1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Fowler, C.A.
Tian, F.
Al-Hashimi, H.M.
Prestegard, J.H.
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
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 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
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
304
447
460
10.1006/jmbi.2000.4199
11090286
Rapid determination of protein folds using residual dipolar couplings.
2000
NE
FEBS Lett.
FEBLAL
0165
0014-5793
388
66
72
10.1016/0014-5793(96)00512-1
NMR Investigations of the Structural Properties of the Nodulation Protein, NodF, from Rhizobium Leguminosarum and its Homology with Eschericia Coli Acyl Carrier Protein
1996
10.2210/pdb1fh1/pdb
pdb_00001fh1
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
9951.211
NODULATION PROTEIN F
1
man
polymer
NODF
no
no
MADQLTLEIISAINKLVKAENGERTSVALGEITTDTELTSLGIDSLGLADVLWDLEQLYGIKIEMNTADAWSNLNNIGDV
VEAVRGLLTKEV
MADQLTLEIISAINKLVKAENGERTSVALGEITTDTELTSLGIDSLGLADVLWDLEQLYGIKIEMNTADAWSNLNNIGDV
VEAVRGLLTKEV
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
Rhizobium
Escherichia
Escherichia coli
sample
384
Rhizobium leguminosarum
469008
Escherichia coli BL21(DE3)
BL21(DE3)
PMP2301
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
2001-01-17
1
1
2008-04-27
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
RCSB
2000-07-30
REL
Assignments were made using double and triple-resonance NMR spectroscopy. Dipolar couplings were measured and used to produce the protein backbone fold.
1
0
6.1
ambient
298
K
0
6.1
ambient
298
K
secondary structural elements (3 helices) were identified. these were split into smaller fragments and individual fragments were oriented using residual dipolar coupling data and the program Orderten_SVD (Losonczi, et al., J. Magn. Res., 138, 334-342, 1999). The fragments were reassembled and then positioned spatially by translation using a limited set of NOEs to produce a backbone fold of the nodF protein. THERE ARE N-CA-C ANGLE ERRORS (AS COMPARED TO THE STANDARD DICTIONARY) AT RESIDUES 13 AND 80. RESIDUE 80 LIES SOMEWHAT OUTSIDE ALLOWED RAMACHANDRAN SPACE. THESE SITES ARE POSITIONS WHERE ORIENTED HELICAL FRAGMENTS WERE REASSEMBLED INTO COMPLETE HELICES DURING DETERMINATION OF OF THE BACKBONE FOLD AND ANY SMALLER LOCAL DISTORTIONS FROM IDEALITY ARE EXPECTED TO CONCENTRATE HERE. THE STRUCTURE PRESENTED HERE CONTAINS ONLY COORDINATES FOR BACKBONE ATOMS INVOLVED IN SECONDARY STRUCTURE. THE STRUCTURE IS THE AVERAGE OF AN ENSEMBLE WITH A HEAVY ATOM RMSD OF 2.4 ANGSTROMS. CB POSITIONS COME FROM POLYALANINE HELICES USED TO MODEL THE BACKBONE.
