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
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 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
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
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/pdb1pzq/pdb
pdb_00001pzq
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
6428.874
Erythronolide synthase
2.3.1.94
C-terminal fragment
L1G, F2S
2
man
polymer
Insertion of GS at N-terminus
ORF 2, 6-deoxyerythronolide B synthase II, DEBS 2
no
no
GSAASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED
GSAASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED
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_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
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
_struct_ref_seq_dif.details
Structure of fused docking domains from the erythromycin polyketide
synthase (DEBS), a model for the interaction between DEBS 2 and DEBS 3: the B domain
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
40
8
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 1811 restraints: 1709 NOE-derived
distance constraints, 60 dihedral angle restraints, 42 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
Kraulis
data analysis
ANSIG
3.3
Brunger
structure solution
CNS
1.0
Brunger
refinement
CNS
1.0
500
Bruker
DRX
800
Bruker
DRX
GLY
1
n
1
GLY
1
A
SER
2
n
2
SER
2
A
ALA
3
n
3
ALA
3
A
ALA
4
n
4
ALA
4
A
SER
5
n
5
SER
5
A
PRO
6
n
6
PRO
6
A
ALA
7
n
7
ALA
7
A
VAL
8
n
8
VAL
8
A
ASP
9
n
9
ASP
9
A
ILE
10
n
10
ILE
10
A
GLY
11
n
11
GLY
11
A
ASP
12
n
12
ASP
12
A
ARG
13
n
13
ARG
13
A
LEU
14
n
14
LEU
14
A
ASP
15
n
15
ASP
15
A
GLU
16
n
16
GLU
16
A
LEU
17
n
17
LEU
17
A
GLU
18
n
18
GLU
18
A
LYS
19
n
19
LYS
19
A
ALA
20
n
20
ALA
20
A
LEU
21
n
21
LEU
21
A
GLU
22
n
22
GLU
22
A
ALA
23
n
23
ALA
23
A
LEU
24
n
24
LEU
24
A
SER
25
n
25
SER
25
A
ALA
26
n
26
ALA
26
A
GLU
27
n
27
GLU
27
A
ASP
28
n
28
ASP
28
A
GLY
29
n
29
GLY
29
A
HIS
30
n
30
HIS
30
A
ASP
31
n
31
ASP
31
A
ASP
32
n
32
ASP
32
A
VAL
33
n
33
VAL
33
A
GLY
34
n
34
GLY
34
A
GLN
35
n
35
GLN
35
A
ARG
36
n
36
ARG
36
A
LEU
37
n
37
LEU
37
A
GLU
38
n
38
GLU
38
A
SER
39
n
39
SER
39
A
LEU
40
n
40
LEU
40
A
LEU
41
n
41
LEU
41
A
ARG
42
n
42
ARG
42
A
ARG
43
n
43
ARG
43
A
TRP
44
n
44
TRP
44
A
ASN
45
n
45
ASN
45
A
SER
46
n
46
SER
46
A
ARG
47
n
47
ARG
47
A
ARG
48
n
48
ARG
48
A
ALA
49
n
49
ALA
49
A
ASP
50
n
50
ASP
50
A
ALA
51
n
51
ALA
51
A
PRO
52
n
52
PRO
52
A
SER
53
n
53
SER
53
