1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Nagata, K.
Hatanaka, H.
Kohda, D.
Inagaki, F.
Structural Proteomics in Europe (SPINE)
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 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
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
C5 H7 N O3
129.114
n
PYROGLUTAMIC ACID
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
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
253
749
758
10.1006/jmbi.1995.0588
7473749
Three-dimensional solution structure of bombyxin-II an insulin-like peptide of the silkmoth Bombyx mori: structural comparison with insulin and relaxin.
1995
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
2188.589
BOMBYXIN-II,BOMBYXIN A-2
1
man
polymer
3126.484
BOMBYXIN-II,BOMBYXIN A-6
1
man
polymer
no
no
GIVDECCLRPCSVDVLLSYC
GIVDECCLRPCSVDVLLSYC
A
polypeptide(L)
no
yes
(PCA)QPQAVHTYCGRHLARTLADLCWEAGVD
QQPQAVHTYCGRHLARTLADLCWEAGVD
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
domestic silkworm
Bombyx
sample
7091
Bombyx mori
domestic silkworm
Bombyx
sample
7091
Bombyx mori
Structural Proteomics in Europe
SPINE
entity_poly
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_mod_residue
pdbx_struct_oper_list
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Derived calculations
Other
Polymer sequence
1
0
1995-01-26
1
1
2008-03-24
1
2
2011-07-13
2
0
2019-12-25
_entity_poly.pdbx_seq_one_letter_code_can
_pdbx_database_status.process_site
_pdbx_struct_mod_residue.parent_comp_id
_struct_conn.pdbx_leaving_atom_flag
Y
Y
BNL
1994-07-21
REL
10
BRUNGER
refinement
X-PLOR
GLY
1
n
1
GLY
1
A
ILE
2
n
2
ILE
2
A
VAL
3
n
3
VAL
3
A
ASP
4
n
4
ASP
4
A
GLU
5
n
5
GLU
5
A
CYS
6
n
6
CYS
6
A
CYS
7
n
7
CYS
7
A
LEU
8
n
8
LEU
8
A
ARG
9
n
9
ARG
9
A
PRO
10
n
10
PRO
10
A
CYS
11
n
11
CYS
11
A
SER
12
n
12
SER
12
A
VAL
13
n
13
VAL
13
A
ASP
14
n
14
ASP
14
A
VAL
15
n
15
VAL
15
A
LEU
16
n
16
LEU
16
A
LEU
17
n
17
LEU
17
A
SER
18
n
18
SER
18
A
TYR
19
n
19
TYR
19
A
CYS
20
n
20
CYS
20
A
PCA
-2
n
1
PCA
-2
B
GLN
-1
n
2
GLN
-1
B
PRO
0
n
3
PRO
0
B
GLN
1
n
4
GLN
1
B
ALA
2
n
5
ALA
2
B
VAL
3
n
6
VAL
3
B
HIS
4
n
7
HIS
4
B
THR
5
n
8
THR
5
B
TYR
6
n
9
TYR
6
B
CYS
7
n
10
CYS
7
B
GLY
8
n
11
GLY
8
B
ARG
9
n
12
ARG
9
B
HIS
10
n
13
HIS
10
B
LEU
11
n
14
LEU
11
B
ALA
12
n
15
ALA
12
B
ARG
13
n
16
ARG
13
B
THR
14
n
17
THR
14
B
LEU
15
n
18
LEU
15
B
ALA
16
n
19
ALA
16
B
ASP
17
n
20
ASP
17
B
LEU
18
n
21
LEU
18
B
CYS
19
n
22
CYS
19
B
TRP
20
n
23
TRP
20
B
GLU
21
n
24
GLU
21
B
ALA
22
n
25
ALA
22
B
GLY
23
n
26
GLY
23
B
VAL
24
n
27
VAL
24
B
ASP
25
n
28
ASP
25
B
author_defined_assembly
2
dimeric
B
PCA
-2
PYROGLUTAMIC ACID
B
PCA
1
GLN
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
A
H
H
CYS
SER
11
12
1.26
2
B
B
O
H
GLY
HIS
8
10
1.59
3
A
A
H
H
CYS
SER
11
12
1.24
5
A
A
H
H
CYS
SER
11
12
1.30
7
A
A
H
H
CYS
SER
11
12
1.25
10
A
A
H
H
CYS
SER
11
12
1.31
1
A
ARG
9
0.181
SIDE CHAIN
1
B
ARG
9
0.231
SIDE CHAIN
1
B
ARG
13
0.284
SIDE CHAIN
2
B
ARG
9
0.275
SIDE CHAIN
3
A
ARG
9
0.186
SIDE CHAIN
3
B
ARG
9
0.185
SIDE CHAIN