other
2.5 mM NodF isotropic U-15N,13C 200 mM phosphate buffer, pH 6.1
90% H2O/10% D2O
1.0 mM NodF aligned U-15N,13C 200 mM phosphate buffer, pH 6.1 20 mg/mL Pf1 bacteriophage
90% H2O/10% D2O
MSI
processing
Felix
98
Losonczi
data analysis
Orderten_SVD
Fowler
structure solution
POSE
Fowler
refinement
POSE
800
Varian
INOVA
600
Varian
INOVA
500
Varian
INOVA
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
LEU
5
n
5
LEU
5
A
THR
6
n
6
THR
6
A
LEU
7
n
7
LEU
7
A
GLU
8
n
8
GLU
8
A
ILE
9
n
9
ILE
9
A
ILE
10
n
10
ILE
10
A
SER
11
n
11
SER
11
A
ALA
12
n
12
ALA
12
A
ILE
13
n
13
ILE
13
A
ASN
14
n
14
ASN
14
A
LYS
15
n
15
LYS
15
A
LEU
16
n
16
LEU
16
A
VAL
17
n
17
VAL
17
A
n
18
18
A
n
19
19
A
n
20
20
A
n
21
21
A
n
22
22
A
n
23
23
A
n
24
24
A
n
25
25
A
n
26
26
A
n
27
27
A
n
28
28
A
n
29
29
A
n
30
30
A
n
31
31
A
n
32
32
A
n
33
33
A
n
34
34
A
n
35
35
A
n
36
36
A
n
37
37
A
n
38
38
A
n
39
39
A
n
40
40
A
n
41
41
A
n
42
42
A
n
43
43
A
n
44
44
A
n
45
45
A
LEU
46
n
46
LEU
46
A
GLY
47
n
47
GLY
47
A
LEU
48
n
48
LEU
48
A
ALA
49
n
49
ALA
49
A
ASP
50
n
50
ASP
50
A
VAL
51
n
51
VAL
51
A
LEU
52
n
52
LEU
52
A
TRP
53
n
53
TRP
53
A
ASP
54
n
54
ASP
54
A
LEU
55
n
55
LEU
55
A
GLU
56
n
56
GLU
56
A
GLN
57
n
57
GLN
57
A
LEU
58
n
58
LEU
58
A
n
59
59
A
n
60
60
A
n
61
61
A
n
62
62
A
n
63
63
A
n
64
64
A
n
65
65
A
n
66
66
A
n
67
67
A
n
68
68
A
n
69
69
A
n
70
70
A
n
71
71
A
n
72
72
A
n
73
73
A
n
74
74
A
n
75
75
A
ASN
76
n
76
ASN
76
A
ILE
77
n
77
ILE
77
A
GLY
78
n
78
GLY
78
A
ASP
79
n
79
ASP
79
A
VAL
80
n
80
VAL
80
A
VAL
81
n
81
VAL
81
A
GLU
82
n
82
GLU
82
A
ALA
83
n
83
ALA
83
A
VAL
84
n
84
VAL
84
A
ARG
85
n
85
ARG
85
A
GLY
86
n
86
GLY
86
A
n
87
87
A
n
88
88
A
n
89
89
A
n
90
90
A
n
91
91
A
n
92
92
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
1
A
CG
LEU
5
A
CG
LEU
5
1
Y
1
A
CD1
LEU
5
A
CD1
LEU
5
1
Y
1
A
CD2
LEU
5
A
CD2
LEU
5
1
Y
1
A
OG1
THR
6
A
OG1
THR
6
1
Y
1
A
