1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Zhang, X.
Xia, B.
Jin, C.
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
281
8296
8304
10.1074/jbc.M512015200
16418167
The bacillus subtilis YKUV is a thiol-disulfide oxidoreductase revealed by its redox structures and activity
2006
10.2210/pdb2b5x/pdb
pdb_00002b5x
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
17040.279
YkuV protein
residues 1-148
1
man
polymer
trxy
no
no
MKLRQPMPELTGEKAWLNGEVTREQLIGEKPTLIHFWSISCHLCKEAMPQVNEFRDKYQDQLNVVAVHMPRSEDDLDPGK
IKETAAEHDITQPIFVDSDHALTDAFENEYVPAYYVFDKTGQLRHFQAGGSGMKMLEKRVNRVLAETE
MKLRQPMPELTGEKAWLNGEVTREQLIGEKPTLIHFWSISCHLCKEAMPQVNEFRDKYQDQLNVVAVHMPRSEDDLDPGK
IKETAAEHDITQPIFVDSDHALTDAFENEYVPAYYVFDKTGQLRHFQAGGSGMKMLEKRVNRVLAETE
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
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
Bacillus
Escherichia
Escherichia coli
sample
1423
Bacillus subtilis
469008
Escherichia coli BL21(DE3)
BL21(DE3)
plasmid
pET21a
database_2
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2006-01-17
1
1
2008-05-01
1
2
2011-07-13
1
3
2021-11-10
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_struct_ref_seq_dif.details
RCSB
Y
PDBJ
2005-09-29
REL
REL
ensembled structures plus mean structure
structures with the lowest energy
50
11
3D_13C-separated_NOESY
3D_15N-separated_NOESY
50mM sodium phosphate, 100mM sodium chloride
7.4
ambient
298.4
K
simulated annealing
molecular dynamics
1
minimized average structure
1mM Trxy U-15N, 13C; 50mM sodium phosphate, 100mM sodium chloride; 90% H2O 10% D2O
90% H2O/10% D2O
F.Delaglio, S.Grzesiek, G.Vuister, G.Zhu, J.Pfeifer, A.Bax
processing
NMRPipe
2.1
B.M.Duggan, G.B.Legge, H.J.Dyson, P.E.Wright
data analysis
SANE
P.Guntert, C.Mumenthaler, K.Wuthrich
structure solution
CYANA
1.0.6
D.Case
refinement
Amber
7.0
B.Johnson
data analysis
NMRView
5
Bruker
collection
XwinNMR
3.5
800
Bruker
AVANCE
500
Bruker
AVANCE
MET
1
n
1
MET
1
A
LYS
2
n
2
LYS
2
A
LEU
3
n
3
LEU
3
A
ARG
4
n
4
ARG
4
A
GLN
5
n
5
GLN
5
A
PRO
6
n
6
PRO
6
A
MET
7
n
7
MET
7
A
PRO
8
n
8
PRO
8
A
GLU
9
n
9
GLU
9
A
LEU
10
n
10
LEU
10
A
THR
11
n
11
THR
11
A
GLY
12
n
12
GLY
12
A
GLU
13
n
13
GLU
13
A
LYS
14
n
14
LYS
14
A
ALA
15
n
15
ALA
15
A
TRP
16
n
16
TRP
16
A
LEU
17
n
17
LEU
17
A
ASN
18
n
18
ASN
18
A
GLY
19
n
19
GLY
