1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Janssen, B.J.C.
Schirra, H.J.
Lay, F.T.
Anderson, M.A.
Craik, D.J.
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 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
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
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Biochemistry
BICHAW
0033
0006-2960
42
8214
8222
10.1021/bi034379o
12846570
Structure of Petunia hybrida defensin 1, a novel plant defensin with five disulfide bonds
2003
10.2210/pdb1n4n/pdb
pdb_00001n4n
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
5222.335
floral defensin-like protein 1
residues 1-47
1
nat
polymer
PhD1
no
no
ATCKAECPTWDSVCINKKPCVACCKKAKFSDGHCSKILRRCLCTKEC
ATCKAECPTWDSVCINKKPCVACCKKAKFSDGHCSKILRRCLCTKEC
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
Petunia
sample
4102
Petunia x hybrida
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
2003-11-01
1
1
2008-04-28
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
2002-11-01
REL
REL
This structure was determined using standard 2D homonuclear techniques.
structures with the least restraint violations,structures with the lowest energy
50
20
2D NOESY
DQF-COSY
2D NOESY
E-COSY
2D NOESY
DQF-COSY
0.94mM
3.1
ambient
310
K
0.94mM
3.1
ambient
280
K
The structures are based on 407 NOE-derived inter-residual distance constraints,
26 phi- and 28 chi1- angle constraints, and 30 distance constraints for 15 hydrogen bonds.
Torsion angle simulated annealing protocol, incorporated in CNS.
Refinement in a box with explicit water molecules using the method of Linge & Nilges (1999)
19
lowest energy
0.94mM 1H-PhD1
90% H2O/10% D2O
0.94mM 1H-PhD1
99% D2O, 1% H2O
Bruker
collection
XwinNMR
2.6
Bruker
processing
XwinNMR
2.6
Cieslar & Kalus
data analysis
CCNMR
glxccExplorer
Brunger
structure solution
X-PLOR
3.851
Brunger
structure solution
CNS
1.1
Brunger
refinement
CNS
1.1
750
Bruker
DMX
ALA
1
n
1
ALA
1
A
THR
2
n
2
THR
2
A
CYS
3
n
3
CYS
3
A
LYS
4
n
4
LYS
4
A
ALA
5
n
5
ALA
5
A
GLU
6
n
6
GLU
6
A
CYS
7
n
7
CYS
7
A
PRO
8
n
8
PRO
8
A
THR
9
n
9
THR
9
A
TRP
10
n
10
TRP
10
A
ASP
11
n
11
ASP
11
A
SER
12
n
12
SER
12
A
VAL
13
n
13
VAL
13
A
CYS
14
n
14
CYS
14
A
ILE
15
n
15
ILE
15
A
ASN
16
n
16
ASN
16
A
LYS
17
n
17
LYS
17
A
LYS
18
n
18
LYS
18