CG2
THR
6
A
CG2
THR
6
1
Y
1
A
CG
LEU
7
A
CG
LEU
7
1
Y
1
A
CD1
LEU
7
A
CD1
LEU
7
1
Y
1
A
CD2
LEU
7
A
CD2
LEU
7
1
Y
1
A
CG
GLU
8
A
CG
GLU
8
1
Y
1
A
CD
GLU
8
A
CD
GLU
8
1
Y
1
A
OE1
GLU
8
A
OE1
GLU
8
1
Y
1
A
OE2
GLU
8
A
OE2
GLU
8
1
Y
1
A
CG1
ILE
9
A
CG1
ILE
9
1
Y
1
A
CG2
ILE
9
A
CG2
ILE
9
1
Y
1
A
CD1
ILE
9
A
CD1
ILE
9
1
Y
1
A
CG1
ILE
10
A
CG1
ILE
10
1
Y
1
A
CG2
ILE
10
A
CG2
ILE
10
1
Y
1
A
CD1
ILE
10
A
CD1
ILE
10
1
Y
1
A
OG
SER
11
A
OG
SER
11
1
Y
1
A
CG1
ILE
13
A
CG1
ILE
13
1
Y
1
A
CG2
ILE
13
A
CG2
ILE
13
1
Y
1
A
CD1
ILE
13
A
CD1
ILE
13
1
Y
1
A
CG
ASN
14
A
CG
ASN
14
1
Y
1
A
OD1
ASN
14
A
OD1
ASN
14
1
Y
1
A
ND2
ASN
14
A
ND2
ASN
14
1
Y
1
A
CG
LYS
15
A
CG
LYS
15
1
Y
1
A
CD
LYS
15
A
CD
LYS
15
1
Y
1
A
CE
LYS
15
A
CE
LYS
15
1
Y
1
A
NZ
LYS
15
A
NZ
LYS
15
1
Y
1
A
CG
LEU
16
A
CG
LEU
16
1
Y
1
A
CD1
LEU
16
A
CD1
LEU
16
1
Y
1
A
CD2
LEU
16
A
CD2
LEU
16
1
Y
1
A
CG1
VAL
17
A
CG1
VAL
17
1
Y
1
A
CG2
VAL
17
A
CG2
VAL
17
1
Y
1
A
CG
LEU
46
A
CG
LEU
46
1
Y
1
A
CD1
LEU
46
A
CD1
LEU
46
1
Y
1
A
CD2
LEU
46
A
CD2
LEU
46
1
Y
1
A
CG
LEU
48
A
CG
LEU
48
1
Y
1
A
CD1
LEU
48
A
CD1
LEU
48
1
Y
1
A
CD2
LEU
48
A
CD2
LEU
48
1
Y
1
A
CG
ASP
50
A
CG
ASP
50
1
Y
1
A
OD1
ASP
50
A
OD1
ASP
50
1
Y
1
A
OD2
ASP
50
A
OD2
ASP
50
1
Y
1
A
CG1
VAL
51
A
CG1
VAL
51
1
Y
1
A
CG2
VAL
51
A
CG2
VAL
51
1
Y
1
A
CG
LEU
52
A
CG
LEU
52
1
Y
1
A
CD1
LEU
52
A
CD1
LEU
52
1
Y
1
A
CD2
LEU
52
A
CD2
LEU
52
1
Y
1
A
CG
TRP
53
A
CG
TRP
53
1
Y
1
A
CD1
TRP
53
A
CD1
TRP
53
1
Y
1
A
CD2
TRP
53
A
CD2
TRP
53
1
Y
1
A
NE1
TRP
53
A
NE1
TRP
53
1
Y
1
A
CE2
TRP
53
A
CE2
TRP
53
1
Y
1
A
CE3
TRP
53
A
CE3
TRP
53
1
Y
1
A
CZ2
TRP
53
A
CZ2
TRP
53
1
Y
1
A
CZ3
TRP
53
A
CZ3
TRP
53
1
Y
1
A
CH2
TRP
53
A
CH2
TRP
53
1
Y
1
A
CG
ASP
54
A
CG
ASP
54
1
Y
1
A
OD1
ASP
54
A
OD1
ASP
54
1
Y
1
A
OD2
ASP
54
A
OD2
ASP
54
1
Y
1
A
CG
LEU
55
A
CG
LEU
55
1
Y
1
A
CD1
LEU
55
A
CD1
LEU
55
1
Y
1
A
CD2
LEU
55
A
CD2
LEU
55
1
Y
1
A
CG
GLU
56
A
CG
GLU
56
1
