1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Laederach, A.
Andreotti, A.H.
Fulton, D.B.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
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 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
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
Biochemistry
BICHAW
0033
0006-2960
41
12359
12368
10.1021/bi026185z
12369825
Solution and micelle-bound structures of tachyplesin I and its active linear derivatives
2002
10.2210/pdb1ma6/pdb
pdb_00001ma6
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
2514.931
Tachyplesin I
C3Y, C7Y, C12Y, C16Y
1
syn
polymer
no
no
KWYFRVYYRGIYYRRYR
KWYFRVYYRGIYYRRYR
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
database_2
pdbx_nmr_software
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
2002-10-16
1
1
2008-04-28
1
2
2011-07-13
1
3
2021-10-27
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_struct_ref_seq_dif.details
Tachyplesin I solution structure in water
TPY4 solution structure in water
Tachyplesin I in the presence of 300 mM dodecylphosphocholine micelles
RCSB
Y
RCSB
2002-07-31
REL
REL
The peptide was chemically synthesized using Fmoc solid state synthesis. The sequence of the peptide is naturally found in Tachypleus Tridentatus (Japanese Horeshoe Crab).
sample
This structure was determined using standard 2D homonuclear techniques. A temperature of 313K was used to reduce spectral overlap.
structures with the lowest energy
300
31
2D NOESY
2D TOCSY
0.15%
3.0
ambient
313
K
Simulated annealing with complete cross validation
1
minimized average structure
TPY4 mutant of Tachyplesin I 1mM
300 mM Dodecylphosphocholine (D38)
90%/10% H2O/D2O with 0.15% TFA pH 3.0
Brunger, Adams, Clore, DeLano, Gros, Grosse-Kunstleve, Jiang, Kuszewski, Nilges, Pannu, Read, Rice, Simonson, Warren
structure solution
CNS
1.0
Bruker
processing
XwinNMR
6.1
Brunger, Adams, Clore, DeLano, Gros, Grosse-Kunstleve, Jiang, Kuszewski, Nilges, Pannu, Read, Rice, Simonson, Warren
refinement
CNS
1.0
500
Bruker
DRX
LYS
1
n
1
LYS
1
A
TRP
2
n
2
TRP
2
A
TYR
3
n
3
TYR
3
A
PHE
4
n
4
PHE
4
A
ARG
5
n
5
ARG
5
A
VAL
6
n
6
VAL
6
A
TYR
7
n
7
TYR
7
A
TYR
8
n
8
TYR
8
A
ARG
9
n
9
ARG
9
A
GLY
10
n
10
GLY
10
A
ILE
11
n
11
ILE
11
A
TYR
12
n
12
TYR
12
A
TYR
13
n
13
TYR
13
A
ARG
14
n
14
ARG
14
A
ARG
15
n
15
ARG
15
A
TYR
16
n
16
TYR
16
A
ARG
17
