1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Chuprina, V.P.
Rullmann, J.A.C.
Lamerichs, R.M.J.N.
Van Boom, J.H.
Boelens, R.
Kaptein, R.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
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
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
Na 1
22.990
SODIUM ION
non-polymer
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
234
446
462
10.1006/jmbi.1993.1598
8230225
Structure of the complex of lac repressor headpiece and an 11 base-pair half-operator determined by nuclear magnetic resonance spectroscopy and restrained molecular dynamics.
1993
IX
Eur.J.Biochem.
EJBCAI
0262
0014-2956
194
629
Assignment of the 1H-NMR Spectrum of a Lac Repressor Headpiece-Operator Complex in H2O and Identification of Noes. Consequences for Protein-DNA Interaction
1990
UK
Biochem.Pharm.
BCPCA6
0725
0006-2952
40
89
Two-Dimensional NMR Study of a Protein-DNA Complex. Lac Repressor Headpiece-Operator Interaction
1990
US
Biochemistry
BICHAW
0033
0006-2960
28
2985
1H NMR Study of a Complex between the Lac Repressor Headpiece and a 22 Base Pair Symmetric Lac Operator
1989
US
Ucla Symp.Mol.Cell.Biol., New Ser.
USMBD6
2001
0735-9543
95
11
NMR Based Docking Studies of Lac Repressor Headpiece on a Lac Operator Fragment
1989
GW
Protein Seq.Data Anal.
PSDAE6
0816
0931-9506
1
487
The Interaction of Lac Repressor Headpiece with its Operator: An NMR View
1988
US
Proteins
PSFGEY
0867
0887-3585
3
209
Combined Procedure of Distance Geometry and Restrained Molecular Dynamics Techniques for Protein Structure Determination from Nuclear Magnetic Resonance Data: Application to the DNA Binding Domain of Lac Repressor from Escherichia Coli
1988
US
Nato Asi Ser.,Ser.A
NALSDJ
2002
0161-0449
137
191
A Two-Dimensional NMR Study of the Complex of Lac Repressor Headpiece with a 14 Base Pair Lac Operator Fragment
1987
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
193
213
Complex of Lac Repressor Headpiece with a 14 Base Pair Lac Operator Fragment Studied by Two-Dimensional Nuclear Magnetic Resonance
1987
IS
Isr.J.Chem.
ISJCAT
0204
0021-2148
27
181
Restrained Molecular Dynamics Procedure for Protein Tertiary Structure Determination from NMR Data: A Lac Repressor Headpiece Structure Based on Information on J-Coupling and from Presence and Absence of Noes
1986
10.2210/pdb1lcc/pdb
pdb_00001lcc
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
3413.246
DNA (5'-D(*AP*AP*TP*TP*GP*TP*GP*AP*GP*CP*G)-3')
1
syn
polymer
3293.174
DNA (5'-D(*CP*GP*CP*TP*CP*AP*CP*AP*AP*TP*T)-3')
1
syn
polymer
5693.446
Lac Repressor
1
man
polymer
22.990
SODIUM ION
1
syn
non-polymer
18.015
water
53
nat
water
DEOXYRIBONUCLEIC ACID
DEOXYRIBONUCLEIC ACID
POLYPEPTIDE
no
no
(DA)(DA)(DT)(DT)(DG)(DT)(DG)(DA)(DG)(DC)(DG)
AATTGTGAGCG
B
polydeoxyribonucleotide
no
no
(DC)(DG)(DC)(DT)(DC)(DA)(DC)(DA)(DA)(DT)(DT)
CGCTCACAATT
C
polydeoxyribonucleotide
no
no
MKPVTLYDVAEYAGVSYQTVSRVVNQASHVSAKTREKVEAAMAELNYIPNR