Y
1
A
CD
GLU
56
A
CD
GLU
56
1
Y
1
A
OE1
GLU
56
A
OE1
GLU
56
1
Y
1
A
OE2
GLU
56
A
OE2
GLU
56
1
Y
1
A
CG
GLN
57
A
CG
GLN
57
1
Y
1
A
CD
GLN
57
A
CD
GLN
57
1
Y
1
A
OE1
GLN
57
A
OE1
GLN
57
1
Y
1
A
NE2
GLN
57
A
NE2
GLN
57
1
Y
1
A
CG
LEU
58
A
CG
LEU
58
1
Y
1
A
CD1
LEU
58
A
CD1
LEU
58
1
Y
1
A
CD2
LEU
58
A
CD2
LEU
58
1
Y
1
A
CG
ASN
76
A
CG
ASN
76
1
Y
1
A
OD1
ASN
76
A
OD1
ASN
76
1
Y
1
A
ND2
ASN
76
A
ND2
ASN
76
1
Y
1
A
CG1
ILE
77
A
CG1
ILE
77
1
Y
1
A
CG2
ILE
77
A
CG2
ILE
77
1
Y
1
A
CD1
ILE
77
A
CD1
ILE
77
1
Y
1
A
CG
ASP
79
A
CG
ASP
79
1
Y
1
A
OD1
ASP
79
A
OD1
ASP
79
1
Y
1
A
OD2
ASP
79
A
OD2
ASP
79
1
Y
1
A
CG1
VAL
80
A
CG1
VAL
80
1
Y
1
A
CG2
VAL
80
A
CG2
VAL
80
1
Y
1
A
CG1
VAL
81
A
CG1
VAL
81
1
Y
1
A
CG2
VAL
81
A
CG2
VAL
81
1
Y
1
A
CG
GLU
82
A
CG
GLU
82
1
Y
1
A
CD
GLU
82
A
CD
GLU
82
1
Y
1
A
OE1
GLU
82
A
OE1
GLU
82
1
Y
1
A
OE2
GLU
82
A
OE2
GLU
82
1
Y
1
A
CG1
VAL
84
A
CG1
VAL
84
1
Y
1
A
CG2
VAL
84
A
CG2
VAL
84
1
Y
1
A
CG
ARG
85
A
CG
ARG
85
1
Y
1
A
CD
ARG
85
A
CD
ARG
85
1
Y
1
A
NE
ARG
85
A
NE
ARG
85
1
Y
1
A
CZ
ARG
85
A
CZ
ARG
85
1
Y
1
A
NH1
ARG
85
A
NH1
ARG
85
1
Y
1
A
NH2
ARG
85
A
NH2
ARG
85
1
Y
1
A
MET
1
A
MET
1
1
Y
1
A
ALA
2
A
ALA
2
1
Y
1
A
ASP
3
A
ASP
3
1
Y
1
A
GLN
4
A
GLN
4
1
Y
1
A
LYS
18
A
LYS
18
1
Y
1
A
ALA
19
A
ALA
19
1
Y
1
A
GLU
20
A
GLU
20
1
Y
1
A
ASN
21
A
ASN
21
1
Y
1
A
GLY
22
A
GLY
22
1
Y
1
A
GLU
23
A
GLU
23
1
Y
1
A
ARG
24
A
ARG
24
1
Y
1
A
THR
25
A
THR
25
1
Y
1
A
SER
26
A
SER
26
1
Y
1
A
VAL
27
A
VAL
27
1
Y
1
A
ALA
28
A
ALA
28
1
Y
1
A
LEU
29
A
LEU
29
1
Y
1
A
GLY
30
A
GLY
30
1
Y
1
A
GLU
31
A
GLU
31
1
Y
1
A
ILE
32
A
ILE
32
1
Y
1
A
THR
33
A
THR
33
1
Y
1
A
THR
34
A
THR
34
1
Y
1
A
ASP
35
A
ASP
35
1
Y
1
A
THR
36
A
THR
36
1
Y
1
A
GLU
37
A
GLU
37
1
Y
1
A
LEU
38
A
LEU
38
1
Y
1
A
THR
39
A
THR
39
1
Y
1
A
SER
40
A
SER
40
1
Y
1
A
LEU
41
A
LEU
41
1
Y
1
A
GLY
42
A
GLY
42
1
Y
1
A
ILE
43
A
ILE
43
1
Y
1
A
ASP
44
A
ASP
44
1
Y
1
A
SER
45
A
SER
45
1