A
THR
54
n
54
THR
54
A
SER
55
n
55
SER
55
A
ALA
56
n
56
ALA
56
A
ILE
57
n
57
ILE
57
A
SER
58
n
58
SER
58
A
GLU
59
n
59
GLU
59
A
ASP
60
n
60
ASP
60
A
GLY
1
n
1
GLY
1
B
SER
2
n
2
SER
2
B
ALA
3
n
3
ALA
3
B
ALA
4
n
4
ALA
4
B
SER
5
n
5
SER
5
B
PRO
6
n
6
PRO
6
B
ALA
7
n
7
ALA
7
B
VAL
8
n
8
VAL
8
B
ASP
9
n
9
ASP
9
B
ILE
10
n
10
ILE
10
B
GLY
11
n
11
GLY
11
B
ASP
12
n
12
ASP
12
B
ARG
13
n
13
ARG
13
B
LEU
14
n
14
LEU
14
B
ASP
15
n
15
ASP
15
B
GLU
16
n
16
GLU
16
B
LEU
17
n
17
LEU
17
B
GLU
18
n
18
GLU
18
B
LYS
19
n
19
LYS
19
B
ALA
20
n
20
ALA
20
B
LEU
21
n
21
LEU
21
B
GLU
22
n
22
GLU
22
B
ALA
23
n
23
ALA
23
B
LEU
24
n
24
LEU
24
B
SER
25
n
25
SER
25
B
ALA
26
n
26
ALA
26
B
GLU
27
n
27
GLU
27
B
ASP
28
n
28
ASP
28
B
GLY
29
n
29
GLY
29
B
HIS
30
n
30
HIS
30
B
ASP
31
n
31
ASP
31
B
ASP
32
n
32
ASP
32
B
VAL
33
n
33
VAL
33
B
GLY
34
n
34
GLY
34
B
GLN
35
n
35
GLN
35
B
ARG
36
n
36
ARG
36
B
LEU
37
n
37
LEU
37
B
GLU
38
n
38
GLU
38
B
SER
39
n
39
SER
39
B
LEU
40
n
40
LEU
40
B
LEU
41
n
41
LEU
41
B
ARG
42
n
42
ARG
42
B
ARG
43
n
43
ARG
43
B
TRP
44
n
44
TRP
44
B
ASN
45
n
45
ASN
45
B
SER
46
n
46
SER
46
B
ARG
47
n
47
ARG
47
B
ARG
48
n
48
ARG
48
B
ALA
49
n
49
ALA
49
B
ASP
50
n
50
ASP
50
B
ALA
51
n
51
ALA
51
B
PRO
52
n
52
PRO
52
B
SER
53
n
53
SER
53
B
THR
54
n
54
THR
54
B
SER
55
n
55
SER
55
B
ALA
56
n
56
ALA
56
B
ILE
57
n
57
ILE
57
B
SER
58
n
58
SER
58
B
GLU
59
n
59
GLU
59
B
ASP
60
n
60
ASP
60
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
1
A
A
O
H
ASP
GLY
9
11
1.58
2
A
B
HA
HE
LEU
ARG
17
13
1.26
3
A
A
O
H
LEU
ASN
41
45
1.59
4
A
B
H
HB2
ALA
ALA
7
20
1.32
4
A
A
O
H
ASP
GLY
9
11
1.59
4
A
A
O
H
LEU
ASN
41
45
1.60
5
A
A
O
H
LEU
ASN
41
45
1.60
6
A
A
O
H
LEU
ASN
41
45
1.59
6
A
A
O
H
ASP
GLY
9
11
1.60
7
A
A
O
H
ASP
GLY
9
11
1.60
8
A
B
HH11
HB3
ARG
ALA
13
20
1.26
8
A
A
O
H
ASP
GLY
9
11
1.58
1
A
ALA
4
-172.99
-139.57
1
A
SER
5
64.50
128.19
1
A
PRO
6
-71.38
-167.39
1
A
ILE
10
55.40
-50.28
1
A
SER
25
-47.21
84.18
1
A
ASP
28
-162.30
52.21
1
A
HIS
30
-75.45
44.60
1
A
ASP
50
-67.25
84.19
1
A
THR
54
-165.60
-41.15
1
A
SER
55
-163.10
-49.42
1
B
ALA
4
-174.01
-139.78
1
B
SER
5
63.59
127.02
1
B
PRO
6
-68.70
-159.01
1
B
ASP
9
76.94
-12.87
1
B
ILE
10
69.58
-40.82
1
B
SER
25
-54.75
86.60
1
B
ASP
28
-159.09
60.83
1
B
HIS
30
-74.46
37.65
1
B
ASP
50
-62.16
93.47
1
B
ALA
51
-172.32
134.16
1
B
THR
54
-164.87
-41.27
1
B
SER
55
-162.90
-49.54
2
A
SER
2
-79.05
43.94
2
A
SER
5
-174.80
57.35
2
A
ILE
10
45.93
-59.61
2
A
SER
25
-46.54
84.06
2
A
ASP
28
-162.60
52.08
