1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Liepinsh, E.
Otting, G.
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 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C17 H21 N4 O9 P
456.344
FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE
non-polymer
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
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
4
975
979
10.1038/nsb1297-975
9406543
Pathway of chymotrypsin evolution suggested by the structure of the FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
1997
10.2210/pdb1axj/pdb
pdb_00001axj
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
13153.066
FMN-BINDING PROTEIN
1
man
polymer
456.344
FLAVIN MONONUCLEOTIDE
1
syn
non-polymer
no
no
MLPGTFFEVLKNEGVVAIATQGEDGPHLVNTWNSYLKVLDGNRIVVPVGGMHKTEANVARDERVLMTLGSRKVAGRNGPG
TGFLIRGSAAFRTDGPEFEAIARFKWARAALVITVVSAEQTL
MLPGTFFEVLKNEGVVAIATQGEDGPHLVNTWNSYLKVLDGNRIVVPVGGMHKTEANVARDERVLMTLGSRKVAGRNGPG
TGFLIRGSAAFRTDGPEFEAIARFKWARAALVITVVSAEQTL
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
Desulfovibrio
Desulfovibrio vulgaris
MIYAZAKI F
Escherichia
sample
CYTOPLASM
883
Desulfovibrio vulgaris str. 'Miyazaki F'
CYTOPLASM
562
Escherichia coli
JM109
PMKBT-100
database_2
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_oper_list
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
1
0
1998-01-14
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1997-10-16
REL
REL
FMN
FLAVIN MONONUCLEOTIDE
LEAST RESTRAINT VIOLATIONS
50
20
NOESY
NOESY-15N-HSQC
NOESY-13C-HSQC
DQF-COSY
TOCSY
6.8
309
K
REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. OPAL (LUGINBUHL ET AL.) ALSO WAS USED.
distance geometry
WUTHRICH
refinement
DIANA
structure solution
DIANA
structure solution
OPAL
600
Bruker
DMX600
FMN
123
2
FMN
FMN
123
A
MET
1
n
1
MET
1
A
LEU
2
n
2
LEU
2
A
PRO
3
n
3
PRO
3
A
GLY
4
n
4
GLY
4
A
THR
5
n
5
THR
5
A
PHE
6
n
6
PHE
6
A
PHE
7
n
7
PHE
7
A
GLU
8
n
8
GLU
8
A
VAL
9
n
9
VAL
9
A
LEU
10
n
10
LEU
10
A
LYS
11
n
11
LYS
11
A
ASN
12
n
12
ASN
12
A
GLU
13
n
13
GLU
13
A
GLY
14
n
14
GLY
14
A
VAL
15
n
15
VAL
15
A
VAL
16
n
16
VAL
16
A
ALA
17
n
17
ALA
17
A
ILE
18
n
18
ILE
18
A
ALA
19
n
19
ALA
19
A
THR
20
n
20
THR
20
A
GLN
21
n
21
GLN
21
A
GLY
