1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Wu, K.P.
Wu, C.W.
Tsao, Y.P.
Lou, Y.C.
Lin, C.W.
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
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
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
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
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
278
46007
46013
10.1074/jbc.M307776200
12952958
Structural Basis of a Flavivirus Recognized by Its Neutralizing Antibody: SOLUTION STRUCTURE OF THE DOMAIN III OF THE JAPANESE ENCEPHALITIS VIRUS ENVELOPE PROTEIN.
2003
10.2210/pdb1pjw/pdb
pdb_00001pjw
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
11769.368
envelope protein
Domain III
1
man
polymer
no
no
DKLALKGTTYGMCTEKFSFAKNPADTGHGTVVIELSYSGSDGPCKIPIVSVASLNDMTPVGRLVTVNPFVATSSANSKVL
VEMEPPFGDSYIVVGMGDKQINHHWHKAGST
DKLALKGTTYGMCTEKFSFAKNPADTGHGTVVIELSYSGSDGPCKIPIVSVASLNDMTPVGRLVTVNPFVATSSANSKVL
VEMEPPFGDSYIVVGMGDKQINHHWHKAGST
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
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
Flavivirus
Escherichia
Escherichia coli
sample
11072
Japanese encephalitis virus
511693
Escherichia coli BL21
BL21
PLASMID
PET22b
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
2003-11-25
1
1
2008-04-29
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
RCSB
Y
PDBJ
2003-06-04
REL
REL
The structure was determined using triple-resonance NMR spectroscopy.
structures with acceptable covalent geometry, structures with favorable non-bond energy, structures with the least restraint violations, structures with the lowest energy
100
15
2D NOESY
2D TOCSY
3D_15N-separated_NOESY
3D_13C-separated_NOESY
HNHA
7.5
ambient
308
K
The structures are based on a total of 957 restraints, 717 are NOE-derived distance constraints, 194 dihedral angle restraints,46 distance restraints from hydrogen bonds.
simulated annealing
1
lowest energy
2.3mM JEV domain III protein, N15-C13 labled and N15-labled, 136mM NaCl, 2.68mM KCl, 10mM Na2HPO4, 1.76mM KH2PO4
90% H2O/10% D2O
Bo Blanton
collection
XwinNMR
2.6
Peter Neidig
processing
AURELIA
2.1
Delaglio F.
data analysis
NMRPipe
Brunger
structure solution
X-PLOR
3.851
refinement
X-PLOR
3.851
600
Bruker
DMX
ASP
1
n
1
ASP
1
A
LYS
2
n
2
LYS
2
A
LEU
3
n
3
LEU
3
A
ALA
4
n
4
ALA
4
A
LEU
5
n
5
LEU
5
A
LYS
6
n
6
LYS
6
A
GLY
7
n
7
GLY
7
A
THR
8
n
8
THR
8
A
THR
9
n
9
THR
9
A
TYR
10
n
10
TYR
10
A
GLY
11
n
11
GLY
11
A
MET
12
n
12
MET
12
A
CYS
13
n
13
CYS
13
A
THR
14
n
14
THR
14
A
GLU
15
n
15
GLU
15
A
LYS
16
n
16
LYS
16
A
PHE
17
