1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Broadhurst, R.W.
Nietlispach, D.
Wheatcroft, M.P.
Leadlay, P.F.
Weissman, K.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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
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
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
C9 H11 N O2
165.189
y
PHENYLALANINE
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
Chem.Biol.
CBOLE2
2050
1074-5521
10
723
731
10.1016/S1074-5521(03)00156-X
12954331
The structure of docking domains in modular polyketide synthases.
2003
10.2210/pdb1pzr/pdb
pdb_00001pzr
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
C-terminal fragment of DEBS2 fused to N-terminal fragment of DEBS3
6842.579
Erythronolide synthase
2.3.1.94
RESIDUES 61-120
2
man
polymer
ORF 2, 6-deoxyerythronolide B synthase II, DEBS 2/ORF 3, 6-deoxyerythronolide B synthase III, DEBS 3
no
no
ASDDELFSMLDQRFGGGEDLLMSGDNGMTEEKLRRYLKRTVTELDSVTARLREVEHRAGE
ASDDELFSMLDQRFGGGEDLLMSGDNGMTEEKLRRYLKRTVTELDSVTARLREVEHRAGE
A,B
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
Saccharopolyspora
Escherichia
sample
ERYA
1836
Saccharopolyspora erythraea
562
Escherichia coli
BL21-CODONPLUS
PLASMID
pGEX4T-3
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
2004-02-24
1
1
2008-04-29
1
2
2011-07-13
1
3
2022-03-02
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
Structure of fused docking domains from the erythromycin polyketide synthase (DEBS), a model for the interaction between DEBS 2 and DEBS 3: The A domain
SEQUENCE
LEU 81 and MET 82 form a linker between the C-terminal fragment of DEBS2 and the N-terminal fragment of DEBS3
RCSB
Y
RCSB
2003-07-14
REL
REL
The structure was determined using triple-resonance NMR spectroscopy. Intermolecular contacts were obtained from an X-filtered NOESY experiment on a mixed-labeled sample.
structures with the lowest energy
100
7
3D_15N-separated_NOESY
3D_13C-separated_NOESY
3D_13C_15N_X-filtered_13C-separated_NOESY
100mM phosphate buffer NA
6.5
ambient
298
K
the structures are based on a total of 1754 restraints: 1618 NOE-derived distance restraints, 78 dihedral angle restraints, 58 distance restraints from hydrogen bonds.
simulated annealing
1
closest to the average
1mM DOCK23 U-15N,13C: 100mM phosphate buffer NA: trace amounts of sodium azide, AEBSF protease inhibitor cocktail and TSP 1H shift reference: 90% H2O, 10% D2O
90% H2O/10% D2O
1mM DOCK23 (50% U-15N,13C: 50% unlabeled): 100mM phosphate buffer NA: trace amounts of sodium azide, AEBSF protease inhibitor cocktail and TSP 1H shift reference: 90% H2O, 10% D2O
90% H2O/10% D2O
Boucher
processing
Azara
1.0
Kraulis
data analysis
ANSIG
3.3
Brunger
structure solution
CNS
1.0
Brunger
refinement
CNS
1.0
500
Bruker
DRX
800
Bruker
DRX
ALA
61
n
1
ALA
61
A
SER
62
n
2
SER
62
A
ASP
63
n
3
ASP
63
A
ASP
64
n
4
ASP
64
A
GLU
65
n
5
GLU
65
A
LEU
66
n
6
LEU
66
A
PHE
67
n
7
PHE
67
A
SER
68
n
8
SER
68
A
MET
69
n
9
MET
69
A
LEU
70
n
10
LEU
70
A
ASP
71