22
n
22
GLY
22
A
GLU
23
n
23
GLU
23
A
ASP
24
n
24
ASP
24
A
GLY
25
n
25
GLY
25
A
PRO
26
n
26
PRO
26
A
HIS
27
n
27
HIS
27
A
LEU
28
n
28
LEU
28
A
VAL
29
n
29
VAL
29
A
ASN
30
n
30
ASN
30
A
THR
31
n
31
THR
31
A
TRP
32
n
32
TRP
32
A
ASN
33
n
33
ASN
33
A
SER
34
n
34
SER
34
A
TYR
35
n
35
TYR
35
A
LEU
36
n
36
LEU
36
A
LYS
37
n
37
LYS
37
A
VAL
38
n
38
VAL
38
A
LEU
39
n
39
LEU
39
A
ASP
40
n
40
ASP
40
A
GLY
41
n
41
GLY
41
A
ASN
42
n
42
ASN
42
A
ARG
43
n
43
ARG
43
A
ILE
44
n
44
ILE
44
A
VAL
45
n
45
VAL
45
A
VAL
46
n
46
VAL
46
A
PRO
47
n
47
PRO
47
A
VAL
48
n
48
VAL
48
A
GLY
49
n
49
GLY
49
A
GLY
50
n
50
GLY
50
A
MET
51
n
51
MET
51
A
HIS
52
n
52
HIS
52
A
LYS
53
n
53
LYS
53
A
THR
54
n
54
THR
54
A
GLU
55
n
55
GLU
55
A
ALA
56
n
56
ALA
56
A
ASN
57
n
57
ASN
57
A
VAL
58
n
58
VAL
58
A
ALA
59
n
59
ALA
59
A
ARG
60
n
60
ARG
60
A
ASP
61
n
61
ASP
61
A
GLU
62
n
62
GLU
62
A
ARG
63
n
63
ARG
63
A
VAL
64
n
64
VAL
64
A
LEU
65
n
65
LEU
65
A
MET
66
n
66
MET
66
A
THR
67
n
67
THR
67
A
LEU
68
n
68
LEU
68
A
GLY
69
n
69
GLY
69
A
SER
70
n
70
SER
70
A
ARG
71
n
71
ARG
71
A
LYS
72
n
72
LYS
72
A
VAL
73
n
73
VAL
73
A
ALA
74
n
74
ALA
74
A
GLY
75
n
75
GLY
75
A
ARG
76
n
76
ARG
76
A
ASN
77
n
77
ASN
77
A
GLY
78
n
78
GLY
78
A
PRO
79
n
79
PRO
79
A
GLY
80
n
80
GLY
80
A
THR
81
n
81
THR
81
A
GLY
82
n
82
GLY
82
A
PHE
83
n
83
PHE
83
A
LEU
84
n
84
LEU
84
A
ILE
85
n
85
ILE
85
A
ARG
86
n
86
ARG
86
A
GLY
87
n
87
GLY
87
A
SER
88
n
88
SER
88
A
ALA
89
n
89
ALA
89
A
ALA
90
n
90
ALA
90
A
PHE
91
n
91
PHE
91
A
ARG
92
n
92
ARG
92
A
THR
93
n
93
THR
93
A
ASP
94
n
94
ASP
94
A
GLY
95
n
95
GLY
95
A
PRO
96
n
96
PRO
96
A
GLU
97
n
97
GLU
97
A
PHE
98
n
98
PHE
98
A
GLU
99
n
99
GLU
99
A
ALA
100
n
100
ALA
100
A
ILE
101
n
101
ILE
101
A
ALA
102
n
102
ALA
102
A
ARG
103
n
103
ARG
103
A
PHE
104
n
104
PHE
104
A
LYS
105
n
105
LYS
105
A
TRP
106
n
106
TRP
106
A
ALA
107
n
107
ALA
107
A
ARG
108
n
108
ARG
108
A
ALA
109
n
109
ALA
109
A
ALA
110
n
110
ALA
110
A
LEU
111
n
111
LEU
111
A
VAL
112
n
112
VAL
112
A
ILE
113
n
113
ILE
113
A
THR
114
n
114
THR
114
A
VAL
115
n
115
VAL
115
A
VAL
116
n
116
VAL
116
A
SER
117
n
117
SER
117
A
ALA
118
n
118
ALA
118
A
GLU
119
n
119
GLU
119
A
GLN
120
n
120
GLN
120
A
THR
121
n
121
THR
121
A
LEU
122
n
122
LEU
122