MKPVTLYDVAEYAGVSYQTVSRVVNQASHVSAKTREKVEAAMAELNYIPNR
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Escherichia
BMH 74-12
sample
562
Escherichia coli
LAC
-33.954
1
20
B
1
C
11
-7.390
B_DA1:DT11_C
1
-19.165
-0.087
-2.093
-0.173
-20.896
1
20
B
2
C
10
-11.977
B_DA2:DT10_C
2
-12.839
-0.076
0.064
0.085
-19.198
1
20
B
3
C
9
-23.794
B_DT3:DA9_C
3
-11.635
-0.219
0.790
0.177
-8.903
1
20
B
4
C
8
-3.222
B_DT4:DA8_C
4
-13.839
-0.826
0.104
-0.184
-2.772
1
19
B
5
C
7
-5.894
B_DG5:DC7_C
5
-8.269
-0.214
-0.002
-0.274
2.568
1
20
B
6
C
6
-12.525
B_DT6:DA6_C
6
-12.420
-0.293
0.376
-0.057
7.344
1
19
B
7
C
5
-1.044
B_DG7:DC5_C
7
-19.956
-0.725
0.161
-0.146
-1.239
1
20
B
8
C
4
-12.036
B_DA8:DT4_C
8
-17.784
0.461
0.041
0.060
9.088
1
19
B
9
C
3
0.920
B_DG9:DC3_C
9
-10.228
0.155
1.283
-0.282
1.307
1
19
B
10
C
2
0.903
B_DC10:DG2_C
10
-12.180
0.135
0.719
-0.187
-9.088
1
19
B
11
C
1
2.644
B_DG11:DC1_C
11
-22.036
-1.069
-0.117
-0.249
3.084
41.033
B
B
1
2
-0.564
C
C
11
10
2.995
-0.384
-0.863
0.298
BB_DA1DA2:DT10DT11_CC
1
-17.329
25.458
37.336
0.466
-0.615
3.355
28.700
B
B
2
3
-0.358
C
C
10
9
3.313
-0.177
-0.752
-0.987
BB_DA2DT3:DA9DT10_CC
2
-1.583
3.194
28.657
-1.951
1.154
2.821
48.210
B
B
3
4
-23.721
C
C
9
8
3.157
-18.740
1.299
0.856
BB_DT3DT4:DA8DA9_CC
3
11.427
-14.465
43.191
2.473
-0.722
2.942
40.666
B
B
4
5
16.825
C
C
8
7
3.104
11.542
0.350
-0.110
BB_DT4DG5:DC7DA8_CC
4
-1.467
2.138
39.033
-1.368
-0.657
3.103
32.272
B
B
5
6
-6.986
C
C
7
6
3.017
-3.863
-0.483
-0.598
BB_DG5DT6:DA6DC7_CC
5
-4.253
7.690
31.770
-0.428
0.157
2.133
34.169
B
B
6
7
26.426
C
C
6
5
2.901
15.017
-0.043
-1.131
BB_DT6DG7:DC5DA6_CC
6
-1.915
3.370
30.722
-3.856
-0.173
3.487
34.651
B
B
7
8
1.296
C
C
5
4
3.463
0.771
-0.496
-0.175
BB_DG7DA8:DT4DC5_CC
7
-2.859
4.805
34.528
-0.420
0.365
2.534
39.304
B
B
8
9
1.662
C
C
4
3
2.881
1.099
0.660
0.189
BB_DA8DG9:DC3DT4_CC
8
-12.745
19.274
37.241
0.170
-2.272
3.504
34.148
B
B
9
10
-1.612
C
C
3
2
3.522
-0.946
-0.849
-0.912
BB_DG9DC10:DG2DC3_CC
9
1.552
-2.644
34.101
-1.393
1.711
1.986
32.872
B
B
10
11
41.287
C
C
2
1
3.501
21.508
-0.118
-1.057
BB_DC10DG11:DC1DG2_CC
10
1.731
-3.323
24.947
-5.408
0.494
database_2
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
1
0
1994-01-31
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_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_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_conn.ptnr2_label_seq_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
ENSEMBLE OF 3 STRUCTURES
Y
BNL
1993-03-25
REL
REL
NA
SODIUM ION
HOH
water
CHEMICALLY SYNTHESIZED
sample
CHEMICALLY SYNTHESIZED
sample
THE AVERAGE PAIRWISE RMSD BETWEEN THE FOUR STRUCTURES (EXCLUDING WATER AND IONS) IS 0.9 ANGSTROMS ON BACKBONE ATOMS (EXCLUDING FIRST AND LAST THREE PROTEIN RESIDUES, AND THE FIRST AND LAST BASE PAIR) AND 1.4 ANGSTROMS ON ALL ATOMS. THE DATA SETS INCLUDE THOSE WATERS AND IONS FOR WHICH THE DISTANCES TO THE NEAREST NEIGHBOR ATOM IN PROTEIN AS WELL AS IN DNA DO NOT EXCEED 4 ANGSTROMS.