2
A
HIS
30
-75.18
44.96
2
A
ALA
51
-177.68
132.76
2
A
SER
53
-177.13
-140.24
2
A
THR
54
-175.55
136.32
2
A
ALA
56
-176.35
-138.28
2
A
ILE
57
-174.14
136.27
2
A
SER
58
-173.39
-44.92
2
A
GLU
59
-172.45
135.79
2
B
SER
2
-78.89
43.10
2
B
SER
5
-171.14
53.85
2
B
ASP
9
69.19
-0.88
2
B
ILE
10
60.95
-58.36
2
B
SER
25
-53.10
86.47
2
B
ASP
28
-162.49
60.30
2
B
HIS
30
-75.40
41.07
2
B
ALA
51
-179.40
130.74
2
B
SER
53
-176.48
-140.31
2
B
THR
54
-175.40
136.81
2
B
ALA
56
-176.60
-138.84
2
B
ILE
57
-175.54
136.59
2
B
SER
58
-172.92
-43.16
2
B
GLU
59
-172.36
136.90
3
A
SER
2
64.56
134.96
3
A
ALA
3
-173.47
-139.24
3
A
PRO
6
-65.93
-166.70
3
A
ILE
10
58.19
-44.55
3
A
SER
25
-47.27
85.80
3
A
ASP
28
-160.79
51.27
3
A
HIS
30
-75.24
43.90
3
A
ALA
51
-168.16
62.26
3
A
PRO
52
-67.59
-135.24
3
A
SER
53
-168.83
51.92
3
A
THR
54
-167.60
-39.60
3
A
SER
58
-69.99
-138.68
3
A
GLU
59
-150.67
44.24
3
B
SER
2
64.68
133.43
3
B
ALA
3
-172.97
-139.20
3
B
PRO
6
-64.74
-159.62
3
B
ASP
9
78.12
-9.29
3
B
ILE
10
70.50
-41.06
3
B
SER
25
-49.41
82.08
3
B
ASP
28
-154.39
56.46
3
B
HIS
30
-74.46
35.63
3
B
ALA
51
-172.32
58.97
3
B
PRO
52
-65.36
-134.81
3
B
SER
53
-168.88
51.70
3
B
THR
54
-167.84
-39.70
3
B
SER
58
-68.82
-137.83
3
B
GLU
59
-151.68
44.66
4
A
SER
2
-69.19
-141.18
4
A
ALA
3
-173.23
134.41
4
A
ALA
4
-80.05
44.70
4
A
ILE
10
52.29
-52.58
4
A
SER
25
-46.84
79.51
4
A
ALA
26
45.05
28.11
4
A
ASP
28
-154.55
50.08
4
A
HIS
30
-76.84
43.82
4
A
ASP
50
-82.12
47.92
4
A
SER
55
-170.90
44.17
4
A
ALA
56
-79.44
44.57
4
A
SER
58
-69.23
-137.30
4
B
SER
2
-68.66
-139.30
4
B
ALA
3
-174.79
135.17
4
B
ALA
4
-77.63
39.38
4
B
ASP
9
77.60
-4.80
4
B
ILE
10
67.03
-48.28
4
B
SER
25
-51.21
79.62
4
B
ASP
28
-147.50
54.99
4
B
HIS
30
-74.93
35.85
4
B
ASP
50
-79.84
47.25
4
B
SER
53
-75.96
49.67
4
B
SER
55
-171.39
44.19
4
B
ALA
56
-79.68
45.06
4
B
SER
58
-68.67
-138.13
5
A
ALA
3
57.90
-138.42
5
A
ALA
4
-172.16
-140.34
5
A
SER
5
-175.62
56.47
5
A
ASP
9
80.31
-1.62
5
A
ILE
10
59.11
-42.24
5
A
SER
25
-45.98
85.50
5
A
ASP
28
-162.91
51.74
5
A
HIS
30
-75.10
46.28
5
A
ASP
50
-67.30
82.85
5
A
ALA
56
-170.20
-45.48
5
A
ILE
57
-175.55
135.27
5
B
ALA
3
57.87
-137.84
5
B
ALA
4
-173.14
-138.74
5
B
SER
5
-172.34
57.12
5
B
ASP
9
83.40
-12.38
5
B
ILE
10
71.36
-39.33
5
B
SER
25
-48.66
82.39
5
B
ASP
28
-157.87
60.24
5
B
HIS
30
-74.44
39.53
5
B
ASP
50
-62.68
86.87
5
B
ALA
56
-170.35
-45.95
5
B
ILE
57
-175.68
135.52
6
A
SER
2
-171.86
46.79
6
A
ALA
4
-79.66
47.37
6
A
ILE
10
56.18
-45.88
6
A