19
A
GLU
20
n
20
GLU
20
A
VAL
21
n
21
VAL
21
A
THR
22
n
22
THR
22
A
ARG
23
n
23
ARG
23
A
GLU
24
n
24
GLU
24
A
GLN
25
n
25
GLN
25
A
LEU
26
n
26
LEU
26
A
ILE
27
n
27
ILE
27
A
GLY
28
n
28
GLY
28
A
GLU
29
n
29
GLU
29
A
LYS
30
n
30
LYS
30
A
PRO
31
n
31
PRO
31
A
THR
32
n
32
THR
32
A
LEU
33
n
33
LEU
33
A
ILE
34
n
34
ILE
34
A
HIS
35
n
35
HIS
35
A
PHE
36
n
36
PHE
36
A
TRP
37
n
37
TRP
37
A
SER
38
n
38
SER
38
A
ILE
39
n
39
ILE
39
A
SER
40
n
40
SER
40
A
CYS
41
n
41
CYS
41
A
HIS
42
n
42
HIS
42
A
LEU
43
n
43
LEU
43
A
CYS
44
n
44
CYS
44
A
LYS
45
n
45
LYS
45
A
GLU
46
n
46
GLU
46
A
ALA
47
n
47
ALA
47
A
MET
48
n
48
MET
48
A
PRO
49
n
49
PRO
49
A
GLN
50
n
50
GLN
50
A
VAL
51
n
51
VAL
51
A
ASN
52
n
52
ASN
52
A
GLU
53
n
53
GLU
53
A
PHE
54
n
54
PHE
54
A
ARG
55
n
55
ARG
55
A
ASP
56
n
56
ASP
56
A
LYS
57
n
57
LYS
57
A
TYR
58
n
58
TYR
58
A
GLN
59
n
59
GLN
59
A
ASP
60
n
60
ASP
60
A
GLN
61
n
61
GLN
61
A
LEU
62
n
62
LEU
62
A
ASN
63
n
63
ASN
63
A
VAL
64
n
64
VAL
64
A
VAL
65
n
65
VAL
65
A
ALA
66
n
66
ALA
66
A
VAL
67
n
67
VAL
67
A
HIS
68
n
68
HIS
68
A
MET
69
n
69
MET
69
A
PRO
70
n
70
PRO
70
A
ARG
71
n
71
ARG
71
A
SER
72
n
72
SER
72
A
GLU
73
n
73
GLU
73
A
ASP
74
n
74
ASP
74
A
ASP
75
n
75
ASP
75
A
LEU
76
n
76
LEU
76
A
ASP
77
n
77
ASP
77
A
PRO
78
n
78
PRO
78
A
GLY
79
n
79
GLY
79
A
LYS
80
n
80
LYS
80
A
ILE
81
n
81
ILE
81
A
LYS
82
n
82
LYS
82
A
GLU
83
n
83
GLU
83
A
THR
84
n
84
THR
84
A
ALA
85
n
85
ALA
85
A
ALA
86
n
86
ALA
86
A
GLU
87
n
87
GLU
87
A
HIS
88
n
88
HIS
88
A
ASP
89
n
89
ASP
89
A
ILE
90
n
90
ILE
90
A
THR
91
n
91
THR
91
A
GLN
92
n
92
GLN
92
A
PRO
93
n
93
PRO
93
A
ILE
94
n
94
ILE
94
A
PHE
95
n
95
PHE
95
A
VAL
96
n
96
VAL
96
A
ASP
97
n
97
ASP
97
A
SER
98
n
98
SER
98
A
ASP
99
n
99
ASP
99
A
HIS
100
n
100
HIS
100
A
ALA
101
n
101
ALA
101
A
LEU
102
n
102
LEU
102
A
THR
103
n
103
THR
103
A
ASP
104
n
104
ASP
104
A
ALA
105
n
105
ALA
105
A
PHE
106
n
106
PHE
106
A
GLU
107
n
107
GLU
107
A
ASN
108
n
108
ASN
108
A
GLU
109
n
109
GLU
109
A
TYR
110
n
110
TYR
110
A
VAL
111
n
111
VAL
111
A
PRO
112
n
112
PRO
112
A
ALA
113
n
113
ALA
113
A
TYR
114
n
114
TYR
114
A
TYR
115
n
115
TYR
115
A
VAL
116
n
116
VAL
116
A
PHE
117
n
117
PHE
117
A
ASP
118
n
118
ASP
118
A
LYS
119
n
119
LYS
119
A
THR
120
n
120
THR
120
A
GLY
121
n
121
GLY
121
A
GLN
122
n
122
GLN
122
A
LEU
123
n
123
LEU
123
A
ARG
124
n
124
ARG
124