1
all atoms
1.4
refinement
GROMOS
NA
1
4
NA
NA
12
C
HOH
327
5
HOH
HOH
327
B
HOH
1026
5
HOH
HOH
1026
B
HOH
1069
5
HOH
HOH
1069
B
HOH
1143
5
HOH
HOH
1143
B
HOH
1581
5
HOH
HOH
1581
B
HOH
1795
5
HOH
HOH
1795
B
HOH
1836
5
HOH
HOH
1836
B
HOH
2478
5
HOH
HOH
2478
B
HOH
2496
5
HOH
HOH
2496
B
HOH
2639
5
HOH
HOH
2639
B
HOH
3063
5
HOH
HOH
3063
B
HOH
3289
5
HOH
HOH
3289
B
HOH
47
5
HOH
HOH
47
C
HOH
319
5
HOH
HOH
319
C
HOH
328
5
HOH
HOH
328
C
HOH
337
5
HOH
HOH
337
C
HOH
827
5
HOH
HOH
827
C
HOH
902
5
HOH
HOH
902
C
HOH
1002
5
HOH
HOH
1002
C
HOH
1046
5
HOH
HOH
1046
C
HOH
1691
5
HOH
HOH
1691
C
HOH
1845
5
HOH
HOH
1845
C
HOH
1967
5
HOH
HOH
1967
C
HOH
2471
5
HOH
HOH
2471
C
HOH
2538
5
HOH
HOH
2538
C
HOH
2570
5
HOH
HOH
2570
C
HOH
24
5
HOH
HOH
52
A
HOH
317
5
HOH
HOH
53
A
HOH
497
5
HOH
HOH
54
A
HOH
580
5
HOH
HOH
55
A
HOH
835
5
HOH
HOH
56
A
HOH
856
5
HOH
HOH
57
A
HOH
895
5
HOH
HOH
58
A
HOH
913
5
HOH
HOH
59
A
HOH
923
5
HOH
HOH
60
A
HOH
1001
5
HOH
HOH
61
A
HOH
1358
5
HOH
HOH
62
A
HOH
1417
5
HOH
HOH
63
A
HOH
1419
5
HOH
HOH
64
A
HOH
1826
5
HOH
HOH
65
A
HOH
1876
5
HOH
HOH
66
A
HOH
1939
5
HOH
HOH
67
A
HOH
1958
5
HOH
HOH
68
A
HOH
1961
5
HOH
HOH
69
A
HOH
1993
5
HOH
HOH
70
A
HOH
2171
5
HOH
HOH
71
A
HOH
2225
5
HOH
HOH
72
A
HOH
2319
5
HOH
HOH
73
A
HOH
2484
5
HOH
HOH
74
A
HOH
2488
5
HOH
HOH
75
A
HOH
2497
5
HOH
HOH
76
A
HOH
2542
5
HOH
HOH
77
A
HOH
3293
5
HOH
HOH
78
A
A
1
n
1
DA
1
B
A
2
n
2
DA
2
B
T
3
n
3
DT
3
B
T
4
n
4
DT
4
B
G
5
n
5
DG
5
B
T
6
n
6
DT
6
B
G
7
n
7
DG
7
B
A
8
n
8
DA
8
B
G
9
n
9
DG
9
B
C
10
n
10
DC
10
B
G
11
n
11
DG
11
B
C
1
n
1
DC
1
C
G
2
n
2
DG
2
C
C
3
n
3
DC
3
C
T
4
n
4
DT
4
C
C
5
n
5
DC
5
C
A
6
n
6
DA
6
C
C
7
n
7
DC
7
C
A
8
n
8
DA
8
C
A
9
n
9
DA
9
C
T
10
n
10
DT
10
C
T
11
n
11
DT
11
C
MET
1
n
1
MET
1
A
LYS
2
n
2
LYS
2
A
PRO
3
n
3
PRO
3
A
VAL
4
n
4
VAL
4
A
THR
5
n
5
THR
5
A
LEU
6
n
6
LEU
6
A
TYR
7
n
7
TYR
7
A
ASP
8
n
8
ASP
8
A
VAL
9
n
9
VAL
9
A
ALA
10
n
10
ALA
10
A
GLU
11
n
11
GLU
11
A
TYR
12
n
12
TYR
12
A
ALA
13
n
13
ALA
13
A
GLY
14
n
14
GLY
14
A
VAL
15
n
15
VAL
15
A
SER
16
n
16
SER
16
A
TYR
17
n
17
TYR
17
A
GLN
18
n
18
GLN
18
A
THR
19
n
19
THR
19
A
VAL
20
n
20
VAL
20
A
SER
21
n
21
SER
21
A
ARG
22
n
22
ARG
22
A
VAL
23
n
23
VAL
23
A
VAL
24
n
24
VAL
24
A
ASN
25
n
25
ASN
25
A
GLN
26
n
26
GLN
26
A
ALA
27
n
27
ALA
27
A
SER
28
n
28
SER
28
A
HIS
29
n
29
HIS
29
A
VAL
30
n
30
VAL
30
A
SER
31
n
31
SER
31
A
ALA
32
n
32
ALA
32
A
LYS
33
n
33
LYS
33
A
THR
34
n
34
THR
34
A
ARG
35
n
35
ARG
35
A
GLU
36
n
36
GLU
36
A
LYS
37
n
37
LYS
37
A
VAL
38
n
38
VAL
38
A
GLU
39
n
39
GLU
39
A
ALA
40
n
40
ALA
40
A
ALA
41
n
41
ALA
41
A
MET
42
n
42
MET
42
A
ALA
43
n
43
ALA
43
A
GLU
44
n
44
GLU
44
A
LEU
45
n
45
LEU
45
A
ASN
46
n
46
ASN
46
A
TYR
47
n
47
TYR
47
A
ILE
48
n
48
ILE
48
A
PRO
49
n
49
PRO
49
A
ASN
50
n
50
ASN
50
A
ARG
51
n
51
ARG
51
A
author_defined_assembly
3
trimeric
C
DT
4
B
OP1
DT
4
1_555
C
NA
12
D
NA
NA
1_555
C
HOH
319
F
O
HOH
1_555
85.6
C
DT
4
B
OP1
DT
4
1_555
C
NA
12
D
NA
NA
1_555
A
HOH
58
G
O
HOH
1_555
94.6