n
17
PHE
17
A
SER
18
n
18
SER
18
A
PHE
19
n
19
PHE
19
A
ALA
20
n
20
ALA
20
A
LYS
21
n
21
LYS
21
A
ASN
22
n
22
ASN
22
A
PRO
23
n
23
PRO
23
A
ALA
24
n
24
ALA
24
A
ASP
25
n
25
ASP
25
A
THR
26
n
26
THR
26
A
GLY
27
n
27
GLY
27
A
HIS
28
n
28
HIS
28
A
GLY
29
n
29
GLY
29
A
THR
30
n
30
THR
30
A
VAL
31
n
31
VAL
31
A
VAL
32
n
32
VAL
32
A
ILE
33
n
33
ILE
33
A
GLU
34
n
34
GLU
34
A
LEU
35
n
35
LEU
35
A
SER
36
n
36
SER
36
A
TYR
37
n
37
TYR
37
A
SER
38
n
38
SER
38
A
GLY
39
n
39
GLY
39
A
SER
40
n
40
SER
40
A
ASP
41
n
41
ASP
41
A
GLY
42
n
42
GLY
42
A
PRO
43
n
43
PRO
43
A
CYS
44
n
44
CYS
44
A
LYS
45
n
45
LYS
45
A
ILE
46
n
46
ILE
46
A
PRO
47
n
47
PRO
47
A
ILE
48
n
48
ILE
48
A
VAL
49
n
49
VAL
49
A
SER
50
n
50
SER
50
A
VAL
51
n
51
VAL
51
A
ALA
52
n
52
ALA
52
A
SER
53
n
53
SER
53
A
LEU
54
n
54
LEU
54
A
ASN
55
n
55
ASN
55
A
ASP
56
n
56
ASP
56
A
MET
57
n
57
MET
57
A
THR
58
n
58
THR
58
A
PRO
59
n
59
PRO
59
A
VAL
60
n
60
VAL
60
A
GLY
61
n
61
GLY
61
A
ARG
62
n
62
ARG
62
A
LEU
63
n
63
LEU
63
A
VAL
64
n
64
VAL
64
A
THR
65
n
65
THR
65
A
VAL
66
n
66
VAL
66
A
ASN
67
n
67
ASN
67
A
PRO
68
n
68
PRO
68
A
PHE
69
n
69
PHE
69
A
VAL
70
n
70
VAL
70
A
ALA
71
n
71
ALA
71
A
THR
72
n
72
THR
72
A
SER
73
n
73
SER
73
A
SER
74
n
74
SER
74
A
ALA
75
n
75
ALA
75
A
ASN
76
n
76
ASN
76
A
SER
77
n
77
SER
77
A
LYS
78
n
78
LYS
78
A
VAL
79
n
79
VAL
79
A
LEU
80
n
80
LEU
80
A
VAL
81
n
81
VAL
81
A
GLU
82
n
82
GLU
82
A
MET
83
n
83
MET
83
A
GLU
84
n
84
GLU
84
A
PRO
85
n
85
PRO
85
A
PRO
86
n
86
PRO
86
A
PHE
87
n
87
PHE
87
A
GLY
88
n
88
GLY
88
A
ASP
89
n
89
ASP
89
A
SER
90
n
90
SER
90
A
TYR
91
n
91
TYR
91
A
ILE
92
n
92
ILE
92
A
VAL
93
n
93
VAL
93
A
VAL
94
n
94
VAL
94
A
GLY
95
n
95
GLY
95
A
MET
96
n
96
MET
96
A
GLY
97
n
97
GLY
97
A
ASP
98
n
98
ASP
98
A
LYS
99
n
99
LYS
99
A
GLN
100
n
100
GLN
100
A
ILE
101
n
101
ILE
101
A
ASN
102
n
102
ASN
102
A
HIS
103
n
103
HIS
103
A
HIS
104
n
104
HIS
104
A
TRP
105
n
105
TRP
105
A
HIS
106
n
106
HIS
106
A
LYS
107
n
107
LYS
107
A
ALA
108
n
108
ALA
108
A
GLY
109
n
109
GLY
109
A
SER
110
n
110
SER
110
A
THR
111
n
111
THR
111
A
author_defined_assembly
1
monomeric
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
A
N
ALA
24
A
N
ALA
24
A
O
VAL
32
A
O
VAL
32
A
N
ILE
33
A
N
ILE
33
A
O
VAL
81
A
O
VAL
81
A
N
VAL
51
A
N
VAL
51
A
O
TYR
91
A
O
TYR
91
A
N
ILE
92
A
N
ILE
92
A
O
HIS
103
A
O
HIS
103
1
A
A
H
O
THR
THR
26
30
1.60
2
A
A
H
O
SER
ASP
53
89
1.59
5
A
A
H
O
ILE
PRO
46
68
1.59
7
A
A
H
O
SER
ASP
53
89
1.60
8
A
A
H
O
SER
ASP
53
89
1.51
9
A
A
H
O
SER
ASP
53
89
1.54
9
A
A
H
O
THR
THR
26
30
1.60
11
A
A
H
O
ILE
PRO
46
68
1.55
11
A
A