A
HIS
125
n
125
HIS
125
A
PHE
126
n
126
PHE
126
A
GLN
127
n
127
GLN
127
A
ALA
128
n
128
ALA
128
A
GLY
129
n
129
GLY
129
A
GLY
130
n
130
GLY
130
A
SER
131
n
131
SER
131
A
GLY
132
n
132
GLY
132
A
MET
133
n
133
MET
133
A
LYS
134
n
134
LYS
134
A
MET
135
n
135
MET
135
A
LEU
136
n
136
LEU
136
A
GLU
137
n
137
GLU
137
A
LYS
138
n
138
LYS
138
A
ARG
139
n
139
ARG
139
A
VAL
140
n
140
VAL
140
A
ASN
141
n
141
ASN
141
A
ARG
142
n
142
ARG
142
A
VAL
143
n
143
VAL
143
A
LEU
144
n
144
LEU
144
A
ALA
145
n
145
ALA
145
A
GLU
146
n
146
GLU
146
A
THR
147
n
147
THR
147
A
GLU
148
n
148
GLU
148
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
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
LEU
17
A
N
LEU
17
A
O
ILE
94
A
O
ILE
94
A
O
PHE
95
A
O
PHE
95
A
N
HIS
68
A
N
HIS
68
A
O
ASN
63
A
O
ASN
63
A
N
LEU
33
A
N
LEU
33
A
N
ILE
34
A
N
ILE
34
A
O
TYR
115
A
O
TYR
115
A
N
VAL
116
A
N
VAL
116
A
O
ARG
124
A
O
ARG
124
1
A
A
HG
OD2
SER
ASP
40
75
1.59
2
A
A
HG
OD2
SER
ASP
40
75
1.59
2
A
A
HG
OD2
SER
ASP
72
75
1.60
3
A
A
HG
OD2
SER
ASP
40
75
1.57
4
A
A
HG
OD2
SER
ASP
40
75
1.59
5
A
A
HG
OD2
SER
ASP
40
75
1.57
8
A
A
HG
OD2
SER
ASP
72
75
1.57
9
A
A
HG
OD2
SER
ASP
40
75
1.56
9
A
A
OD1
HG1
ASP
THR
118
120
1.58
10
A
A
HG
OD2
SER
ASP
40
75
1.59
11
A
A
OD1
HG1
ASP
THR
118
120
1.56
1
A
ARG
55
0.093
SIDE CHAIN
3
A
TYR
58
0.066
SIDE CHAIN
3
A
TYR
114
0.073
SIDE CHAIN
4
A
PHE
54
0.076
SIDE CHAIN
4
A
TYR
110
0.078
SIDE CHAIN
5
A
TYR
58
0.081
SIDE CHAIN
8
A
ARG
139
0.088
SIDE CHAIN
9
A
TYR
110
0.073
SIDE CHAIN
3
-3.35
0.50
120.30
116.95
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
124
124
124
N
7
-3.24
0.50
120.30
117.06
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
142
142
142
N
11
3.76
0.50
120.30
124.06
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
55
55
55
N
1
A
PRO
8
-92.59
-102.41
1
A
GLU
13
-158.65
-29.02
1
A
ASN
18
68.83
-33.31
1
A
GLU
29
-138.58
-42.79
1
A
ARG
71
-139.06
-33.25
1
A
GLU
109
-157.52
37.75
2
A
LYS
2
-124.74
-126.19
2
A
PRO
8
-82.24
-154.27
2
A
TRP
16
-149.06
54.12
2
A
ASN
18
69.35
-30.23
2
A
GLU
29
-148.83
-40.13
2
A
ARG
71
-140.55
-31.25
2
A
ASP
75
-142.11
-13.56
2
A
ASP
99
-134.02
-46.77
2
A
HIS
100
67.27
130.39
2
A
ASN
108
-34.23
119.33
2
A
GLU
109
-150.22
43.00
2
A
VAL
111
-175.74
141.48
2
A
SER
131
-52.11
109.07
3
A
ARG
4
51.96