C
HOH
319
F
O
HOH
1_555
C
NA
12
D
NA
NA
1_555
A
HOH
58
G
O
HOH
1_555
98.3
C
DT
4
B
OP1
DT
4
1_555
C
NA
12
D
NA
NA
1_555
A
HOH
60
G
O
HOH
1_555
88.9
C
HOH
319
F
O
HOH
1_555
C
NA
12
D
NA
NA
1_555
A
HOH
60
G
O
HOH
1_555
168.2
A
HOH
58
G
O
HOH
1_555
C
NA
12
D
NA
NA
1_555
A
HOH
60
G
O
HOH
1_555
92.6
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
A
HG1
O
THR
HOH
34
59
1.40
1
A
A
HG
O
SER
HOH
16
75
1.47
1
A
A
HG
O
SER
HOH
31
62
1.49
1
A
A
HE2
O
HIS
HOH
29
65
1.54
1
A
VAL
23
-10.01
1
B
DA
2
0.055
SIDE CHAIN
1
B
DT
4
0.100
SIDE CHAIN
1
B
DT
6
0.078
SIDE CHAIN
1
B
DG
7
0.181
SIDE CHAIN
1
B
DA
8
0.094
SIDE CHAIN
1
B
DG
9
0.156
SIDE CHAIN
1
B
DC
10
0.101
SIDE CHAIN
1
B
DG
11
0.105
SIDE CHAIN
1
C
DT
4
0.101
SIDE CHAIN
1
C
DC
5
0.104
SIDE CHAIN
1
C
DA
6
0.115
SIDE CHAIN
1
C
DA
9
0.076
SIDE CHAIN
1
C
DT
10
0.091
SIDE CHAIN
1
A
ARG
51
0.078
SIDE CHAIN
1
-6.97
1.00
110.10
103.13
B
B
B
C1'
O4'
C4'
DA
DA
DA
1
1
1
N
1
-9.29
0.50
129.30
120.01
B
B
B
N1
C2
N3
DA
DA
DA
1
1
1
N
1
11.54
0.50
110.60
122.14
B
B
B
C2
N3
C4
DA
DA
DA
1
1
1
N
1
-7.17
0.70
126.80
119.63
B
B
B
N3
C4
C5
DA
DA
DA
1
1
1
N
1
-3.06
0.50
110.70
107.64
B
B
B
C4
C5
N7
DA
DA
DA
1
1
1
N
1
-3.44
0.50
113.80
110.36
B
B
B
N7
C8
N9
DA
DA
DA
1
1
1
N
1
2.83
0.40
105.80
108.63
B
B
B
C8
N9
C4
DA
DA
DA
1
1
1
N
1
6.14
0.80
127.40
133.54
B
B
B
N3
C4
N9
DA
DA
DA
1
1
1
N
1
-4.62
0.70
108.00
103.38
B
B
B
O4'
C1'
N9
DA
DA
DA
2
2
2
N
1
-9.89
0.50
129.30
119.41
B
B
B
N1
C2
N3
DA
DA
DA
2
2
2
N
1
10.68
0.50
110.60
121.28
B
B
B
C2
N3
C4
DA
DA
DA
2
2
2
N
1
-5.72
0.70
126.80
121.08
B
B
B
N3
C4
C5
DA
DA
DA
2
2
2
N
1
3.36
0.50
117.70
121.06
B
B
B
C5
C6
N1
DA
DA
DA
2
2
2
N
1
3.26
0.50
103.90
107.16
B
B
B
C5
N7
C8
DA
DA
DA
2
2
2
N
1
-4.76
0.50
113.80
109.04
B
B
B
N7
C8
N9
DA
DA
DA
2
2
2
N
1
3.32
0.40
105.80
109.12
B
B
B
C8
N9
C4
DA
DA
DA
2
2
2
N
1
5.17
0.80
127.40
132.57
B
B
B
N3
C4
N9
DA
DA
DA
2
2
2
N
1
-6.83
1.00
110.10
103.27
B
B
B
C1'
O4'
C4'
DT
DT
DT
3
3
3
N
1
5.00
0.60
114.60
119.60
B
B
B
N1
C2
N3
DT
DT
DT
3
3
3
N
1
-7.55
0.60
127.20
119.65
B
B
B
C2
N3
C4
DT
DT
DT
3
3
3
N
1
6.66
0.60
115.20
121.86
B
B
B
N3
C4
C5
DT
DT
DT
3
3
3
N
1
-5.54
0.60
122.30
116.76
B
B
B
N3
C2
O2
DT
DT
DT
3
3
3
N
1
4.32
0.60
114.60
118.92
B
B
B
N1
C2
N3
DT
DT
DT
4
4
4
N
1
-6.04
0.60
127.20
121.16
B
B
B
C2
N3
C4
DT
DT
DT
4
4
4
N
1
5.73
0.60
115.20
120.93
B
B
B
N3
C4
C5
DT
DT
DT
4
4
4
N
1
-6.38
0.60
122.30
115.92
B
B
B
N3
C2
O2
DT
DT
DT
4
4
4
N
1
-4.22
0.60
119.90
115.68
B
B
B
N3
C4
O4
DT
DT
DT
4
4
4
N
1
6.76
1.10
109.80
116.56
B
B
B
C5'
C4'
O4'
DG
DG
DG
5
5
5
N
1
-5.17
0.60
125.10
119.93
B
B
B
C6
N1
C2
DG
DG
DG
5
5
5
N
1
9.48
0.50
111.90
121.38
B
B
B
C2
N3
C4
DG
DG
DG
5
5
5
N
1
-7.72
0.50
128.60
120.88
B
B
B
N3
C4
C5
DG
DG
DG
5
5
5
N
1
8.01
0.50
111.50
119.51
B
B
B
C5
C6
N1
DG
DG
DG
5
5
5
N
1
-3.10
0.40
110.80
107.70
B
B
B
C4
C5
N7
DG
DG
DG
5
5
5
N
1
6.30
0.60
126.00
132.30
B
B
B
N3
C4
N9
DG
DG
DG
5
5
5
N
1
4.02
0.60
130.40
134.42
B
B
B
C6
C5
N7
DG
DG
DG
5
5
5
N
1
5.71
0.90
116.20