Y
1
A
TYR
59
A
TYR
59
1
Y
1
A
GLY
60
A
GLY
60
1
Y
1
A
ILE
61
A
ILE
61
1
Y
1
A
LYS
62
A
LYS
62
1
Y
1
A
ILE
63
A
ILE
63
1
Y
1
A
GLU
64
A
GLU
64
1
Y
1
A
MET
65
A
MET
65
1
Y
1
A
ASN
66
A
ASN
66
1
Y
1
A
THR
67
A
THR
67
1
Y
1
A
ALA
68
A
ALA
68
1
Y
1
A
ASP
69
A
ASP
69
1
Y
1
A
ALA
70
A
ALA
70
1
Y
1
A
TRP
71
A
TRP
71
1
Y
1
A
SER
72
A
SER
72
1
Y
1
A
ASN
73
A
ASN
73
1
Y
1
A
LEU
74
A
LEU
74
1
Y
1
A
ASN
75
A
ASN
75
1
Y
1
A
LEU
87
A
LEU
87
1
Y
1
A
LEU
88
A
LEU
88
1
Y
1
A
THR
89
A
THR
89
1
Y
1
A
LYS
90
A
LYS
90
1
Y
1
A
GLU
91
A
GLU
91
1
Y
1
A
VAL
92
A
VAL
92
1
Y
1
A
CA
ASP
50
PLANAR
1
A
A
O
CB
LEU
ILE
7
10
1.11
1
A
A
O
H
LEU
GLU
52
56
1.34
1
A
A
O
H
VAL
VAL
81
84
1.35
1
A
A
O
H
GLU
SER
8
11
1.45
1
A
A
O
N
VAL
ALA
81
83
1.74
1
A
A
O
N
GLU
SER
8
11
1.88
1
A
A
O
CA
LEU
ILE
7
10
1.95
1
A
A
C
N
GLU
ILE
8
10
2.05
1
A
A
O
N
LEU
ILE
7
10
2.13
1
-25.86
2.70
111.00
85.14
A
A
A
N
CA
C
ILE
ILE
ILE
9
9
9
N
1
-23.01
2.30
110.80
87.79
A
A
A
N
CA
CB
ILE
ILE
ILE
13
13
13
N
1
43.89
2.70
111.00
154.89
A
A
A
N
CA
C
ILE
ILE
ILE
13
13
13
N
1
29.38
2.70
111.00
140.38
A
A
A
N
CA
C
ASP
ASP
ASP
50
50
50
N
1
20.15
1.80
110.60
130.75
A
A
A
N
CA
CB
TRP
TRP
TRP
53
53
53
N
1
-52.02
2.20
111.50
59.48
A
A
A
N
CA
CB
VAL
VAL
VAL
80
80
80
N
1
43.47
2.70
111.00
154.47
A
A
A
N
CA
C
VAL
VAL
VAL
80
80
80
N
1
-19.12
1.80
110.60
91.48
A
A
A
N
CA
CB
GLU
GLU
GLU
82
82
82
N
1
A
ASP
50
-99.36
-89.30
1
A
TRP
53
-44.84
-80.70
1
A
VAL
80
145.50
7.41
1
A
GLU
82
-22.06
-24.02
BACKBONE FOLD OF NODF
1
N
N
A
LEU
5
A
LEU
5
HELX_P
A
VAL
17
A
VAL
17
1
1
13
A
ASP
50
A
ASP
50
HELX_P
A
LEU
58
A
LEU
58
1
2
9
A
VAL
81
A
VAL
81
HELX_P
A
GLY
86
A
GLY
86
1
3
6
LIPID BINDING PROTEIN
ROOT NODULATION FACTOR, PROTEIN BACKBONE FOLD, LIPID BINDING PROTEIN
NODF_RHILV
UNP
1
1
P04685
MADQLTLEIISAINKLVKAENGERTSVALGEITTDTELTSLGIDSLGLADVLWDLEQLYGIKIEMNTADAWSNLNNIGDV
VEAVRGLLTKEV
1
92
1FH1
1
92
P04685
A
1
1
92
1
P 1