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
O
HIS
27
A
O
HIS
27
A
N
THR
20
A
N
THR
20
A
O
ALA
17
A
O
ALA
17
A
N
THR
67
A
N
THR
67
A
O
VAL
64
A
O
VAL
64
A
N
GLY
87
A
N
GLY
87
A
O
LEU
84
A
O
LEU
84
A
N
GLU
119
A
N
GLU
119
A
O
ALA
109
A
O
ALA
109
A
N
VAL
48
A
N
VAL
48
4
A
A
OE1
HG
GLU
SER
62
88
1.54
5
A
A
OE1
HG
GLU
SER
62
88
1.54
6
A
A
OE1
HG
GLU
SER
62
88
1.53
7
A
A
OE1
HG
GLU
SER
62
88
1.59
11
A
A
OE1
HG
GLU
SER
62
88
1.59
16
A
A
OE1
HG
GLU
SER
62
88
1.53
18
A
A
OE1
HG
GLU
SER
62
88
1.58
2
A
ARG
108
0.085
SIDE CHAIN
3
A
ARG
60
0.218
SIDE CHAIN
3
A
ARG
103
0.084
SIDE CHAIN
4
A
ARG
60
0.133
SIDE CHAIN
4
A
ARG
63
0.090
SIDE CHAIN
4
A
ARG
108
0.108
SIDE CHAIN
5
A
ARG
60
0.157
SIDE CHAIN
5
A
ARG
63
0.085
SIDE CHAIN
6
A
ARG
60
0.145
SIDE CHAIN
6
A
ARG
63
0.095
SIDE CHAIN
6
A
ARG
92
0.170
SIDE CHAIN
7
A
ARG
76
0.084
SIDE CHAIN
8
A
ARG
60
0.099
SIDE CHAIN
8
A
ARG
76
0.093
SIDE CHAIN
8
A
ARG
108
0.093
SIDE CHAIN
9
A
ARG
60
0.124
SIDE CHAIN
9
A
ARG
108
0.140
SIDE CHAIN
10
A
ARG
60
0.169
SIDE CHAIN
11
A
ARG
60
0.220
SIDE CHAIN
11
A
ARG
108
0.094
SIDE CHAIN
14
A
ARG
60
0.131
SIDE CHAIN
14
A
ARG
92
0.245
SIDE CHAIN
15
A
ARG
43
0.085
SIDE CHAIN
15
A
ARG
60
0.133
SIDE CHAIN
15
A
ARG
71
0.140
SIDE CHAIN
15
A
ARG
108
0.091
SIDE CHAIN
16
A
ARG
60
0.136
SIDE CHAIN
16
A
ARG
63
0.092
SIDE CHAIN
17
A
HIS
52
0.127
SIDE CHAIN
17
A
ARG
60
0.145
SIDE CHAIN
17
A
ARG
86
0.088
SIDE CHAIN
17
A
ARG
92
0.078
SIDE CHAIN
17
A
ARG
108
0.110
SIDE CHAIN
18
A
ARG
71
0.242
SIDE CHAIN
19
A
ARG
60
0.118
SIDE CHAIN
19
A
ARG
92
0.168
SIDE CHAIN
1
10.29
1.40
123.60
133.89
A
A
A
CD
NE
CZ
ARG
ARG
ARG
92
92
92
N
3
3.41
0.50
120.30
123.71
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
92
92
92
N
10
3.02
0.50
120.30
123.32
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
60
60
60
N
17
9.79
1.40
123.60
133.39
A
A
A
CD
NE
CZ
ARG
ARG
ARG
92
92
92
N
17
3.76
0.50
120.30
124.06
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
92
92
92
N
19
-3.05
0.50
120.30
117.25
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
63
63
63
N
20
3.07
0.50
120.30
123.37
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
92
92
92
N
1
A
GLU
23
-164.16
-61.68
1
A
MET
51
-107.88
71.41
1
A
VAL
116
-127.50