121.91
B
B
B
N1
C2
N2
DG
DG
DG
5
5
5
N
1
-7.63
0.60
128.60
120.97
B
B
B
C5
C6
O6
DG
DG
DG
5
5
5
N
1
2.14
0.30
108.30
110.44
B
B
B
O4'
C1'
N1
DT
DT
DT
6
6
6
N
1
5.54
0.60
114.60
120.14
B
B
B
N1
C2
N3
DT
DT
DT
6
6
6
N
1
-7.55
0.60
127.20
119.65
B
B
B
C2
N3
C4
DT
DT
DT
6
6
6
N
1
6.25
0.60
115.20
121.45
B
B
B
N3
C4
C5
DT
DT
DT
6
6
6
N
1
-4.63
0.60
122.30
117.67
B
B
B
N3
C2
O2
DT
DT
DT
6
6
6
N
1
7.31
1.20
119.70
127.01
B
B
B
C3'
O3'
P
DT
DT
DG
6
6
7
Y
1
-4.94
0.60
125.10
120.16
B
B
B
C6
N1
C2
DG
DG
DG
7
7
7
N
1
-4.95
0.60
123.90
118.95
B
B
B
N1
C2
N3
DG
DG
DG
7
7
7
N
1
11.10
0.50
111.90
123.00
B
B
B
C2
N3
C4
DG
DG
DG
7
7
7
N
1
-8.27
0.50
128.60
120.33
B
B
B
N3
C4
C5
DG
DG
DG
7
7
7
N
1
8.07
0.50
111.50
119.57
B
B
B
C5
C6
N1
DG
DG
DG
7
7
7
N
1
-3.39
0.40
110.80
107.41
B
B
B
C4
C5
N7
DG
DG
DG
7
7
7
N
1
3.19
0.50
104.30
107.49
B
B
B
C5
N7
C8
DG
DG
DG
7
7
7
N
1
6.48
0.60
126.00
132.48
B
B
B
N3
C4
N9
DG
DG
DG
7
7
7
N
1
4.31
0.60
130.40
134.71
B
B
B
C6
C5
N7
DG
DG
DG
7
7
7
N
1
-6.55
0.60
128.60
122.05
B
B
B
C5
C6
O6
DG
DG
DG
7
7
7
N
1
-6.68
1.00
110.10
103.42
B
B
B
C1'
O4'
C4'
DA
DA
DA
8
8
8
N
1
-7.31
0.80
102.40
95.09
B
B
B
C3'
C2'
C1'
DA
DA
DA
8
8
8
N
1
6.12
0.30
108.30
114.42
B
B
B
O4'
C1'
N9
DA
DA
DA
8
8
8
N
1
-9.86
0.50
129.30
119.44
B
B
B
N1
C2
N3
DA
DA
DA
8
8
8
N
1
11.35
0.50
110.60
121.95
B
B
B
C2
N3
C4
DA
DA
DA
8
8
8
N
1
-6.31
0.70
126.80
120.49
B
B
B
N3
C4
C5
DA
DA
DA
8
8
8
N
1
3.29
0.50
117.70
120.99
B
B
B
C5
C6
N1
DA
DA
DA
8
8
8
N
1
-3.03
0.50
110.70
107.67
B
B
B
C4
C5
N7
DA
DA
DA
8
8
8
N
1
-3.23
0.50
113.80
110.57
B
B
B
N7
C8
N9
DA
DA
DA
8
8
8
N
1
2.66
0.40
105.80
108.46
B
B
B
C8
N9
C4
DA
DA
DA
8
8
8
N
1
5.51
0.80
127.40
132.91
B
B
B
N3
C4
N9
DA
DA
DA
8
8
8
N
1
4.26
0.70
132.30
136.56
B
B
B
C6
C5
N7
DA
DA
DA
8
8
8
N
1
7.36
1.10
109.80
117.16
B
B
B
C5'
C4'
O4'
DG
DG
DG
9
9
9
N
1
2.81
0.30
108.30
111.11
B
B
B
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
-5.35
0.60
125.10
119.75
B
B
B
C6
N1
C2
DG
DG
DG
9
9
9
N
1
8.94
0.50
111.90
120.84
B
B
B
C2
N3
C4
DG
DG
DG
9
9
9
N
1
-6.71
0.50
128.60
121.89
B
B
B
N3
C4
C5
DG
DG
DG
9
9
9
N
1
7.42
0.50
111.50
118.92
B
B
B
C5
C6
N1
DG
DG
DG
9
9
9
N
1
-2.57
0.40
110.80
108.23
B
B
B
C4
C5
N7
DG
DG
DG
9
9
9
N
1
5.98
0.60
126.00
131.98
B
B
B
N3
C4
N9
DG
DG
DG
9
9
9
N
1
-9.28
0.60
128.60
119.32
B
B
B
C5
C6
O6
DG
DG
DG
9
9
9
N
1
-8.52
1.00
110.10
101.58
B
B
B
C1'
O4'
C4'
DG
DG
DG
11
11
11
N
1
-6.10
0.60
125.10
119.00
B
B
B
C6
N1
C2
DG
DG
DG
11
11
11
N
1
8.85
0.50
111.90
120.75
B
B
B
C2
N3
C4
DG
DG
DG
11
11
11
N
1
-7.41
0.50
128.60
121.19
B
B
B
N3
C4
C5
DG
DG
DG
11
11
11
N
1
7.72
0.50
111.50
119.22
B
B
B
C5
C6
N1
DG
DG
DG
11
11
11
N
1
-3.24
0.40
110.80
107.56
B
B
B
C4
C5
N7
DG
DG
DG
11
11
11
N
1
5.68
0.60
126.00
131.68
B
B
B
N3
C4
N9
DG
DG
DG
11
11
11
N
1
-6.80
0.60
128.60
121.80
B
B
B
C5
C6
O6
DG
DG
DG
11
11
11
N
1
1.83
0.30
108.30
110.13
C
C
C
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
-7.82
1.00
110.10
102.28
C
C
C
C1'
O4'
C4'
DG
DG
DG
2
2