HH
O
TYR
GLY
37
42
1.56
13
A
A
H
O
SER
ASP
53
89
1.47
14
A
A
H
O
SER
ASP
53
89
1.57
1
A
ARG
62
0.241
SIDE CHAIN
3
A
ARG
62
0.208
SIDE CHAIN
4
A
ARG
62
0.236
SIDE CHAIN
5
A
ARG
62
0.307
SIDE CHAIN
6
A
ARG
62
0.175
SIDE CHAIN
7
A
ARG
62
0.314
SIDE CHAIN
8
A
ARG
62
0.301
SIDE CHAIN
9
A
ARG
62
0.296
SIDE CHAIN
10
A
ARG
62
0.303
SIDE CHAIN
11
A
ARG
62
0.215
SIDE CHAIN
13
A
ARG
62
0.249
SIDE CHAIN
14
A
ARG
62
0.260
SIDE CHAIN
15
A
ARG
62
0.278
SIDE CHAIN
1
A
THR
9
-47.56
109.43
1
A
THR
14
-161.56
41.96
1
A
LEU
54
81.47
29.96
1
A
VAL
60
-143.89
-49.08
1
A
VAL
66
-44.65
170.68
1
A
ASN
67
-47.08
157.70
1
A
LYS
78
-62.87
88.86
1
A
GLU
84
-113.43
62.87
1
A
MET
96
-108.38
-150.77
1
A
ASP
98
-74.98
-105.67
1
A
ALA
108
179.76
152.36
2
A
LYS
6
-106.66
-164.03
2
A
THR
14
-160.84
42.12
2
A
LEU
54
81.17
29.55
2
A
VAL
60
-139.20
-36.22
2
A
VAL
66
-47.16
173.30
2
A
LYS
78
-63.21
88.06
2
A
GLU
84
-117.95
68.56
2
A
ASP
98
-64.00
-108.41
2
A
ALA
108
-172.69
131.06
3
A
TYR
10
-46.79
174.47
3
A
THR
14
-161.43
44.04
3
A
LYS
16
-111.48
61.85
3
A
LEU
54
79.53
30.51
3
A
VAL
60
-148.24
-37.37
3
A
VAL
66
-55.07
-170.61
3
A
LYS
78
-64.34
89.56
3
A
GLU
84
-118.07
70.05
3
A
ASP
98
-71.14
-75.58
3
A
ALA
108
179.73
141.14
4
A
THR
9
-46.67
155.42
4
A
THR
14
-158.24
-76.55
4
A
LYS
16
-56.04
81.97
4
A
LEU
54
77.21
30.76
4
A
VAL
60
-143.86
-36.41
4
A
VAL
66
-57.92
-175.02
4
A
ASN
67
-46.93
156.91
4
A
ALA
71
-66.09
65.01
4
A
LYS
78
-62.96
88.33
4
A
GLU
84
-106.57
72.72
4
A
ASP
98
-65.97
-82.82
4
A
SER
110
-65.15
-150.47
5
A
LEU
5
-103.71
73.98
5
A
THR
9
-114.26
76.30
5
A
THR
14
-160.54
61.70
5
A
LEU
54
80.07
30.39
5
A
VAL
60
-133.83
-59.42
5
A
VAL
66
-44.34
171.25
5
A
ASN
67
-46.86
162.20
5
A
LYS
78
-63.92
89.11
5
A
GLU
84
-106.13
73.96
5
A
PHE
87
-53.71
103.49
5
A
TRP
105
-58.06
93.59
6
A
THR
14
-161.32
51.16
6
A
LYS
16
-101.48
61.29
6
A
PHE
19
-59.02
107.94
6
A
LEU
54
79.72
30.49
6
A
VAL
60
-148.07
-33.67
6
A
VAL
66
-58.14
176.16
6
A
LYS
78
-63.19
88.62
6
A
MET
96
-98.36
-71.41
6
A
ASP
98
-162.18
-46.96
6
A
SER
110
-141.65
43.30
7
A
LYS
6
-120.28
-165.12
7
A
THR
14
-161.75
35.84
7
A
SER
40
-82.95
31.08
7
A
LEU
54
78.32
30.56
7
A
VAL
60
-139.31
-46.87
7
A
VAL
66
-54.76
-172.74
7
A
VAL
70
-103.69
60.26
7
A
ALA
71
-69.67
57.86
7
A
LYS
78
-63.70
88.38
7
A
ASP
98
-82.38
-77.61
7
A
ALA
108
-174.57
111.94
8
A
THR
14
-160.76
31.80
8
A
LEU
54
170.68
-61.67
8
A
VAL
60
-135.02
-47.77
8
A
VAL
66
-50.99
179.99
8
A
LYS
78
-62.91
88.72
8
A
GLU
84
-115.86
57.05
8
A
ASP
98
-160.56
-50.91
9
A
THR
14
-161.58
53.95
9
A
PHE
19
-60.97
96.87
9
A
LEU