A
PRO
19
n
19
PRO
19
A
CYS
20
n
20
CYS
20
A
VAL
21
n
21
VAL
21
A
ALA
22
n
22
ALA
22
A
CYS
23
n
23
CYS
23
A
CYS
24
n
24
CYS
24
A
LYS
25
n
25
LYS
25
A
LYS
26
n
26
LYS
26
A
ALA
27
n
27
ALA
27
A
LYS
28
n
28
LYS
28
A
PHE
29
n
29
PHE
29
A
SER
30
n
30
SER
30
A
ASP
31
n
31
ASP
31
A
GLY
32
n
32
GLY
32
A
HIS
33
n
33
HIS
33
A
CYS
34
n
34
CYS
34
A
SER
35
n
35
SER
35
A
LYS
36
n
36
LYS
36
A
ILE
37
n
37
ILE
37
A
LEU
38
n
38
LEU
38
A
ARG
39
n
39
ARG
39
A
ARG
40
n
40
ARG
40
A
CYS
41
n
41
CYS
41
A
LEU
42
n
42
LEU
42
A
CYS
43
n
43
CYS
43
A
THR
44
n
44
THR
44
A
LYS
45
n
45
LYS
45
A
GLU
46
n
46
GLU
46
A
CYS
47
n
47
CYS
47
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
CYS
3
A
N
CYS
3
A
O
LYS
45
A
O
LYS
45
A
O
LEU
42
A
O
LEU
42
A
N
HIS
33
A
N
HIS
33
1
A
A
HZ1
OE1
LYS
GLU
4
6
1.59
2
A
A
H3
OXT
ALA
CYS
1
47
1.51
2
A
A
HZ1
OD1
LYS
ASP
25
31
1.53
2
A
A
HZ2
OE2
LYS
GLU
45
46
1.58
3
A
A
H3
OXT
ALA
CYS
1
47
1.52
4
A
A
H3
OXT
ALA
CYS
1
47
1.50
5
A
A
HZ3
OE2
LYS
GLU
4
6
1.51
5
A
A
HZ3
OD1
LYS
ASP
17
31
1.57
7
A
A
HZ1
OE2
LYS
GLU
4
6
1.52
7
A
A
HZ1
OE1
LYS
GLU
45
46
1.53
9
A
A
HA
HH12
ASP
ARG
11
40
1.00
9
A
A
HB3
HD13
SER
LEU
35
42
1.34
9
A
A
HZ3
OE2
LYS
GLU
45
46
1.50
9
A
A
HZ2
OD2
LYS
ASP
17
31
1.58
10
A
A
HB3
HD11
SER
LEU
35
42
1.31
10
A
A
HZ3
OE2
LYS
GLU
4
6
1.52
11
A
A
H3
OXT
ALA
CYS
1
47
1.50
13
A
A
HA
HE3
CYS
LYS
23
26
1.29
13
A
A
H1
OXT
ALA
CYS
1
47
1.49
15
A
A
H3
O
ALA
CYS
1
47
1.49
16
A
A
H
HB2
CYS
ARG
14
39
1.30
17
A
A
HB3
HD12
SER
LEU
35
42
1.29
17
A
A
HZ1
OE2
LYS
GLU
4
6
1.59
18
A
A
H2
O
ALA
CYS
1
47
1.50
18
A
A
HZ3
OE2
LYS
GLU
45
46
1.54
19
A
A
HZ2
OE2
LYS
GLU
4
6
1.52
20
A
A
HA
HZ3
CYS
LYS
23
26
1.28
20
A
A
HZ1
OE2
LYS
GLU
4
6
1.57
1
A
THR
9
-89.52
44.50
1
A
ASP
11
-150.36
51.44
1
A
LYS
28
72.52
49.46
1
A
ILE
37
-69.45
-100.64
2
A
ASP
11
-150.75
62.97
2
A
ILE
15
-130.76
-61.09
2
A
ILE
37
-64.69
-82.59
3
A
THR
9
-98.31
47.26
3
A
ASP
11
-147.63
-20.78
3
A
LYS
45
-161.52
-156.23
4
A
THR
9
-97.36
44.10
4
A
ASP
11
-151.11
67.76
4
A
LYS
28
64.29
61.96
4
A
ILE
37
-67.62
-72.19
4
A
ARG
40
-83.79
-145.54
5
A
THR
9
-91.97
48.56
5
A
SER
12
-100.60
-169.21
5
A
ILE
37
-67.72
-105.88
6
A
THR
9
-92.09
49.74
6
A
ASP
11
-150.11
-29.84
6
A
LYS
28
66.55
70.84
6
A
SER
35
-74.18
-159.54
7
A
THR
9
-90.63
46.02
7
A
ASP
11
-150.34
53.07
7
A
LYS
28
72.39