SER
25
-47.12
86.27
6
A
ASP
28
-161.80
50.98
6
A
HIS
30
-74.95
45.14
6
A
ASP
50
-78.60
46.28
6
A
ALA
51
-171.76
133.29
6
A
PRO
52
-77.23
44.11
6
A
SER
55
-171.30
137.38
6
A
SER
58
-171.68
45.27
6
B
SER
2
-163.37
44.08
6
B
ALA
4
-78.72
43.37
6
B
ASP
9
79.39
-7.31
6
B
ILE
10
69.09
-46.51
6
B
SER
25
-48.39
80.42
6
B
ASP
28
-154.35
54.27
6
B
HIS
30
-74.69
39.11
6
B
ASP
50
-76.81
46.00
6
B
ALA
51
-170.69
132.44
6
B
PRO
52
-77.03
44.55
6
B
SER
55
-171.78
136.93
6
B
SER
58
-174.38
43.11
7
A
SER
2
-173.89
-44.60
7
A
SER
5
-175.47
135.24
7
A
ILE
10
55.32
-50.02
7
A
SER
25
-46.00
82.53
7
A
ALA
26
44.15
29.41
7
A
ASP
28
-157.23
50.43
7
A
HIS
30
-76.22
45.84
7
A
ASP
50
-80.00
48.45
7
A
SER
53
56.43
-135.47
7
A
THR
54
-163.25
-45.63
7
A
SER
55
-174.03
43.58
7
A
ALA
56
-79.20
44.97
7
A
SER
58
56.86
-138.79
7
B
SER
2
-173.94
-44.12
7
B
SER
5
-173.56
131.88
7
B
ASP
9
80.02
-5.29
7
B
ILE
10
68.31
-41.81
7
B
SER
25
-48.70
82.64
7
B
ASP
28
-153.61
55.68
7
B
HIS
30
-74.97
39.42
7
B
ASP
50
-77.93
49.38
7
B
SER
53
57.44
-135.44
7
B
THR
54
-162.74
-46.10
7
B
SER
55
-174.38
43.52
7
B
ALA
56
-78.94
44.97
7
B
SER
58
56.88
-138.63
8
A
ALA
3
-172.92
47.99
8
A
SER
5
-172.37
133.03
8
A
ILE
10
51.79
-53.99
8
A
SER
25
-47.18
81.38
8
A
ALA
26
45.01
28.58
8
A
ASP
28
-155.40
50.19
8
A
HIS
30
-76.69
43.99
8
A
ASP
50
-79.78
45.82
8
A
ALA
51
-173.05
134.93
8
A
THR
54
-163.06
-44.56
8
A
SER
55
-173.00
134.32
8
A
ALA
56
65.12
134.39
8
A
SER
58
-174.28
-45.75
8
B
ALA
3
-172.60
46.27
8
B
ALA
4
-171.74
136.13
8
B
SER
5
-172.68
131.97
8
B
PRO
6
-65.46
-162.94
8
B
ASP
9
75.67
-9.10
8
B
ILE
10
67.93
-41.30
8
B
SER
25
-49.73
81.49
8
B
ASP
28
-150.60
54.19
8
B
HIS
30
-74.99
37.80
8
B
ASP
50
-77.63
45.46
8
B
ALA
51
-171.77
134.03
8
B
THR
54
-163.40
-48.32
8
B
ALA
56
63.27
137.01
8
B
SER
58
-173.92
-46.34
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
1
N
N
1
N
N
A
ILE
10
A
ILE
10
HELX_P
A
SER
25
A
SER
25
1
1
16
A
HIS
30
A
HIS
30
HELX_P
A
ASP
50
A
ASP
50
1
2
21
B
ILE
10
B
ILE
10
HELX_P
B
SER
25
B
SER
25
1
3
16
B
HIS
30
B
HIS
30
HELX_P
B
ASP
50
B
ASP
50
1
4
21
TRANSFERASE
FOUR HELIX BUNDLE, HOMODIMER, TRANSFERASE
ERYA2_SACER
UNP
1
3488
Q03132
LFAASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED
3490
3547
1PZQ
3
60
Q03132
A
1
3
60
3490
3547
1PZQ
3
60
Q03132
B
1
3
60
1
cloning artifact
GLY
1
1PZQ
A
Q03132
UNP
1
1
cloning artifact
SER
2
1PZQ
A
Q03132
UNP
2
2
cloning artifact
GLY
1
1PZQ
B
Q03132
UNP
1
2
cloning artifact
SER
2
1PZQ
B
Q03132
UNP
2