54
87.18
29.27
9
A
VAL
60
-131.45
-33.72
9
A
VAL
66
-59.15
-170.74
9
A
LYS
78
-62.79
87.94
9
A
GLU
84
-106.93
74.87
9
A
MET
96
-115.74
70.07
9
A
ASP
98
-149.36
-88.10
9
A
SER
110
-174.70
-33.79
10
A
LEU
5
-110.95
62.58
10
A
THR
14
-161.98
35.63
10
A
GLU
15
-68.25
3.51
10
A
LYS
16
-105.18
60.55
10
A
PHE
19
-56.02
97.10
10
A
LEU
54
117.69
19.61
10
A
VAL
60
-137.86
-42.32
10
A
VAL
66
-53.40
179.34
10
A
LYS
78
-62.86
90.48
10
A
GLU
84
-114.46
59.30
10
A
ASP
98
-81.39
-70.16
11
A
THR
9
-45.44
95.60
11
A
THR
14
-162.93
19.54
11
A
THR
26
-134.24
-45.55
11
A
LEU
54
78.72
30.24
11
A
VAL
60
-135.12
-43.66
11
A
VAL
66
-52.87
-170.48
11
A
LYS
78
-63.44
88.83
11
A
GLU
84
-109.34
75.55
11
A
ASP
98
-90.60
-85.26
11
A
TRP
105
-59.78
109.52
11
A
SER
110
57.17
101.48
12
A
THR
9
-44.64
156.37
12
A
THR
14
-160.27
50.37
12
A
GLU
15
-77.88
28.18
12
A
PHE
19
-61.24
98.38
12
A
LEU
54
173.19
-71.62
12
A
VAL
66
-41.23
159.78
12
A
ASN
67
-46.58
158.59
12
A
LYS
78
-63.14
88.65
12
A
GLU
84
-115.33
66.24
12
A
MET
96
-153.54
13.89
12
A
ASP
98
-99.44
-68.71
12
A
TRP
105
-58.51
93.89
13
A
THR
14
-162.25
28.90
13
A
SER
53
-67.61
99.90
13
A
LEU
54
172.06
-67.15
13
A
VAL
60
-147.18
10.41
13
A
VAL
64
-100.07
42.79
13
A
VAL
66
-52.72
-171.25
13
A
LYS
78
-63.16
89.03
13
A
GLU
84
-110.79
67.89
13
A
ASP
98
-63.75
-107.59
13
A
TRP
105
-51.76
99.38
14
A
TYR
10
-48.07
179.06
14
A
THR
14
-162.22
25.09
14
A
GLU
15
-49.78
-18.67
14
A
THR
26
-100.66
-80.84
14
A
LEU
54
171.00
-64.12
14
A
VAL
60
-142.30
-36.35
14
A
VAL
66
-44.09
168.93
14
A
LYS
78
-62.98
88.47
14
A
GLU
84
-109.24
76.62
14
A
HIS
104
-119.34
79.92
14
A
ALA
108
-47.49
154.72
14
A
SER
110
-66.46
-177.22
15
A
THR
9
-51.17
173.87
15
A
THR
14
-161.50
62.80
15
A
LEU
54
78.58
30.55
15
A
VAL
60
-142.31
-31.43
15
A
VAL
66
-52.23
-172.29
15
A
VAL
70
-116.29
60.43
15
A
LYS
78
-63.35
88.82
15
A
GLU
84
-114.69
66.38
Solution Structure of the Domain III of the Japan Encephalitis Virus Envelope Protein
1
N
N
disulf
2.024
A
CYS
13
A
SG
CYS
13
1_555
A
CYS
44
A
SG
CYS
44
1_555
VIRAL PROTEIN
flavivirus, JEV, E protein, epitope mapping, Viral protein
Q9J0X3_9FLAV
UNP
1
292
Q9J0X3
DKLALKGTTYGMCTEKFSFAKNPADTGHGTVVIELSYSGSDGPCKIPIVSVASLNDMTPVGRLVTVNPFVATSSANSKVL
VEMEPPFGDSYIVVGMGDKQINHHWHKAGST
292
402
1PJW
1
111
Q9J0X3
A
1
1
111
3
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
PHE
17
A
PHE
17
A
ASP
25
A
ASP
25
A
VAL
31
A
VAL
31
A
TYR
37
A
TYR
37
A
LYS
78
A
LYS
78
A
MET
83
A
MET
83
A
ILE
48
A
ILE
48
A
ALA
52
A
ALA
52
A
SER
90
A
SER
90
A
GLY
95
A
GLY
95
A
GLN
100
A
GLN
100
A
TRP
105
A
TRP
105