-54.99
1
A
THR
121
-134.83
-81.04
2
A
GLU
23
-161.42
-48.86
2
A
ASP
24
-78.44
40.63
2
A
ARG
76
-91.81
-78.63
2
A
PHE
104
-61.02
-179.00
2
A
VAL
116
-130.15
-54.77
2
A
THR
121
-135.37
-81.91
3
A
GLU
23
-168.98
-48.75
3
A
ASP
24
-78.18
38.68
3
A
SER
34
-58.48
-8.71
3
A
MET
51
-103.39
71.50
3
A
HIS
52
-67.28
-70.53
3
A
THR
121
-132.98
-58.82
4
A
GLU
23
-158.89
-60.33
4
A
ASP
24
-78.61
38.84
4
A
SER
34
-59.31
-8.66
4
A
ASN
42
53.82
13.23
4
A
MET
51
-109.75
71.74
4
A
PHE
104
-65.55
-174.74
4
A
THR
121
-152.84
-58.55
5
A
GLU
23
-158.23
-48.24
5
A
ASP
24
-78.18
38.48
5
A
SER
34
-59.24
-8.81
5
A
ASN
42
53.79
13.00
5
A
MET
51
-109.23
50.16
5
A
LYS
105
-140.89
-0.98
5
A
VAL
116
-129.22
-57.14
5
A
THR
121
-138.69
-58.49
6
A
GLU
23
-158.32
-48.59
6
A
ASP
24
-78.61
37.74
6
A
ASN
42
54.08
13.06
6
A
LYS
105
-141.64
-0.78
6
A
THR
121
-130.17
-58.00
7
A
GLU
23
-158.66
-48.71
7
A
ASP
24
-78.77
38.06
7
A
MET
51
-112.11
71.48
7
A
THR
121
-129.42
-58.41
8
A
GLU
23
-159.63
-61.27
8
A
ASP
24
-81.55
38.72
8
A
ASN
42
53.84
12.88
8
A
MET
51
-108.78
71.23
8
A
PRO
79
-69.49
89.73
8
A
LYS
105
-141.44
-0.56
8
A
VAL
116
-128.57
-56.88
8
A
THR
121
-136.86
-77.61
9
A
GLU
23
-159.20
-59.33
9
A
ASP
24
-78.83
39.21
9
A
ASN
42
54.10
13.20
9
A
MET
51
-97.96
52.24
9
A
THR
121
-129.64
-58.62
10
A
GLU
23
168.51
-57.44
10
A
ASP
24
-78.70
46.98
10
A
ASN
42
53.49
19.87
10
A
MET
51
-108.65
71.48
10
A
LYS
105
-140.48
21.04
10
A
THR
121
-138.45
-81.31
11
A
GLU
23
-170.69
-59.25
11
A
LYS
105
-141.14
-0.60
11
A
THR
121
-143.39
-80.51
12
A
GLU
23
-158.63
-60.70
12
A
ASP
24
-78.82
41.03
12
A
MET
51
-106.56
57.50
12
A
PHE
104
-67.88
-171.20
12
A
VAL
116
-120.52
-56.27
12
A
THR
121
-138.70
-79.49
13
A
GLU
23
-159.06
-61.51
13
A
ASP
24
-79.40
45.73
13
A
MET
51
-105.71
71.13
13
A
LYS
105
-141.37
-1.11
13
A
THR
121
-137.23
-77.57
14
A
GLU
23
-158.82
-56.98
14
A
ASP
24
-78.87
38.34
14
A
MET
51
-109.12
59.82
14
A
LYS
105
-140.55
-1.12
14
A
THR
121
-136.99
-58.23
15
A
GLU
23
-159.79
-60.74
15
A
SER
34
-59.72
-8.97
15
A
MET
51
-107.83
71.38
15
A
THR
121
-130.27
-78.80
16
A
GLU
23
-166.16
-57.25
16
A
ASN
42
54.08
12.99
16
A
MET
51
-106.57
71.39
16
A
LYS
105
-141.39
-0.54
16
A
VAL
116
-121.51
-59.88
16
A
THR
121