13.84
3
A
PRO
8
-88.15
-144.91
3
A
ASN
18
72.54
-31.61
3
A
ARG
23
-61.40
8.94
3
A
GLU
29
-152.46
-51.66
3
A
PRO
31
-55.02
170.79
3
A
ASP
99
-130.64
-38.26
3
A
HIS
100
62.06
95.14
3
A
ASN
108
-37.16
118.34
3
A
GLU
109
-144.09
47.67
3
A
VAL
111
-178.23
145.36
3
A
LEU
123
-59.33
92.55
3
A
MET
133
-143.49
29.19
3
A
THR
147
-145.77
45.24
4
A
ARG
4
56.41
16.64
4
A
PRO
8
-87.92
-139.60
4
A
LEU
10
-59.08
91.64
4
A
TRP
16
-141.27
55.53
4
A
ASN
18
72.97
-30.99
4
A
GLU
29
-144.72
-46.59
4
A
PRO
31
-46.68
164.58
4
A
ARG
71
-138.19
-32.20
4
A
HIS
100
54.03
100.35
4
A
GLU
109
-149.33
31.75
4
A
VAL
111
-173.37
145.76
4
A
LYS
119
-59.79
-5.24
4
A
LEU
123
-58.14
106.84
4
A
MET
133
-141.51
15.55
4
A
THR
147
-140.01
44.57
5
A
PRO
8
-92.71
-139.67
5
A
GLU
13
-143.41
-27.27
5
A
TRP
16
-145.29
54.29
5
A
ASN
18
68.35
-33.73
5
A
ARG
23
-64.63
12.47
5
A
GLU
29
-153.42
-50.23
5
A
ARG
71
-139.78
-36.57
5
A
HIS
100
53.67
87.84
5
A
GLU
109
-154.92
40.90
5
A
SER
131
49.33
29.57
5
A
MET
133
48.23
29.65
5
A
THR
147
-140.96
45.02
6
A
PRO
8
-90.74
-79.33
6
A
GLU
13
-152.99
89.64
6
A
LYS
14
-139.50
-44.41
6
A
ASN
18
71.82
-30.86
6
A
GLU
29
-145.20
-45.33
6
A
PRO
31
-48.78
164.32
6
A
SER
72
-144.07
-146.03
6
A
ASP
75
-67.28
7.02
6
A
HIS
100
55.42
91.66
6
A
ASN
108
-39.47
123.50
6
A
GLU
109
-142.80
19.22
7
A
ARG
4
54.03
14.35
7
A
PRO
8
-76.86
-157.06
7
A
TRP
16
-141.35
52.24
7
A
ASN
18
74.17
-34.77
7
A
ARG
23
-63.42
10.73
7
A
GLU
29
-136.66
-53.29
7
A
ASP
99
-138.36
-37.19
7
A
HIS
100
64.67
123.35
7
A
GLU
109
-153.31
27.89
7
A
LEU
123
-62.93
95.87
7
A
SER
131
-51.29
109.72
7
A
THR
147
-140.83
45.11
8
A
PRO
8
-80.33
-72.16
8
A
ASN
18
71.81
-31.16
8
A
GLU
29
-156.11
-41.77
8
A
GLN
61
-142.84
-16.31
8
A
ILE
90
-63.05
98.37
8
A
ASP
99
-131.81
-32.65
8
A
HIS
100
54.01
98.79
8
A
GLU
109
-148.69
33.00
8
A
SER
131
-51.56
109.20
8
A
MET
133
49.59
23.24
8
A
THR
147
-141.05
45.41
9
A
ARG
4
57.21
15.56
9
A
PRO
8
-85.95
-85.41
9
A
GLU
13
-140.19
-18.95
9
A
ASN
18
70.61
-29.87
9
A
GLU
29
-147.49
-45.35
9
A
ILE
39
-72.34
20.69
9
A
GLN
61
-140.47
-14.93
9
A
ARG
71
-138.62
-34.99
9
A
HIS
100
53.85
80.86
9
A
GLU
109
-157.35
36.85
9
A
LEU
123
-55.87
95.48
9
A
SER
131
-53.17
109.27
9
A
ALA
145
-68.89
2.78
10
A
LEU
3
-25.38
133.06
10
A
MET
7
-39.89
121.66
10
A
PRO
8
-102.25
-142.22
10
A
GLU
9
-66.57