n
11
ASP
71
A
GLN
72
n
12
GLN
72
A
ARG
73
n
13
ARG
73
A
PHE
74
n
14
PHE
74
A
GLY
75
n
15
GLY
75
A
GLY
76
n
16
GLY
76
A
GLY
77
n
17
GLY
77
A
GLU
78
n
18
GLU
78
A
ASP
79
n
19
ASP
79
A
LEU
80
n
20
LEU
80
A
LEU
81
n
21
LEU
81
A
MET
82
n
22
MET
82
A
SER
83
n
23
SER
83
A
GLY
84
n
24
GLY
84
A
ASP
85
n
25
ASP
85
A
ASN
86
n
26
ASN
86
A
GLY
87
n
27
GLY
87
A
MET
88
n
28
MET
88
A
THR
89
n
29
THR
89
A
GLU
90
n
30
GLU
90
A
GLU
91
n
31
GLU
91
A
LYS
92
n
32
LYS
92
A
LEU
93
n
33
LEU
93
A
ARG
94
n
34
ARG
94
A
ARG
95
n
35
ARG
95
A
TYR
96
n
36
TYR
96
A
LEU
97
n
37
LEU
97
A
LYS
98
n
38
LYS
98
A
ARG
99
n
39
ARG
99
A
THR
100
n
40
THR
100
A
VAL
101
n
41
VAL
101
A
THR
102
n
42
THR
102
A
GLU
103
n
43
GLU
103
A
LEU
104
n
44
LEU
104
A
ASP
105
n
45
ASP
105
A
SER
106
n
46
SER
106
A
VAL
107
n
47
VAL
107
A
THR
108
n
48
THR
108
A
ALA
109
n
49
ALA
109
A
ARG
110
n
50
ARG
110
A
LEU
111
n
51
LEU
111
A
ARG
112
n
52
ARG
112
A
GLU
113
n
53
GLU
113
A
VAL
114
n
54
VAL
114
A
GLU
115
n
55
GLU
115
A
HIS
116
n
56
HIS
116
A
ARG
117
n
57
ARG
117
A
ALA
118
n
58
ALA
118
A
GLY
119
n
59
GLY
119
A
GLU
120
n
60
GLU
120
A
ALA
61
n
1
ALA
61
B
SER
62
n
2
SER
62
B
ASP
63
n
3
ASP
63
B
ASP
64
n
4
ASP
64
B
GLU
65
n
5
GLU
65
B
LEU
66
n
6
LEU
66
B
PHE
67
n
7
PHE
67
B
SER
68
n
8
SER
68
B
MET
69
n
9
MET
69
B
LEU
70
n
10
LEU
70
B
ASP
71
n
11
ASP
71
B
GLN
72
n
12
GLN
72
B
ARG
73
n
13
ARG
73
B
PHE
74
n
14
PHE
74
B
GLY
75
n
15
GLY
75
B
GLY
76
n
16
GLY
76
B
GLY
77
n
17
GLY
77
B
GLU
78
n
18
GLU
78
B
ASP
79
n
19
ASP
79
B
LEU
80
n
20
LEU
80
B
LEU
81
n
21
LEU
81
B
MET
82
n
22
MET
82
B
SER
83
n
23
SER
83
B
GLY
84
n
24
GLY
84
B
ASP
85
n
25
ASP
85
B
ASN
86
n
26
ASN
86
B
GLY
87
n
27
GLY
87
B
MET
88
n
28
MET
88
B
THR
89
n
29
THR
89
B
GLU
90
n
30
GLU
90
B
GLU
91
n
31
GLU
91
B
LYS
92
n
32
LYS
92
B
LEU
93
n
33
LEU
93
B
ARG
94
n
34
ARG
94
B
ARG
95
n
35
ARG
95
B
TYR
96
n
36
TYR
96
B
LEU
97
n
37
LEU
97
B
LYS
98
n
38
LYS
98
B
ARG
99
n
39
ARG
99
B
THR
100
n
40
THR
100
B
VAL
101
n
41
VAL
101
B
THR
102
n
42
THR
102
B
GLU
103
n
43
GLU
103
B
LEU
104
n
44
LEU
104
B
ASP
105
n
45
ASP
105
B
SER
106
n
46
SER
106
B
VAL
107
n
47
VAL
107
B
THR
108
n
48
THR
108
B
ALA
109
n
49
ALA
109
B
ARG
110
n
50
ARG
110
B
LEU
111
n
51
LEU
111
B
ARG
112
n
52
ARG
112
B
GLU
113
n
53
GLU
113
B
VAL
114
n
54
VAL
114
B
GLU
115
n
55
GLU
115
B
HIS
116
n
56
HIS
116
B
ARG
117
n
57
ARG
117
B
ALA
118
n
58
ALA
118
B
GLY
119
n
59
GLY
119
B
GLU
120
n
60
GLU
120
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
2
A
A
HZ
HG22
PHE
THR
74
100
1.33
2
A
B
HG21
HG13
VAL
VAL
107
107
1.34
7
B
B
HD13
HD2
LEU
TYR
70
96
1.35
1
A
GLU
78
-170.62
-151.80
1
A
ASP
79
-152.11
-49.77
1
A
SER
83
56.84
-153.13
1
A
ASP
85
-169.99
49.66
1
A
MET
88
-153.69
-152.98
1
A
HIS
116
-67.85
-77.15
1
A
ALA
118
60.51
-139.07
1
B
GLU
78
-169.38
-151.99
1
B
ASP
79
-149.41
-47.42
1
B
SER
83
58.06
-147.92
1
B
ASP
85
-171.11
42.98
1
B
MET
88
-153.06
-149.51
1
B
ALA
118
62.56
-142.22
2
A
GLU
78
66.70
-72.31
2
A
LEU
81
-70.80
-139.15
2
A
MET
82
-175.49
-41.25
2
A
ASP
85
-168.70
53.10
2
A
GLU