3
B
ARG
13
0.267
SIDE CHAIN
4
A
ARG
9
0.217
SIDE CHAIN
4
B
ARG
9
0.284
SIDE CHAIN
4
B
ARG
13
0.309
SIDE CHAIN
5
A
ARG
9
0.260
SIDE CHAIN
5
B
ARG
9
0.279
SIDE CHAIN
5
B
ARG
13
0.086
SIDE CHAIN
6
A
ARG
9
0.276
SIDE CHAIN
6
B
TYR
6
0.061
SIDE CHAIN
6
B
ARG
9
0.278
SIDE CHAIN
6
B
ARG
13
0.268
SIDE CHAIN
7
A
ARG
9
0.093
SIDE CHAIN
7
B
ARG
9
0.281
SIDE CHAIN
7
B
ARG
13
0.225
SIDE CHAIN
8
A
ARG
9
0.293
SIDE CHAIN
8
B
ARG
9
0.149
SIDE CHAIN
8
B
ARG
13
0.227
SIDE CHAIN
9
A
ARG
9
0.296
SIDE CHAIN
9
B
ARG
9
0.315
SIDE CHAIN
9
B
ARG
13
0.317
SIDE CHAIN
10
A
ARG
9
0.231
SIDE CHAIN
10
B
ARG
9
0.263
SIDE CHAIN
10
B
ARG
13
0.250
SIDE CHAIN
1
-6.54
1.00
110.10
103.56
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
1
6.27
0.90
109.00
115.27
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
1
7.94
1.10
130.40
138.34
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
1
-6.01
1.00
107.30
101.29
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
2
-6.80
1.00
110.10
103.30
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
2
5.98
0.90
109.00
114.98
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
2
9.25
1.10
130.40
139.65
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
2
-6.63
1.00
107.30
100.67
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
3
-6.51
1.00
110.10
103.59
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
3
6.18
0.90
109.00
115.18
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
3
7.96
1.10
130.40
138.36
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
4
-6.45
1.00
110.10
103.65
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
4
6.19
0.90
109.00
115.19
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
4
8.47
1.10
130.40
138.87
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
4
-6.25
1.00
107.30
101.05
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
5
-6.43
1.00
110.10
103.67
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
5
6.25
0.90
109.00
115.25
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
5
7.95
1.10
130.40
138.35
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
5
-6.05
1.00
107.30
101.25
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
6
-10.44
1.70
113.60
103.16
B
B
B
CA
CB
CG
HIS
HIS
HIS
4
4
4
N
6
-6.38
1.00
110.10
103.72
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
6
6.17
0.90
109.00
115.17
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
6
7.86
1.10
130.40
138.26
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
6
-6.01
1.00
107.30
101.29
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
7
-6.40
1.00
110.10
103.70
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
7
6.14
0.90
109.00
115.14
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
7
8.14
1.10
130.40
138.54
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
7
-6.12
1.00
107.30
101.18
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
8
-6.42
1.00
110.10
103.68
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
8
6.04
0.90
109.00
115.04