58.38
10
A
LEU
10
-59.81
101.93
10
A
ASN
18
68.95
-25.65
10
A
GLU
29
-153.37
-44.09
10
A
GLN
61
-143.29
-14.95
10
A
HIS
100
61.57
91.25
10
A
GLU
109
-145.57
32.54
10
A
LYS
119
-56.77
-1.36
10
A
SER
131
-54.84
105.56
10
A
MET
133
52.04
19.98
11
A
LYS
2
64.71
155.04
11
A
LEU
3
50.14
95.39
11
A
MET
7
-27.72
121.43
11
A
ASN
18
62.55
-7.89
11
A
ARG
23
-67.08
13.33
11
A
GLN
25
-132.08
-32.55
11
A
GLU
29
-146.92
-41.62
11
A
ASP
99
-135.98
-38.44
11
A
HIS
100
67.90
125.77
11
A
GLU
109
-155.76
41.85
11
A
LEU
123
-68.45
91.08
11
A
THR
147
-143.15
44.77
minimized average
Solution Structure of a Thioredoxin-like Protein in the Reduced Form
1
N
N
A
THR
22
A
THR
22
HELX_P
A
ILE
27
A
ILE
27
1
1
6
A
CYS
41
A
CYS
41
HELX_P
A
GLN
59
A
GLN
59
1
2
19
A
ASP
77
A
ASP
77
HELX_P
A
HIS
88
A
HIS
88
1
3
12
A
HIS
100
A
HIS
100
HELX_P
A
PHE
106
A
PHE
106
1
4
7
A
MET
133
A
MET
133
HELX_P
A
ALA
145
A
ALA
145
1
5
13
OXIDOREDUCTASE
Thioredoxin-like, OXIDOREDUCTASE
A
VAL
111
A
VAL
111
1
A
PRO
112
A
PRO
112
-20.97
A
VAL
111
A
VAL
111
2
A
PRO
112
A
PRO
112
-11.56
A
VAL
111
A
VAL
111
3
A
PRO
112
A
PRO
112
-10.98
A
VAL
111
A
VAL
111
4
A
PRO
112
A
PRO
112
-11.39
A
VAL
111
A
VAL
111
5
A
PRO
112
A
PRO
112
-11.40
A
VAL
111
A
VAL
111
6
A
PRO
112
A
PRO
112
-11.30
A
VAL
111
A
VAL
111
7
A
PRO
112
A
PRO
112
-12.07
A
VAL
111
A
VAL
111
8
A
PRO
112
A
PRO
112
-11.01
A
VAL
111
A
VAL
111
9
A
PRO
112
A
PRO
112
-11.91
A
VAL
111
A
VAL
111
10
A
PRO
112
A
PRO
112
-11.23
A
VAL
111
A
VAL
111
11
A
PRO
112
A
PRO
112
-11.53
CAA10885
GB
1
1
2632243
MKLRQPMPELTGEKAWLNGEVTREQLIGEKPTLIHFWSISCHLCKEAMPQVNEFRDKYQDQLNVVAVHMPRSEDDLDPGK
IKETAAEHDITQPIFVDSDHALTDAFENEYVPAYYVFDKTGQLRHFQAGGSGMKMLEKRVNRVWLKRN
1
148
2B5X
1
148
2632243
A
1
1
148
1
TRP
engineered mutation
LEU
144
2B5X
A
2632243
GB
144
144
1
LEU
engineered mutation
ALA
145
2B5X
A
2632243
GB
145
145
1
LYS
engineered mutation
GLU
146
2B5X
A
2632243
GB
146
146
1
ARG
engineered mutation
THR
147
2B5X
A
2632243
GB
147
147
1
ASN
engineered mutation
GLU
148
2B5X
A
2632243
GB
148
148
6
anti-parallel
parallel
parallel
anti-parallel
anti-parallel
A
TRP
16
A
TRP
16
A
LEU
17
A
LEU
17
A
ILE
94
A
ILE
94
A
VAL
96
A
VAL
96
A
ASN
63
A
ASN
63
A
HIS
68
A
HIS
68
A
THR
32
A
THR
32
A
TRP
37
A
TRP
37
A
ALA
113
A
ALA
113
A
PHE
117
A
PHE
117
A
LEU
123
A
LEU
123
A
ALA
128
A
ALA
128