2
N
1
-5.57
0.60
125.10
119.53
C
C
C
C6
N1
C2
DG
DG
DG
2
2
2
N
1
-4.12
0.60
123.90
119.78
C
C
C
N1
C2
N3
DG
DG
DG
2
2
2
N
1
9.61
0.50
111.90
121.51
C
C
C
C2
N3
C4
DG
DG
DG
2
2
2
N
1
-7.04
0.50
128.60
121.56
C
C
C
N3
C4
C5
DG
DG
DG
2
2
2
N
1
8.53
0.50
111.50
120.03
C
C
C
C5
C6
N1
DG
DG
DG
2
2
2
N
1
3.09
0.50
104.30
107.39
C
C
C
C5
N7
C8
DG
DG
DG
2
2
2
N
1
-4.04
0.50
113.10
109.06
C
C
C
N7
C8
N9
DG
DG
DG
2
2
2
N
1
2.85
0.40
106.40
109.25
C
C
C
C8
N9
C4
DG
DG
DG
2
2
2
N
1
6.32
0.60
126.00
132.32
C
C
C
N3
C4
N9
DG
DG
DG
2
2
2
N
1
-6.52
0.60
128.60
122.08
C
C
C
C5
C6
O6
DG
DG
DG
2
2
2
N
1
4.71
0.60
114.60
119.31
C
C
C
N1
C2
N3
DT
DT
DT
4
4
4
N
1
-6.94
0.60
127.20
120.26
C
C
C
C2
N3
C4
DT
DT
DT
4
4
4
N
1
6.77
0.60
115.20
121.97
C
C
C
N3
C4
C5
DT
DT
DT
4
4
4
N
1
-5.19
0.60
122.30
117.11
C
C
C
N3
C2
O2
DT
DT
DT
4
4
4
N
1
-6.47
0.60
119.90
113.43
C
C
C
N3
C4
O4
DT
DT
DT
4
4
4
N
1
2.54
0.30
108.30
110.84
C
C
C
O4'
C1'
N1
DC
DC
DC
5
5
5
N
1
-4.57
0.70
121.90
117.33
C
C
C
N3
C2
O2
DC
DC
DC
5
5
5
N
1
6.93
1.10
109.80
116.73
C
C
C
C5'
C4'
O4'
DA
DA
DA
6
6
6
N
1
-6.86
1.00
110.10
103.24
C
C
C
C1'
O4'
C4'
DA
DA
DA
6
6
6
N
1
2.22
0.30
108.30
110.52
C
C
C
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
-9.92
0.50
129.30
119.38
C
C
C
N1
C2
N3
DA
DA
DA
6
6
6
N
1
11.80
0.50
110.60
122.40
C
C
C
C2
N3
C4
DA
DA
DA
6
6
6
N
1
-7.65
0.70
126.80
119.15
C
C
C
N3
C4
C5
DA
DA
DA
6
6
6
N
1
3.99
0.50
117.70
121.69
C
C
C
C5
C6
N1
DA
DA
DA
6
6
6
N
1
-3.11
0.50
113.80
110.69
C
C
C
N7
C8
N9
DA
DA
DA
6
6
6
N
1
2.94
0.40
105.80
108.74
C
C
C
C8
N9
C4
DA
DA
DA
6
6
6
N
1
7.88
0.80
127.40
135.28
C
C
C
N3
C4
N9
DA
DA
DA
6
6
6
N
1
-5.72
0.80
123.70
117.98
C
C
C
C5
C6
N6
DA
DA
DA
6
6
6
N
1
8.17
1.20
119.70
127.87
C
C
C
C3'
O3'
P
DA
DA
DC
6
6
7
Y
1
-5.45
0.80
105.90
100.45
C
C
C
O4'
C1'
C2'
DC
DC
DC
7
7
7
N
1
4.16
0.60
118.90
123.06
C
C
C
N1
C2
O2
DC
DC
DC
7
7
7
N
1
3.63
0.60
118.60
122.23
C
C
C
C6
N1
C2
DA
DA
DA
8
8
8
N
1
-9.21
0.50
129.30
120.09
C
C
C
N1
C2
N3
DA
DA
DA
8
8
8
N
1
9.94
0.50
110.60
120.54
C
C
C
C2
N3
C4
DA
DA
DA
8
8
8
N
1
-5.35
0.70
126.80
121.45
C
C
C
N3
C4
C5
DA
DA
DA
8
8
8
N
1
-3.27
0.50
110.70
107.43
C
C
C
C4
C5
N7
DA
DA
DA
8
8
8
N
1
-9.64
0.50
129.30
119.66
C
C
C
N1
C2
N3
DA
DA
DA
9
9
9
N
1
12.32
0.50
110.60
122.92
C
C
C
C2
N3
C4
DA
DA
DA
9
9
9
N
1
-7.82
0.70
126.80
118.98
C
C
C
N3
C4
C5
DA
DA
DA
9
9
9
N
1
4.47
0.50
117.70
122.17
C
C
C
C5
C6
N1
DA
DA
DA
9
9
9
N
1
6.76
0.80
127.40
134.16
C
C
C
N3
C4
N9
DA
DA
DA
9
9
9
N
1
-5.26
0.80
123.70
118.44
C
C
C
C5
C6
N6
DA
DA
DA
9
9
9
N
1
-4.90
0.70
108.00
103.10
C
C
C
O4'
C1'
N1
DT
DT
DT
10
10
10
N
1
4.58
0.60
114.60
119.18
C
C
C
N1
C2
N3
DT
DT
DT
10
10
10
N
1
-7.15
0.60
127.20
120.05
C
C
C
C2
N3
C4
DT
DT
DT
10
10
10
N
1
6.08
0.60
115.20
121.28
C
C
C
N3
C4
C5
DT
DT
DT
10
10
10
N
1
-5.60
0.60
122.30
116.70
C
C
C
N3
C2
O2
DT
DT
DT
10
10
10
N
1
-3.78
0.60
119.90
116.12
C
C
C
N3
C4
O4
DT
DT
DT
10
10
10
N
1
4.42
0.60
119.00
123.42
C
C
C
C4
C5
C7
DT
DT
DT
10
10
10
N
1