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
8
8.51
1.10
130.40
138.91
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
8
-6.23
1.00
107.30
101.07
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
9
-6.33
1.00
110.10
103.77
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
9
6.04
0.90
109.00
115.04
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
9
7.89
1.10
130.40
138.29
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
10
-6.58
1.00
110.10
103.52
B
B
B
CG
CD1
NE1
TRP
TRP
TRP
20
20
20
N
10
6.02
0.90
109.00
115.02
B
B
B
CD1
NE1
CE2
TRP
TRP
TRP
20
20
20
N
10
8.80
1.10
130.40
139.20
B
B
B
NE1
CE2
CZ2
TRP
TRP
TRP
20
20
20
N
10
-6.32
1.00
107.30
100.98
B
B
B
NE1
CE2
CD2
TRP
TRP
TRP
20
20
20
N
1
B
B
CG
ND1
HIS
HIS
4
4
-0.102
0.015
1.369
1.267
N
1
B
B
CG
ND1
HIS
HIS
10
10
-0.099
0.015
1.369
1.270
N
2
B
B
CG
ND1
HIS
HIS
4
4
-0.104
0.015
1.369
1.265
N
2
B
B
CG
ND1
HIS
HIS
10
10
-0.105
0.015
1.369
1.264
N
2
B
B
CG
CD2
TRP
TRP
20
20
-0.108
0.017
1.432
1.324
N
3
B
B
CG
ND1
HIS
HIS
4
4
-0.103
0.015
1.369
1.266
N
3
B
B
CG
ND1
HIS
HIS
10
10
-0.100
0.015
1.369
1.269
N
4
B
B
CG
ND1
HIS
HIS
4
4
-0.100
0.015
1.369
1.269
N
4
B
B
CG
ND1
HIS
HIS
10
10
-0.101
0.015
1.369
1.268
N
5
B
B
CG
ND1
HIS
HIS
4
4
-0.104
0.015
1.369
1.265
N
5
B
B
CG
ND1
HIS
HIS
10
10
-0.101
0.015
1.369
1.268
N
6
B
B
CG
ND1
HIS
HIS
4
4
-0.102
0.015
1.369
1.267
N
6
B
B
CG
ND1
HIS
HIS
10
10
-0.097
0.015
1.369
1.272
N
7
B
B
CG
ND1
HIS
HIS
4
4
-0.101
0.015
1.369
1.268
N
7
B
B
CG
ND1
HIS
HIS
10
10
-0.100
0.015
1.369
1.269
N
8
B
B
CG
ND1
HIS
HIS
4
4
-0.101
0.015
1.369
1.268
N
8
B
B
CG
ND1
HIS
HIS
10
10
-0.108
0.015
1.369
1.261
N
9
B
B
CG
ND1
HIS
HIS
4
4
-0.103
0.015
1.369
1.266
N
9
B
B
CG
ND1
HIS
HIS
10
10
-0.102
0.015
1.369
1.267
N
10
B
B
CG
ND1
HIS
HIS
4
4
-0.103
0.015
1.369
1.266
N
10
B
B
CG
ND1
HIS
HIS
10
10
-0.100
0.015
1.369
1.269
N
1
A
PRO
10
-43.26
174.18
1
A
CYS
11
-179.40
18.84
1
A
SER
12
-35.43
137.31
1
A
VAL
13
-13.28
-51.76
1
A
ASP
14
-62.87
13.99
1
A
VAL
15
-131.85
-31.36
1
B
GLN
-1
-149.72
59.54
1
B
PRO
0
-85.98
-151.05
1
B
GLN
1
-154.02
39.97
1
B
ALA
2
-85.94
-102.42
1
B
HIS
4
-70.39
35.23
1
B
THR
5
-44.99
153.73
1
B
TYR
6
-92.97
-153.39
1
B
CYS
7
-171.47
108.24
1
B
ARG
9
62.48
-67.86
1
B
HIS
10
-55.04
-9.68
1
B
VAL
24
-45.37
-15.40
2
A
PRO
10
-36.54
167.83
2
A
CYS
11
-164.53
13.14
2
A
SER
12
-34.39
129.72
2
A
VAL
13
-11.63
-52.64
2
A
ASP
14
-56.19
0.48
2
B
PRO
0
-84.33
-152.26
2
B
ALA
2
168.39
111.11
2
B
HIS
4
-36.02
86.76
2
B
TYR
6
-101.08
-154.35
2
B
CYS
7
-174.80
117.10
2
B
ARG
9
62.02
-55.66
2
B
HIS
10
-55.01
-3.95
2
B
VAL
24
-39.91
-20.28
3
A
ASP
4
-78.54
25.02
3
A
GLU
5
-136.29
-34.91
3
A
PRO
10
-44.01
-179.74
3
A
CYS
11
176.84
21.94
3
A
SER
12
-32.51
136.37
3
A
VAL
13
-9.61
-52.90
3
A
ASP
14
-61.25
13.08
3
B
PRO
0
-71.02
-153.22
3
B
GLN
1
-74.80
-73.48
3
B
ALA
2
175.51
94.22
3
B
HIS
4
-66.25
75.02
3
B
ARG
9
57.81
-76.76
3
B
HIS
10
-47.53
-18.30
4
A
PRO
10
-37.58
164.84
4
A
CYS
11
-159.14
22.50
4
A
SER
12
-31.19
131.69
4
A
VAL
13
-3.71
-53.78
4
B
GLN
-1
48.38
75.10
4
B