n
17
ARG
17
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
5
A
A
O
HE
TYR
ARG
3
5
1.58
6
A
A
HG3
H
ARG
GLY
9
10
1.30
6
A
A
O
N
ARG
ILE
9
11
2.19
8
A
A
O
H
TYR
ARG
3
5
1.59
12
A
A
HE3
H
TRP
TYR
2
3
1.34
14
A
A
O
H
GLY
TYR
10
12
1.58
24
A
A
O
H
TYR
ARG
12
14
1.57
25
A
A
O
N
ARG
ILE
9
11
2.13
26
A
A
C
HD1
TRP
TYR
2
3
1.51
27
A
A
HH11
HD12
ARG
ILE
5
11
1.31
28
A
A
O
H
ARG
TYR
5
7
1.49
30
A
A
O
H
ARG
TYR
5
7
1.45
30
A
A
O
HE
PHE
ARG
4
5
1.56
30
A
A
HD1
N
TYR
ARG
8
9
1.58
1
A
TRP
2
-57.48
-80.10
1
A
TYR
3
-121.39
-142.05
1
A
PHE
4
-24.83
-34.90
1
A
VAL
6
35.14
70.24
1
A
TYR
7
-146.28
14.08
1
A
TYR
8
-139.54
-89.29
1
A
ARG
9
103.54
116.41
2
A
TRP
2
-82.63
-105.66
2
A
TYR
3
-142.77
-111.77
2
A
PHE
4
-66.52
55.23
2
A
ARG
5
175.38
36.92
2
A
VAL
6
-69.98
70.58
2
A
TYR
8
-135.42
-76.75
2
A
ARG
9
96.90
128.44
2
A
ARG
14
-115.15
-83.31
2
A
ARG
15
24.44
-86.12
2
A
TYR
16
57.69
166.93
3
A
TRP
2
-53.41
-97.05
3
A
TYR
3
-122.55
-127.12
3
A
VAL
6
22.87
66.72
3
A
TYR
7
-153.32
23.74
3
A
TYR
8
-137.62
-94.41
3
A
ARG
9
-160.38
-61.91
3
A
ILE
11
-25.24
-76.31
3
A
TYR
16
60.54
119.28
4
A
TRP
2
69.69
-14.20
4
A
TYR
3
-141.27
-79.39
4
A
PHE
4
-65.07
64.11
4
A
ARG
5
170.76
-46.63
4
A
VAL
6
36.65
69.39
4
A
TYR
7
-152.01
13.45
4
A
ARG
9
-176.43
72.46
4
A
ILE
11
-35.40
-74.09
4
A
TYR
12
168.05
-28.93
4
A
TYR
16
-46.93
171.78
5
A
TYR
3
125.08
-150.70
5
A
PHE
4
-12.91
78.97
5
A
ARG
5
155.60
-51.11
5
A
VAL
6
34.73
66.72
5
A
TYR
7
-149.74
11.84
5
A
ARG
9
-151.66
-25.36
5
A
ARG
15
-45.16
-75.03
5
A
TYR
16
68.11
-66.64
6
A
TRP
2
-68.43
-103.26
6
A
TYR
3
-146.79
-37.89
6
A
VAL
6
39.91
29.52
6
A
TYR
8
-161.74
-78.93
6
A
ARG
9
115.22
-153.33
6
A
TYR
16
-45.52
150.15
7
A
TRP
2
-77.70
-102.41
7
A
TYR
3
-98.42
-122.48
7
A
PHE
4
-62.53
-70.51
7
A
ARG
5
-68.35
-70.11
7
A
VAL
6
63.39
-60.95
7
A
TYR
7
37.44
25.03
7
A
ARG
14
-135.60
-63.56
7
A
TYR
16
57.01
166.81
8
A
TRP
2
-48.49
-86.46
8
A
TYR
3
164.21
-65.26
8
A
PHE
4
-58.19
53.31
8
A
ARG
5
165.92
-35.38
8
A
VAL
6
25.62
72.77
8
A
TYR
7
-171.96
21.19
8
A
ARG
9
-156.00
69.99
8
A
TYR
12
47.44
26.60
8
A
ARG
14
-174.20
-32.24
9
A
TRP
2
38.91
-149.38
9
A
TYR
3
-134.71
-123.99
9
A
PHE
4
-32.90
-31.18
9
A
VAL
6
35.71
68.02
9
A
TYR
13
-74.58
-70.72
10
A
TRP
2
33.22
95.94
10
A
TYR
3
88.13
-161.54
10
A
PHE
4
-14.50
-62.93
10
A
VAL
6
37.60
73.11
10
A
TYR
7
-167.64
28.46
10
A
TYR
8
-145.47
-127.21
10
A
