90
107.75
B
B
B
C2
N3
C4
DG
DG
DG
14
14
14
N
1
3.03
0.40
110.80
113.83
B
B
B
C4
C5
N7
DG
DG
DG
14
14
14
N
1
3.36
0.50
104.30
107.66
B
B
B
C5
N7
C8
DG
DG
DG
14
14
14
N
1
-5.26
0.50
113.10
107.84
B
B
B
N7
C8
N9
DG
DG
DG
14
14
14
N
1
5.50
0.40
106.40
111.90
B
B
B
C8
N9
C4
DG
DG
DG
14
14
14
N
1
-6.65
0.40
105.40
98.75
B
B
B
N9
C4
C5
DG
DG
DG
14
14
14
N
1
7.10
0.60
126.00
133.10
B
B
B
N3
C4
N9
DG
DG
DG
14
14
14
N
1
-3.41
0.40
104.50
101.09
B
B
B
O4'
C4'
C3'
DC
DC
DC
15
15
15
N
1
-5.39
0.80
105.90
100.51
B
B
B
O4'
C1'
C2'
DC
DC
DC
15
15
15
N
1
11.45
0.30
108.30
119.75
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
5.18
0.70
110.30
115.48
B
B
B
C1'
O4'
C4'
DC
DC
DC
16
16
16
N
1
-10.09
0.80
105.90
95.81
B
B
B
O4'
C1'
C2'
DC
DC
DC
16
16
16
N
1
9.55
0.30
108.30
117.85
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
1
7.06
0.70
118.00
125.06
B
B
B
N3
C4
N4
DC
DC
DC
16
16
16
N
1
-5.35
0.70
120.20
114.85
B
B
B
C5
C4
N4
DC
DC
DC
16
16
16
N
1
7.35
0.70
110.30
117.65
B
B
B
C1'
O4'
C4'
DT
DT
DT
17
17
17
N
1
-5.08
0.80
105.90
100.82
B
B
B
O4'
C1'
C2'
DT
DT
DT
17
17
17
N
1
9.92
0.30
108.30
118.22
B
B
B
O4'
C1'
N1
DT
DT
DT
17
17
17
N
1
-4.66
0.60
119.90
115.24
B
B
B
N3
C4
O4
DT
DT
DT
17
17
17
N
1
5.36
0.70
124.90
130.26
B
B
B
C5
C4
O4
DT
DT
DT
17
17
17
N
1
6.46
0.60
119.00
125.46
B
B
B
C4
C5
C7
DT
DT
DT
17
17
17
N
1
-5.16
0.60
122.90
117.74
B
B
B
C6
C5
C7
DT
DT
DT
17
17
17
N
1
21.09
0.30
108.30
129.39
B
B
B
O4'
C1'
N1
DT
DT
DT
18
18
18
N
1
4.13
0.60
118.00
122.13
B
B
B
C4
C5
C6
DT
DT
DT
18
18
18
N
1
-4.40
0.60
123.70
119.30
B
B
B
C5
C6
N1
DT
DT
DT
18
18
18
N
1
-3.96
0.60
122.90
118.94
B
B
B
C6
C5
C7
DT
DT
DT
18
18
18
N
1
A
A
C5'
C4'
DA
DA
1
1
0.046
0.007
1.512
1.558
N
1
A
A
C2'
C1'
DA
DA
1
1
0.085
0.010
1.519
1.604
N
1
A
A
O4'
C1'
DA
DA
1
1
0.066
0.011
1.420
1.486
N
1
A
A
O4'
C4'
DA
DA
1
1
0.054
0.009
1.449
1.503
N
1
A
A
C6
N1
DA
DA
1
1
-0.048
0.007
1.351
1.303
N
1
A
A
C8
N9
DA
DA
1
1
-0.079
0.008
1.373
1.294
N
1
A
A
N9
C4
DA
DA
1
1
0.045
0.006
1.374
1.419
N
1
A
A
C5'
C4'
DA
DA
2
2
0.043
0.007
1.512
1.555
N
1
A
A
C5
N7
DA
DA
2
2
0.039
0.006
1.388
1.427
N
1
A
A
N9
C4
DA
DA
2
2
0.048
0.006
1.374
1.422
N
1
A
A
C4'
C3'
DG
DG
3
3
0.074
0.010
1.529
1.603
N
1
A
A
C2'
C1'
DG
DG
3
3
0.172
0.010
1.519
1.691
N
1
A
A
O3'
P
DG
DG
3
4
0.081
0.012
1.607
1.688
Y
1
A
A
P
O5'
DG
DG
4
4
0.087
0.010
1.593
1.680