PRO
0
-77.42
-148.03
4
B
ALA
2
-0.51
-74.49
4
B
VAL
3
-140.78
-1.63
4
B
HIS
4
-64.60
26.96
4
B
THR
5
-45.95
154.27
4
B
ARG
9
56.07
-72.50
4
B
VAL
24
-46.66
-12.61
5
A
ILE
2
-47.20
-70.13
5
A
GLU
5
-138.83
-31.24
5
A
PRO
10
-39.18
168.98
5
A
CYS
11
-176.65
16.91
5
A
SER
12
-30.04
127.15
5
A
VAL
13
-6.80
-54.77
5
B
GLN
-1
51.53
84.98
5
B
PRO
0
-81.08
-156.04
5
B
ALA
2
-177.97
94.25
5
B
HIS
4
-52.22
79.80
5
B
CYS
7
-160.37
90.15
5
B
ARG
9
56.78
-69.71
5
B
HIS
10
-46.21
-17.31
6
A
ASP
4
-75.94
23.31
6
A
PRO
10
-36.55
167.78
6
A
CYS
11
-155.33
13.60
6
A
SER
12
-35.97
131.57
6
A
VAL
13
-11.29
-52.74
6
A
ASP
14
-61.47
10.14
6
B
GLN
-1
-5.19
80.55
6
B
PRO
0
-65.50
69.88
6
B
GLN
1
67.77
-65.57
6
B
ALA
2
-128.28
-125.93
6
B
HIS
4
-99.49
30.65
6
B
THR
5
5.93
127.75
6
B
ARG
9
61.39
-69.09
6
B
HIS
10
-44.80
-16.18
6
B
ARG
13
-92.89
-60.45
6
B
VAL
24
-44.61
-17.41
7
A
ASP
4
-78.84
27.72
7
A
GLU
5
-141.39
-25.75
7
A
PRO
10
-41.26
173.37
7
A
CYS
11
-178.54
20.23
7
A
SER
12
-34.40
142.42
7
A
VAL
13
-13.24
-51.80
7
A
ASP
14
-61.90
10.98
7
B
ALA
2
79.36
106.84
7
B
HIS
4
-62.90
-132.18
7
B
THR
5
167.12
58.80
7
B
TYR
6
-163.71
-111.40
7
B
CYS
7
71.93
96.85
7
B
ARG
9
67.34
-58.14
7
B
HIS
10
-62.98
9.07
7
B
VAL
24
-48.11
-5.04
8
A
PRO
10
-33.08
159.42
8
A
CYS
11
-178.80
23.00
8
A
SER
12
-43.30
153.03
8
A
VAL
13
-19.51
-50.18
8
A
ASP
14
-61.95
10.62
8
B
PRO
0
-69.97
-154.20
8
B
ALA
2
-91.02
-120.83
8
B
VAL
3
-153.13
-35.58
8
B
HIS
4
-100.75
-101.57
8
B
THR
5
52.92
139.71
8
B
CYS
7
58.80
146.42
8
B
ARG
9
89.20
-60.95
8
B
VAL
24
-39.85
-23.35
9
A
PRO
10
-39.61
171.61
9
A
CYS
11
-166.61
20.62
9
A
SER
12
-35.62
135.66
9
A
VAL
13
-13.49
-51.48
9
A
ASP
14
-56.99
1.17
9
B
GLN
-1
39.87
66.96
9
B
PRO
0
-85.03
-153.52
9
B
ALA
2
65.88
97.97
9
B
HIS
4
-26.97
84.63
9
B
ARG
9
91.34
-64.35
9
B
VAL
24
-40.40
-19.10
10
A
ASP
4
-77.41
24.88
10
A
PRO
10
-37.98
160.86
10
A
CYS
11
-178.24
16.76
10
A
VAL
13
-20.00
-49.54
10
A
ASP
14
-62.53
14.04
10
B
GLN
-1
-32.94
98.41
10
B
PRO
0
-75.45
-147.33
10
B
ALA
2
54.00
103.18
10
B
VAL
3
-153.92
-3.94
10
B
HIS
4
-28.34
84.41
10
B
TYR
6
-103.25
-162.67
10
B
ARG
9
63.31
-69.88
10
B
HIS
10
-54.40
-9.98
model building
X-PLOR
refinement
X-PLOR
phasing
X-PLOR
BOMBYXIN-II (NMR, 10 STRUCTURES)
THREE-DIMENSIONAL STRUCTURE OF BOMBYXIN-II, AN INSULIN-RELATED BRAIN-SECRETORY PEPTIDE OF THE SILKMOTH BOMBYX MORI: COMPARISON WITH INSULIN AND RELAXIN
1
N
N
2
N
N
A
ILE
2
A
ILE
2
HELX_P
A
LEU
8
A
LEU
8
1
H1
7
A
VAL
13
A
VAL
13
HELX_P
A
TYR
19
A
TYR
19
1
H2
7
B
ARG
9
B
ARG
12
HELX_P
B
ALA
22
B
ALA
25
1
H3
14
disulf
2.018
A
CYS
6
A
SG
CYS
6
1_555
A
CYS
11
A
SG
CYS
11
1_555
disulf
2.023
A
CYS
7
A
SG
CYS
7
1_555
B
CYS
7
B
SG
CYS
10
1_555
disulf
2.024
A
CYS
20
A
SG
CYS
20
1_555
B
CYS
19
B
SG
CYS
22
1_555
covale
1.306
both
B
PCA
-2
B
C
PCA
1
1_555
B
GLN
-1
B
N
GLN
2
1_555
HORMONE
HORMONE, Structural Proteomics in Europe, SPINE, Structural Genomics
BXA2_BOMMO
UNP
1
70
P15411
BXA6_BOMMO
UNP
2
20
P26729
70
89
1BON
1
20
P15411
A
1
1
20
20
47
1BON
-1
25
P26729
B
2
2
28
1
P 1