1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Naik, M.T.
Kung, C.C.-H.
Huang, T.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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 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
To be Published
0353
Solution structure of Blo 1 12 CBD domain.
10.2210/pdb2mfk/pdb
pdb_00002mfk
7528.647
Blo 1 12
Chitin-binding domain (CBD)
1
man
polymer
no
no
GPLGSDLIVHEGGKTYHVVCHEEGPIPHPGNVHKYIICSKSGSLWYITVMPCSIGTKFDPISRNCVLDN
GPLGSDLIVHEGGKTYHVVCHEEGPIPHPGNVHKYIICSKSGSLWYITVMPCSIGTKFDPISRNCVLDN
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
sample
Blo t 12.0102
40697
Blomia tropicalis
562
Escherichia coli
BL21(DE3)
pGEX6P-3
vector
The data deposited under this entry was used to solve structure of chitin-binding domain of allergen Blo t 12. The structure describes Blo t 12.0102 isoform identified from the mites found in Singapore.
database_2
pdbx_database_status
pdbx_nmr_software
pdbx_nmr_spectrometer
repository
Initial release
Data collection
Database references
Other
1
0
2014-11-19
1
1
2023-06-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_nmr_data
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
BMRB
Y
PDBJ
2013-10-15
REL
REL
REL
REL
FIRST FIVE RESIDUES (GPLGS) ARE EXPRESSION TAGS
1207
264
468
119
356
6
52
0
0
47
47
NMR data was acquired at 295K using Shigemi NMR tubes.
0.17643
structures with the lowest energy
400
20
6.20
0.41
1
PSVS
0.01981
0.01948
2D 1H-15N HSQC
2D 1H-13C HSQC
3D HNCO
3D HNCA
3D HNCACB
3D CBCA(CO)NH
3D H(CCO)NH
3D CCcoNH
3D HCCH-COSY
3D HBHA(CO)NH
2D-hbCBcgcdHD
3D 1H-13C NOESYHSQC
3D 1H-15N NOESYHSQC
2D 1H-15N IPAP HSQC
1
mM
[U-100% 13C; U-100% 15N]
50
mM
100
mM
1
mM
[U-100% 15N]
50
mM
100
mM
1
mM
[U-100% 15N]
50
mM
100
mM
11
mg/mL
6.0
ambient
295
K
Initial structure ensemble was calculated by semi-automated NOESY assignment by CYANA. The assignments were manually verified in Sparky and final structure annealing was performed in CYANA. Structure and restraints from CYANA were imported in Xplor-NIH for explicit water refinement.
torsion angle dynamics, DGSA-distance geometry simulated annealing
1
lowest energy
1 mM [U-100% 13C; U-100% 15N] Blo t 12 CBD-1, 50 mM potassium phosphate-2, 100 mM sodium chloride-3, 90% H2O/10% D2O
90% H2O/10% D2O
1 mM [U-100% 15N] Blo t 12 CBD-4, 50 mM potassium phosphate-5, 100 mM sodium chloride-6, 90% H2O/10% D2O
90% H2O/10% D2O
1 mM [U-100% 15N] Blo t 12 CBD-7, 50 mM potassium phosphate-8, 100 mM sodium chloride-9, 11 mg/ml Pf1 phage-10, 90% H2O/10% D2O
90% H2O/10% D2O
Bruker Biospin
collection
TopSpin
3.0
Bruker Biospin
processing
TopSpin
3.0
Goddard
chemical shift assignment
Sparky
Goddard
peak picking
Sparky
Guntert, Mumenthaler and Wuthrich
structure solution
CYANA
3.9
Guntert, Mumenthaler and Wuthrich
geometry optimization
CYANA
3.9
Bhattacharya and Montelione
validation
PSVS
1.5
Schwieters, Kuszewski, Tjandra and Clore
refinement
X-PLOR NIH
2.34
Guntert, Mumenthaler and Wuthrich
refinement
CYANA
500
Bruker
AVANCE
Bruker Avance
600
Bruker
AVANCE
Bruker Avance
GLY
75
n
1
GLY
75
A
PRO
76
n
2
PRO
76
A
LEU
77
n
3
LEU
77
A
GLY
78
n
4
GLY
78
A
SER
79
n
5
SER
79
A
ASP
80
n
6
ASP