45.71
7
A
SER
35
-77.97
-165.12
7
A
ILE
37
-77.99
-100.74
8
A
THR
9
-90.99
43.71
8
A
ASP
11
-151.20
59.85
8
A
LYS
28
71.07
43.67
8
A
SER
35
-99.19
-157.27
8
A
LYS
36
-150.32
-39.47
8
A
ILE
37
-55.34
-76.93
8
A
ARG
40
-87.46
-91.22
8
A
CYS
41
-176.23
106.76
9
A
THR
9
-90.86
43.56
9
A
TRP
10
-150.32
85.91
9
A
LYS
28
71.55
35.98
9
A
SER
35
-87.80
-156.08
9
A
LYS
36
-133.58
-34.28
9
A
ILE
37
-61.28
-98.96
10
A
THR
9
-86.80
44.48
10
A
ASP
11
-151.22
66.66
10
A
SER
35
-92.84
-159.00
10
A
ILE
37
-67.43
-102.30
11
A
THR
9
-92.83
50.64
11
A
ASP
11
-150.54
-29.51
11
A
LYS
28
65.22
68.17
11
A
ILE
37
-69.96
-101.76
12
A
THR
9
-97.78
45.36
12
A
ASP
11
-148.01
58.97
12
A
LYS
28
71.40
56.83
12
A
ILE
37
-67.16
-75.71
13
A
THR
9
-88.58
45.43
13
A
ASP
11
-150.50
68.57
13
A
SER
35
-81.45
-155.06
13
A
ILE
37
-60.54
-89.63
14
A
THR
9
-92.71
47.30
14
A
ASP
11
-150.71
62.50
14
A
ILE
37
-71.03
-106.17
15
A
ASP
11
-143.58
29.27
15
A
LYS
28
70.51
57.40
15
A
SER
35
-77.90
-162.59
15
A
ILE
37
-61.11
-88.64
16
A
THR
2
-152.73
88.23
16
A
THR
9
-90.44
41.02
16
A
ASP
11
-151.03
55.59
16
A
ILE
37
-71.65
-95.51
16
A
LYS
45
-160.40
-168.68
17
A
ASP
11
-150.35
18.97
17
A
SER
35
-87.31
-156.69
17
A
LEU
38
-140.76
23.03
18
A
THR
9
-93.66
50.52
18
A
ASP
11
-150.96
-28.18
18
A
LYS
28
72.72
36.08
18
A
ILE
37
-69.98
-104.50
19
A
THR
9
-91.14
46.32
19
A
ASP
11
-150.63
57.27
19
A
LYS
28
78.93
36.02
19
A
ILE
37
-68.85
-102.16
20
A
THR
9
-87.19
46.27
20
A
ASP
11
-150.31
60.06
20
A
SER
35
-79.39
-157.03
Structure of the Plant Defensin PhD1 from Petunia Hybrida
1
N
N
A
ASN
16
A
ASN
16
HELX_P
A
ALA
27
A
ALA
27
1
1
12
disulf
2.029
A
CYS
3
A
SG
CYS
3
1_555
A
CYS
47
A
SG
CYS
47
1_555
disulf
2.023
A
CYS
7
A
SG
CYS
7
1_555
A
CYS
23
A
SG
CYS
23
1_555
disulf
2.027
A
CYS
14
A
SG
CYS
14
1_555
A
CYS
34
A
SG
CYS
34
1_555
disulf
2.023
A
CYS
20
A
SG
CYS
20
1_555
A
CYS
41
A
SG
CYS
41
1_555
disulf
2.029
A
CYS
24
A
SG
CYS
24
1_555
A
CYS
43
A
SG
CYS
43
1_555
PLANT PROTEIN
Cysteine-stabilised alpha-beta motif, fifth disulfide bond, Plant protein
DEF1_PETHY
UNP
1
26
Q8H6Q1
ATCKAECPTWDSVCINKKPCVACCKKAKFSDGHCSKILRRCLCTKEC
26
72
1N4N
1
47
Q8H6Q1
A
1
1
47
3
anti-parallel
anti-parallel
A
CYS
3
A
CYS
3
A
GLU
6
A
GLU
6
A
CYS
41
A
CYS
41
A
LYS
45
A
LYS
45
A
ASP
31
A
ASP
31
A
CYS
34
A
CYS
34