115
-71.15
-113.36
2
A
HIS
116
52.54
93.32
2
B
GLU
78
70.67
-60.35
2
B
LEU
81
-69.89
-139.88
2
B
MET
82
-173.75
-42.22
2
B
ASP
85
-170.52
49.84
2
B
GLU
115
-74.19
-120.57
2
B
HIS
116
59.63
103.64
3
A
GLU
78
56.48
158.12
3
A
ASP
79
175.20
-65.78
3
A
MET
82
-164.46
-50.65
3
A
SER
83
65.82
142.69
3
A
ASP
85
-150.20
53.36
3
A
SER
106
-90.33
-60.68
3
A
GLU
115
-67.55
-107.31
3
A
ARG
117
177.20
-27.17
3
A
ALA
118
59.67
-135.61
3
B
GLU
78
62.77
140.86
3
B
ASP
79
-171.58
-52.95
3
B
MET
82
-170.13
-47.31
3
B
SER
83
62.62
143.93
3
B
GLU
115
-75.18
-118.90
3
B
ARG
117
177.14
-32.79
3
B
ALA
118
61.40
-139.45
4
A
ASP
79
174.08
-68.19
4
A
LEU
80
64.83
140.93
4
A
MET
82
75.38
-45.01
4
A
ASP
85
-172.90
46.12
4
A
ASN
86
-149.18
-153.44
4
A
MET
88
-152.66
-150.70
4
A
HIS
116
-59.43
-86.34
4
B
ASP
79
-172.31
-57.05
4
B
LEU
80
60.53
136.25
4
B
MET
82
74.17
-45.61
4
B
ASP
85
-169.76
-34.18
4
B
ASN
86
-72.76
-149.15
4
B
MET
88
-152.53
-143.09
4
B
HIS
116
-62.96
-79.06
5
A
GLU
78
38.44
-145.18
5
A
ASP
79
178.19
-57.00
5
A
MET
82
75.20
-56.80
5
A
SER
83
-66.41
-147.80
5
A
ASP
85
-170.01
65.44
5
A
ASN
86
72.00
132.81
5
A
MET
88
-56.90
-157.91
5
A
ARG
117
-147.52
50.30
5
A
ALA
118
52.53
-139.82
5
B
GLU
78
41.99
-149.58
5
B
ASP
79
179.80
-46.63
5
B
MET
82
74.51
-54.21
5
B
SER
83
-70.47
-144.57
5
B
ASP
85
-157.28
-43.69
5
B
ASN
86
177.58
128.99
5
B
MET
88
-75.81
-149.56
5
B
ARG
117
-153.38
47.40
5
B
ALA
118
55.08
-142.63
6
A
GLU
78
-64.59
-151.23
6
A
ASP
79
-177.86
-59.87
6
A
SER
83
66.57
140.52
6
A
ASP
85
-175.47
57.21
6
A
ASN
86
-65.14
-154.99
6
A
ARG
117
-147.77
53.71
6
A
ALA
118
53.15
-144.19
6
B
GLU
78
-68.87
-152.42
6
B
ASP
79
-176.92
-54.42
6
B
SER
83
65.49
135.60
6
B
ASP
85
-178.01
55.08
6
B
ASN
86
-63.97
-153.86
6
B
ARG
117
-152.68
50.27
6
B
ALA
118
56.02
-145.03
7
A
GLU
78
-63.28
-144.09
7
A
ASP
79
-175.97
-55.37
7
A
SER
83
58.35
-148.82
7
A
ASP
85
-166.96
48.57
7
A
ASN
86
60.82
130.58
7
A
HIS
116
-60.92
-77.95
7
A
ALA
118
59.47
-139.63
7
B
GLU
78
-68.20
-144.41
7
B
ASP
79
-176.99
-50.40
7
B
SER
83
58.37
-142.78
7
B
ASP
85
-170.05
48.73
7
B
ASN
86
64.84
135.69
7
B
ALA
118
60.99
-142.95
Structure of fused docking domains from the erythromycin polyketide synthase (DEBS), a model for the interaction between DEBS2 and DEBS3: the B domain
1
N
N
1
N
N
A
SER
62
A
SER
2
HELX_P
A
GLY
76
A
GLY
16
1
1
15
A
MET
88
A
MET
28
HELX_P
A
ALA
118
A
ALA
58
1
2
31
B
SER
62
B
SER
2
HELX_P
B
GLY
76
B
GLY
16
1
3
15
B
MET
88
B
MET
28
HELX_P
B
ALA
118
B
ALA
58
1
4
31
TRANSFERASE
FOUR HELIX BUNDLE, HOMODIMER, TRANSFERASE
ERY2_SACER
UNP
1
3548
Q03132
ASDDELFSMLDQRFGGGEDLLMSGDNGMTEEKLRRYLKRTVTELDSVTARLREVEHRAGE
ERY3_SACER
UNP
1
2
Q03133
SGDNGMTEEKLRRYLKRTVTELDSVTARLREVEHRAGE
3548
3567
1PZR
61
80
Q03132
A
1
1
20
2
39
1PZR
83
120
Q03133
A
2
23
60
3548
3567
1PZR
61
80
Q03132
B
1
1
20
2
39
1PZR
83
120
Q03133
B
2
23
60
1
SEE REMARK 999
LEU
81
1PZR
A
Q03132
21
1
SEE REMARK 999
MET
82
1PZR
A
Q03132
22
3
SEE REMARK 999
LEU
81
1PZR
B
Q03132
21
3
SEE REMARK 999
MET
82
1PZR
B
Q03132
22