-4.79
0.60
122.90
118.11
C
C
C
C6
C5
C7
DT
DT
DT
10
10
10
N
1
3.53
0.50
106.80
110.33
C
C
C
O4'
C1'
C2'
DT
DT
DT
11
11
11
N
1
4.90
0.60
114.60
119.50
C
C
C
N1
C2
N3
DT
DT
DT
11
11
11
N
1
-7.37
0.60
127.20
119.83
C
C
C
C2
N3
C4
DT
DT
DT
11
11
11
N
1
6.24
0.60
115.20
121.44
C
C
C
N3
C4
C5
DT
DT
DT
11
11
11
N
1
-5.57
0.60
122.30
116.73
C
C
C
N3
C2
O2
DT
DT
DT
11
11
11
N
1
-3.61
0.60
119.90
116.29
C
C
C
N3
C4
O4
DT
DT
DT
11
11
11
N
1
3.65
0.60
119.00
122.65
C
C
C
C4
C5
C7
DT
DT
DT
11
11
11
N
1
-4.23
0.60
122.90
118.67
C
C
C
C6
C5
C7
DT
DT
DT
11
11
11
N
1
-3.72
0.60
121.00
117.28
A
A
A
CB
CG
CD1
TYR
TYR
TYR
7
7
7
N
1
-4.55
0.50
120.30
115.75
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
22
22
22
N
1
-4.99
0.60
121.00
116.01
A
A
A
CB
CG
CD2
TYR
TYR
TYR
47
47
47
N
1
B
B
C5
N7
DA
DA
1
1
-0.057
0.006
1.388
1.331
N
1
B
B
C8
N9
DA
DA
1
1
-0.054
0.008
1.373
1.319
N
1
B
B
N9
C4
DA
DA
1
1
-0.053
0.006
1.374
1.321
N
1
B
B
C5
N7
DA
DA
2
2
-0.050
0.006
1.388
1.338
N
1
B
B
N9
C4
DA
DA
2
2
-0.056
0.006
1.374
1.318
N
1
B
B
C4
C5
DT
DT
3
3
-0.055
0.009
1.445
1.390
N
1
B
B
C5
C6
DT
DT
3
3
0.059
0.007
1.339
1.398
N
1
B
B
C6
N1
DT
DT
3
3
0.043
0.007
1.378
1.421
N
1
B
B
C5
C7
DT
DT
3
3
0.042
0.006
1.496
1.538
N
1
B
B
C5
C6
DT
DT
4
4
0.056
0.007
1.339
1.395
N
1
B
B
C5
N7
DG
DG
5
5
-0.061
0.006
1.388
1.327
N
1
B
B
C8
N9
DG
DG
5
5
-0.047
0.007
1.374
1.327
N
1
B
B
C5
C6
DT
DT
6
6
0.057
0.007
1.339
1.396
N
1
B
B
C5
N7
DG
DG
7
7
-0.054
0.006
1.388
1.334
N
1
B
B
C5
N7
DA
DA
8
8
-0.050
0.006
1.388
1.338
N
1
B
B
C8
N9
DA
DA
8
8
-0.057
0.008
1.373
1.316
N
1
B
B
N9
C4
DA
DA
8
8
-0.045
0.006
1.374
1.329
N
1
B
B
C5
N7
DG
DG
9
9
-0.063
0.006
1.388
1.325
N
1
B
B
C8
N9
DG
DG
9
9
-0.042
0.007
1.374
1.332
N
1
B
B
N9
C4
DG
DG
9
9
-0.051
0.008
1.375
1.324
N
1
B
B
C5
C6
DC
DC
10
10
0.058
0.008
1.339
1.397
N
1
B
B
C5
N7
DG
DG
11
11
-0.054
0.006
1.388
1.334
N
1
B
B
C8
N9
DG
DG
11
11
-0.055
0.007
1.374
1.319
N
1
B
B
N9
C4
DG
DG
11
11
-0.049
0.008
1.375
1.326
N
1
C
C
N1
C6
DC
DC
1
1
0.043
0.006
1.367
1.410
N
1
C
C
C5
N7
DG
DG
2
2
-0.052
0.006
1.388
1.336
N
1
C
C
C5
C6
DT
DT
4
4
0.056
0.007
1.339
1.395
N
1
C
C
N1
C6
DC
DC
5
5
0.038
0.006
1.367
1.405
N
1
C
C
C5
C6
DC
DC
5
5
0.054
0.008
1.339
1.393
N
1
C
C
C5
N7
DA
DA
6
6
-0.060
0.006
1.388
1.328
N
1
C
C
C8
N9
DA
DA
6
6
-0.052
0.008
1.373
1.321
N
1
C
C
N9
C4
DA
DA
6
6
-0.048
0.006
1.374
1.326
N
1
C
C
C5
N7
DA
DA
8
8
-0.051
0.006
1.388
1.337
N
1
C
C
C8
N9
DA
DA
8
8
-0.052
0.008
1.373
1.321
N
1
C
C
N9
C4
DA
DA
8
8
-0.050
0.006
1.374
1.324
N
1
C
C
C5
N7
DA
DA
9
9
-0.055
0.006
1.388
1.333
N
1
C
C
N9
C4
DA
DA
9
9
-0.039
0.006
1.374
1.335
N
1
C
C
C5
C6
DT
DT
10
10
0.056
0.007
1.339
1.395
N
1
C
C
C5
C6
DT
DT
11
11
0.045
0.007
1.339
1.384
N
1
C
C
C5
C7
DT
DT
11
11
0.042
0.006
1.496
1.538
N
1
A
HIS
29
61.46
68.79
STRUCTURE OF THE COMPLEX OF LAC REPRESSOR HEADPIECE AND AN 11 BASE-PAIR HALF-OPERATOR DETERMINED BY NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY AND RESTRAINED MOLECULAR DYNAMICS