80
A
LEU
81
n
7
LEU
81
A
ILE
82
n
8
ILE
82
A
VAL
83
n
9
VAL
83
A
HIS
84
n
10
HIS
84
A
GLU
85
n
11
GLU
85
A
GLY
86
n
12
GLY
86
A
GLY
87
n
13
GLY
87
A
LYS
88
n
14
LYS
88
A
THR
89
n
15
THR
89
A
TYR
90
n
16
TYR
90
A
HIS
91
n
17
HIS
91
A
VAL
92
n
18
VAL
92
A
VAL
93
n
19
VAL
93
A
CYS
94
n
20
CYS
94
A
HIS
95
n
21
HIS
95
A
GLU
96
n
22
GLU
96
A
GLU
97
n
23
GLU
97
A
GLY
98
n
24
GLY
98
A
PRO
99
n
25
PRO
99
A
ILE
100
n
26
ILE
100
A
PRO
101
n
27
PRO
101
A
HIS
102
n
28
HIS
102
A
PRO
103
n
29
PRO
103
A
GLY
104
n
30
GLY
104
A
ASN
105
n
31
ASN
105
A
VAL
106
n
32
VAL
106
A
HIS
107
n
33
HIS
107
A
LYS
108
n
34
LYS
108
A
TYR
109
n
35
TYR
109
A
ILE
110
n
36
ILE
110
A
ILE
111
n
37
ILE
111
A
CYS
112
n
38
CYS
112
A
SER
113
n
39
SER
113
A
LYS
114
n
40
LYS
114
A
SER
115
n
41
SER
115
A
GLY
116
n
42
GLY
116
A
SER
117
n
43
SER
117
A
LEU
118
n
44
LEU
118
A
TRP
119
n
45
TRP
119
A
TYR
120
n
46
TYR
120
A
ILE
121
n
47
ILE
121
A
THR
122
n
48
THR
122
A
VAL
123
n
49
VAL
123
A
MET
124
n
50
MET
124
A
PRO
125
n
51
PRO
125
A
CYS
126
n
52
CYS
126
A
SER
127
n
53
SER
127
A
ILE
128
n
54
ILE
128
A
GLY
129
n
55
GLY
129
A
THR
130
n
56
THR
130
A
LYS
131
n
57
LYS
131
A
PHE
132
n
58
PHE
132
A
ASP
133
n
59
ASP
133
A
PRO
134
n
60
PRO
134
A
ILE
135
n
61
ILE
135
A
SER
136
n
62
SER
136
A
ARG
137
n
63
ARG
137
A
ASN
138
n
64
ASN
138
A
CYS
139
n
65
CYS
139
A
VAL
140
n
66
VAL
140
A
LEU
141
n
67
LEU
141
A
ASP
142
n
68
ASP
142
A
ASN
143
n
69
ASN
143
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
GLU
85
A
N
GLU
11
A
O
LYS
88
A
O
LYS
14
A
N
ILE
100
A
N
ILE
26
A
O
ILE
110
A
O
ILE
36
A
N
TYR
109
A
N
TYR
35
A
O
MET
124
A
O
MET
50
A
N
LYS
131
A
N
LYS
57
A
O
VAL
140
A
O
VAL
66
5
A
A
OE2
HZ3
GLU
LYS
85
108
1.59
15
A
A
OE2
HZ3
GLU
LYS
85
108
1.58
15
A
A
OD1
HD1
ASP
HIS
80
91
1.59
2
A
PRO
76
-65.62
99.83
2
A
ASP
80
-160.14
104.80
3
A
ASP
80
-161.80
94.57
3
A
ARG
137
70.73
51.02
4
A
LEU
77
-173.04
136.73
4
A
ASN
105
-167.32
102.04
5
A
PRO
76
-76.51
34.57
5
A
LEU
77
-88.52
33.99
5
A
SER
115
-108.23
79.81
5
A
ARG
137
74.62
41.91
7
A
SER
115
-102.15
77.98
8
A
ASN
105
-167.63
105.31
8
A
ARG
137
72.25
48.60
9
A
ARG
137
71.31
46.21
10
A
ASN
105
-168.88
117.70
10
A
ARG
137
73.11
41.52
11
A
ARG
137
71.21
48.83
12
A
ASN
105
-163.84
87.30
12
A
ARG
137
70.76
41.57
14
A
ASN
105
-167.40
106.89
15
A
PRO
76
-78.46
44.11
15
A
ASN
105
-169.23
104.21
16
A
ASN
105
-168.07
97.47
17
A
ASN
105
-168.24
101.86
18
A
ASP
80
-164.44
113.21
18
A
ARG
137
70.33
43.22
19
A
ASN
105
-169.15
109.85
19
A
ARG
137
66.81
62.87
20
A
ARG
137
66.42
62.02
lowest energy, model1
NMR solution structure of chitin-binding domain from dust mite group XII allergen Blo t 12
1
N
N
disulf
2.027
A
CYS
94
A
SG
CYS
20
1_555
A
CYS
112
A
SG
CYS
38
1_555
disulf
2.022
A
CYS
126
A
SG
CYS
52
1_555
A
CYS
139
A
SG
CYS
65
1_555
ALLERGEN
Allergen, Chitin-binding Domain
2MFK
PDB
1
2MFK
75
143
2MFK
75
143
2MFK
A
1
1
69
2
3
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
ASP
80
A
ASP
6
A
GLU
85
A
GLU
11
A
LYS
88
A
LYS
14
A
VAL
93
A
VAL
19
A
GLY
98
A
GLY
24
A
PRO
101
A
PRO
27
A
LYS
108
A
LYS
34
A
SER
115
A
SER
41
A
LEU
118
A
LEU
44
A
PRO
125
A
PRO
51
A
THR
130
A
THR
56
A
ASP
133
A
ASP
59
A
ASN
138
A
ASN
64
A
LEU
141
A
LEU
67