-129.65
-58.31
17
A
GLU
23
-158.36
-60.79
17
A
ASP
24
-79.28
39.08
17
A
ASN
42
54.00
12.87
17
A
MET
51
-113.80
53.47
17
A
VAL
116
-120.98
-51.11
17
A
THR
121
-135.21
-68.60
18
A
GLU
23
-163.45
-61.55
18
A
ASP
24
-79.73
44.49
18
A
ASN
42
53.64
13.72
18
A
MET
51
-109.32
66.98
18
A
VAL
116
-125.97
-57.26
18
A
THR
121
-143.21
-58.60
19
A
GLU
23
-158.84
-61.51
19
A
ASP
24
-79.35
39.32
19
A
ASN
42
53.44
15.35
19
A
MET
51
-109.74
57.63
19
A
ARG
76
-91.34
-63.64
19
A
PRO
79
-68.03
91.43
19
A
VAL
116
-126.70
-59.58
19
A
THR
121
-133.69
-58.79
20
A
GLU
23
-162.54
-48.97
20
A
ASP
24
-78.68
39.24
20
A
MET
51
-109.78
70.62
20
A
THR
121
-141.21
-59.10
FMN-BINDING PROTEIN FROM DESULFOVIBRIO VULGARIS (MIYAZAKI F), NMR, 20 STRUCTURES
1
Y
N
2
N
N
A
GLY
4
A
GLY
4
HELX_P
A
LEU
10
A
LEU
10
1
1
7
A
ASN
33
A
ASN
33
HELX_P
A
TYR
35
A
TYR
35
5
2
3
A
HIS
52
A
HIS
52
HELX_P
A
ARG
60
A
ARG
60
1
3
9
A
GLY
95
A
GLY
95
HELX_P
A
ALA
102
A
ALA
102
1
4
8
BINDING PROTEIN
FMN-BINDING PROTEIN, BINDING PROTEIN
FMNB_DESVM
UNP
1
1
Q46604
MLPGTFFEVLKNEGVVAIATQGEDGPHLVNTWNSYLKVLDGNRIVVPVGGMHKTEANVARDERVLMTLGSRKVAGRNGPG
TGFLIRGSAAFRTDGPEFEAIARFKWARAALVITVVSAEQTL
1
122
1AXJ
1
122
Q46604
A
1
1
122
6
1
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
HIS
27
A
HIS
27
A
TRP
32
A
TRP
32
A
VAL
15
A
VAL
15
A
THR
20
A
THR
20
A
ARG
63
A
ARG
63
A
SER
70
A
SER
70
A
THR
81
A
THR
81
A
ARG
92
A
ARG
92
A
ALA
109
A
ALA
109
A
GLN
120
A
GLN
120
A
ARG
43
A
ARG
43
A
VAL
48
A
VAL
48
A
LYS
37
A
LYS
37
A
VAL
38
A
VAL
38
FMN BINDING SITE.
Unknown
8
BINDING SITE FOR RESIDUE FMN A 123
A
FMN
123
Software
15
A
TRP
32
A
TRP
32
8
1_555
A
THR
31
A
THR
31
8
1_555
A
ASN
30
A
ASN
30
8
1_555
A
TRP
106
A
TRP
106
8
1_555
A
PRO
47
A
PRO
47
8
1_555
A
VAL
48
A
VAL
48
8
1_555
A
GLY
50
A
GLY
50
8
1_555
A
LYS
53
A
LYS
53
8
1_555
A
HIS
27
A
HIS
27
15
1_555
A
VAL
29
A
VAL
29
15
1_555
A
ASN
30
A
ASN
30
15
1_555
A
THR
31
A
THR
31
15
1_555
A
TRP
32
A
TRP
32
15
1_555
A
TYR
35
A
TYR
35
15
1_555
A
PRO
47
A
PRO
47
15
1_555
A
VAL
48
A
VAL
48
15
1_555
A
GLY
49
A
GLY
49
15
1_555
A
GLY
50
A
GLY
50
15
1_555
A
MET
51
A
MET
51
15
1_555
A
HIS
52
A
HIS
52
15
1_555
A
LYS
53
A
LYS
53
15
1_555
A
THR
54
A
THR
54
15
1_555
A
TRP
106
A
TRP
106
15
1_555
1
P 1