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
5
N
N
5
N
N
A
THR
5
C
THR
5
HELX_P
A
GLY
14
C
GLY
14
1
1
10
A
SER
16
C
SER
16
HELX_P
A
ASN
25
C
ASN
25
1
2
10
A
SER
31
C
SER
31
HELX_P
A
LEU
45
C
LEU
45
1
3
15
metalc
2.408
C
DT
4
B
OP1
DT
4
1_555
C
NA
12
D
NA
NA
1_555
metalc
2.106
C
NA
12
D
NA
NA
1_555
C
HOH
319
F
O
HOH
1_555
metalc
2.191
C
NA
12
D
NA
NA
1_555
A
HOH
58
G
O
HOH
1_555
metalc
2.131
C
NA
12
D
NA
NA
1_555
A
HOH
60
G
O
HOH
1_555
hydrog
WATSON-CRICK
B
DA
1
A
N1
DA
1
1_555
C
DT
11
B
N3
DT
11
1_555
hydrog
WATSON-CRICK
B
DA
1
A
N6
DA
1
1_555
C
DT
11
B
O4
DT
11
1_555
hydrog
WATSON-CRICK
B
DA
2
A
N1
DA
2
1_555
C
DT
10
B
N3
DT
10
1_555
hydrog
WATSON-CRICK
B
DA
2
A
N6
DA
2
1_555
C
DT
10
B
O4
DT
10
1_555
hydrog
WATSON-CRICK
B
DT
3
A
N3
DT
3
1_555
C
DA
9
B
N1
DA
9
1_555
hydrog
WATSON-CRICK
B
DT
3
A
O4
DT
3
1_555
C
DA
9
B
N6
DA
9
1_555
hydrog
WATSON-CRICK
B
DT
4
A
N3
DT
4
1_555
C
DA
8
B
N1
DA
8
1_555
hydrog
WATSON-CRICK
B
DT
4
A
O4
DT
4
1_555
C
DA
8
B
N6
DA
8
1_555
hydrog
WATSON-CRICK
B
DG
5
A
N1
DG
5
1_555
C
DC
7
B
N3
DC
7
1_555
hydrog
WATSON-CRICK
B
DG
5
A
N2
DG
5
1_555
C
DC
7
B
O2
DC
7
1_555
hydrog
WATSON-CRICK
B
DG
5
A
O6
DG
5
1_555
C
DC
7
B
N4
DC
7
1_555
hydrog
WATSON-CRICK
B
DT
6
A
N3
DT
6
1_555
C
DA
6
B
N1
DA
6
1_555
hydrog
WATSON-CRICK
B
DT
6
A
O4
DT
6
1_555
C
DA
6
B
N6
DA
6
1_555
hydrog
WATSON-CRICK
B
DG
7
A
N1
DG
7
1_555
C
DC
5
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
B
DG
7
A
N2
DG
7
1_555
C
DC
5
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
B
DG
7
A
O6
DG
7
1_555
C
DC
5
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
B
DA
8
A
N1
DA
8
1_555
C
DT
4
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
B
DA
8
A
N6
DA
8
1_555
C
DT
4
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
B
DG
9
A
N1
DG
9
1_555
C
DC
3
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
B
DG
9
A
N2
DG
9
1_555
C
DC
3
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
B
DG
9
A
O6
DG
9
1_555
C
DC
3
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
B
DC
10
A
N3
DC
10
1_555
C
DG
2
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
10
A
N4
DC
10
1_555
C
DG
2
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
10
A
O2
DC
10
1_555
C
DG
2
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
B
DG
11
A
N1
DG
11
1_555
C
DC
1
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
B
DG
11
A
N2
DG
11
1_555
C
DC
1
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
B
DG
11
A
O6
DG
11
1_555
C
DC
1
B
N4
DC
1
1_555
GENE REGULATION/DNA
DNA, HALF-OPERATOR, LAC OPERATOR, LAC REPRESSOR, HEADPIECE, GENE REGULATION-DNA COMPLEX
LACI_ECOLI
UNP
3
1
P03023
1LCC
PDB
1
1LCC
1LCC
PDB
2
1LCC
1
51
1LCC
1
51
P03023
A
1
1
51
1
11
1LCC
1
11
1LCC
B
2
1
11
1
11
1LCC
1
11
1LCC
C
3
1
11
BINDING SITE FOR RESIDUE NA C 12
C
NA
12
Software
6
A
VAL
24
C
VAL
24
6
1_555
A
HOH
58
G
HOH
6
1_555
A
HOH
60
G
HOH
6
1_555
C
DC
3
B
DC
3
6
1_555
C
DT
4
B
DT
4
6
1_555
C
HOH
319
F
HOH
6
1_555
1
P 1