N
1
A
A
C4'
C3'
DG
DG
4
4
0.060
0.010
1.529
1.589
N
1
A
A
N3
C4
DG
DG
4
4
0.134
0.007
1.350
1.484
N
1
A
A
C5
N7
DG
DG
4
4
0.040
0.006
1.388
1.428
N
1
A
A
C8
N9
DG
DG
4
4
0.049
0.007
1.374
1.423
N
1
A
A
N9
C4
DG
DG
4
4
0.088
0.008
1.375
1.463
N
1
A
A
C5'
C4'
DC
DC
5
5
0.058
0.007
1.512
1.570
N
1
A
A
C5'
C4'
DC
DC
6
6
0.063
0.007
1.512
1.575
N
1
A
A
O4'
C1'
DC
DC
6
6
0.073
0.011
1.420
1.493
N
1
A
A
O4'
C4'
DC
DC
6
6
0.058
0.009
1.449
1.507
N
1
A
A
C5'
C4'
DT
DT
7
7
0.125
0.007
1.512
1.637
N
1
A
A
C3'
C2'
DT
DT
7
7
0.082
0.012
1.518
1.600
N
1
A
A
O4'
C1'
DT
DT
7
7
0.067
0.011
1.420
1.487
N
1
A
A
C4
C5
DT
DT
7
7
0.056
0.009
1.445
1.501
N
1
A
A
C5
C7
DT
DT
7
7
0.147
0.006
1.496
1.643
N
1
B
B
C5'
C4'
DA
DA
11
11
0.045
0.007
1.512
1.557
N
1
B
B
C2'
C1'
DA
DA
11
11
0.084
0.010
1.519
1.603
N
1
B
B
O4'
C1'
DA
DA
11
11
0.066
0.011
1.420
1.486
N
1
B
B
O4'
C4'
DA
DA
11
11
0.054
0.009
1.449
1.503
N
1
B
B
C6
N1
DA
DA
11
11
-0.049
0.007
1.351
1.302
N
1
B
B
C8
N9
DA
DA
11
11
-0.078
0.008
1.373
1.295
N
1
B
B
N9
C4
DA
DA
11
11
0.043
0.006
1.374
1.417
N
1
B
B
C5'
C4'
DA
DA
12
12
0.047
0.007
1.512
1.559
N
1
B
B
C5
C6
DA
DA
12
12
0.054
0.009
1.406
1.460
N
1
B
B
C5
N7
DA
DA
12
12
0.038
0.006
1.388
1.426
N
1
B
B
N9
C4
DA
DA
12
12
0.046
0.006
1.374
1.420
N
1
B
B
C4'
C3'
DG
DG
13
13
0.075
0.010
1.529
1.604
N
1
B
B
C2'
C1'
DG
DG
13
13
0.165
0.010
1.519
1.684
N
1
B
B
O3'
P
DG
DG
13
14
0.081
0.012
1.607
1.688
Y
1
B
B
P
O5'
DG
DG
14
14
0.088
0.010
1.593
1.681
N
1
B
B
C4'
C3'
DG
DG
14
14
0.082
0.010
1.529
1.611
N
1
B
B
N3
C4
DG
DG
14
14
0.137
0.007
1.350
1.487
N
1
B
B
C5
N7
DG
DG
14
14
0.040
0.006
1.388
1.428
N
1
B
B
N9
C4
DG
DG
14
14
0.088
0.008
1.375
1.463
N
1
B
B
C5'
C4'
DC
DC
15
15
0.055
0.007
1.512
1.567
N
1
B
B
C5'
C4'
DC
DC
16
16
0.065
0.007
1.512
1.577
N
1
B
B
O4'
C1'
DC
DC
16
16
0.070
0.011
1.420
1.490
N
1
B
B
O4'
C4'
DC
DC
16
16
0.056
0.009
1.449
1.505
N
1
B
B
C5'
C4'
DT
DT
17
17
0.120
0.007
1.512
1.632
N
1
B
B
C3'
C2'
DT
DT
17
17
0.076
0.012
1.518
1.594
N
1
B
B
O4'
C1'
DT
DT
17
17
0.066
0.011
1.420
1.486
N
1
B
B
C5
C7
DT
DT
17
17
0.151
0.006
1.496
1.647
N
model building
X-PLOR
refinement
X-PLOR
phasing
X-PLOR
STRUCTURE REFINEMENT OF THE CHROMOMYCIN DIMER/DNA OLIGOMER COMPLEX IN SOLUTION
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
2
N
N
4
N
N
5
N
N
4
N
N
covale
1.387
one
A
CPH
33
G
C6
CPH
1_555
D
ARI
1
D
O1
ARI
1_555
covale
1.434
one
A
CPH
33
G
C2
CPH
1_555
F
CDR
1
F
O1
CDR
1_555
covale
1.434
one
B
CPH
23
I
C2
CPH
1_555
C
CDR
1
C
O1
CDR
1_555
covale
1.385
one
B
CPH
23
I
C6
CPH
1_555
E
ARI
1
E
O1
ARI
1_555
covale
1.449
one
C
CDR
1
C
C3
CDR
1_555
C
CDR
2
C
O1
CDR
1_555
covale
1.437
one
C
CDR
2
C
C3
CDR
1_555
C
ERI
3
C
O1
ERI
1_555
covale
1.446
one
D
ARI
1
D
C3
ARI
1_555
D
1GL
2
D
O1
1GL
1_555
covale
1.445
one
E
ARI
1
E
C3
ARI
1_555
E
1GL
2
E
O1
1GL
1_555
covale
1.447
one
F
CDR
1
F
C3
CDR
1_555
F
CDR
2
F
O1
CDR
1_555
covale
1.438
one
F
CDR
2
F
C3
CDR
1_555
F
ERI
3
F
O1
ERI
1_555
metalc
1.890
A
CPH
33
G
O1
CPH
1_555
B
MG
1
H
MG
MG
1_555
metalc
2.068
A
CPH
33
G
O9
CPH
1_555
B
MG
1
H
MG
MG
1_555
metalc
1.888
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O1
CPH
1_555
metalc
1.953
B
MG
1
H
MG
MG
1_555
B
CPH
23
I
O9
CPH
1_555
hydrog
WATSON-CRICK
A
DA
1
A
N1
DA
1
1_555
B
DT
18
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
1
A
N6
DA
1
1_555
B
DT
18
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
2
A
N1
DA
2
1_555
B
DT
17
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
A
DA
2
A
N6
DA
2
1_555
B
DT
17
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
DC
16
B
N3
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
16
B
O2
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
16
B
N4
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
15
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
15
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
15
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
14
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
14
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
14
B
N2
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
6
A
N3
DC
6
1_555
B
DG
13
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
6
A
N4
DC
6
1_555
B
DG
13
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
6
A
O2
DC
6
1_555
B
DG
13
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DT
7
A
N3
DT
7
1_555
B
DA
12
B
N1
DA
2
1_555
hydrog
WATSON-CRICK
A
DT
7
A
O4
DT
7
1_555
B
DA
12
B
N6
DA
2
1_555
hydrog
WATSON-CRICK
A
DT
8
A
N3
DT
8
1_555
B
DA
11
B
N1
DA
1
1_555
hydrog
WATSON-CRICK
A
DT
8
A
O4
DT
8
1_555
B
DA
11
B
N6
DA
1
1_555
DNA
DNA, DOUBLE HELIX, CHROMOMYCIN
1D83
PDB
1
1D83
1
8
1D83
1
8
1D83
A
1
1
8
11
18
1D83
11
18
1D83
B
1
1
8
1
P 1