ARG
9
174.42
35.26
10
A
ILE
11
69.87
-49.57
10
A
TYR
12
76.16
34.52
11
A
TRP
2
-37.88
95.68
11
A
TYR
3
-34.62
-121.20
11
A
PHE
4
-25.63
75.69
11
A
ARG
5
149.04
-54.60
11
A
VAL
6
36.96
69.22
11
A
TYR
8
-113.56
-81.32
11
A
ARG
9
178.30
-38.98
11
A
ILE
11
-38.62
-81.27
11
A
TYR
12
177.74
35.81
11
A
TYR
16
-50.72
171.67
12
A
TRP
2
-24.94
-37.58
12
A
TYR
3
-172.79
-90.32
12
A
VAL
6
39.50
68.11
12
A
TYR
7
-156.15
22.20
12
A
TYR
12
63.33
67.54
13
A
TRP
2
-50.88
-81.34
13
A
TYR
3
-127.18
-124.33
13
A
ARG
5
84.33
-48.83
13
A
VAL
6
32.02
67.47
13
A
TYR
7
-143.20
16.99
13
A
TYR
8
-142.43
-118.29
13
A
ARG
9
151.04
-67.78
13
A
TYR
13
34.70
-88.65
13
A
ARG
14
-101.56
-78.31
13
A
ARG
15
32.36
-89.61
13
A
TYR
16
38.06
34.25
14
A
TRP
2
-62.81
-84.39
14
A
TYR
3
-129.41
-123.29
14
A
PHE
4
-7.42
-72.13
14
A
VAL
6
35.73
68.14
14
A
TYR
7
-143.66
-43.60
14
A
ILE
11
63.97
-45.12
14
A
TYR
12
72.79
45.30
15
A
TYR
3
-154.51
-113.79
15
A
PHE
4
-45.69
-7.63
15
A
ARG
5
-156.95
34.65
15
A
TYR
7
-147.89
16.57
15
A
TYR
8
-142.15
-93.48
15
A
ARG
9
159.15
36.60
15
A
ILE
11
70.86
-63.94
15
A
TYR
16
57.22
-158.04
16
A
TRP
2
-102.69
-102.44
16
A
TYR
3
-91.57
-98.02
16
A
PHE
4
-55.35
-71.24
16
A
ARG
5
-75.63
-76.38
16
A
TYR
8
-124.03
-152.73
16
A
ILE
11
-22.51
145.89
16
A
TYR
13
52.78
-70.61
16
A
ARG
14
-105.13
-80.38
16
A
ARG
15
25.51
-124.96
16
A
TYR
16
71.25
-70.71
17
A
TRP
2
-54.22
-81.28
17
A
PHE
4
23.77
-65.60
17
A
VAL
6
35.92
69.11
17
A
TYR
8
-107.72
-84.35
17
A
ARG
9
154.84
81.25
17
A
TYR
16
63.19
-78.62
18
A
TRP
2
94.33
-88.91
18
A
TYR
3
-151.29
-76.56
18
A
VAL
6
42.25
28.65
18
A
TYR
8
-144.89
-80.94
18
A
ARG
9
-174.13
-65.58
18
A
TYR
12
31.16
35.78
18
A
ARG
15
-69.67
79.66
19
A
TRP
2
-81.07
-114.14
19
A
TYR
3
-163.94
-76.77
19
A
ARG
5
-131.79
-39.16
19
A
TYR
8
-135.85
-108.10
19
A
ARG
9
150.04
-71.33
19
A
ILE
11
-35.88
158.33
19
A
TYR
12
-85.35
43.18
19
A
TYR
16
-27.36
-46.31
20
A
TRP
2
-23.65
-41.47
20
A
TYR
3
-102.83
-130.24
20
A
PHE
4
-20.78
-43.48
20
A
VAL
6
40.71
29.58
20
A
TYR
8
-133.73
-70.27
20
A
ARG
9
92.35
124.29
20
A
ILE
11
-0.34
-59.88
20
A
TYR
12
110.76
-0.58
21
A
TRP
2
-66.62
-105.27
21
A
TYR
3
-164.72
-145.32
21
A
PHE
4
-0.13
61.71
21
A
ARG
5
157.67
-50.98
21
A
ARG
9
-33.80
-35.26
21
A
ILE
11
179.01
-37.67
21
A
TYR
12
77.94
33.06
21
A
ARG
15
-102.57
-71.59
21
A
TYR
16
51.01
99.09
22
A
TYR
3
125.02
-161.55
22
A
PHE
4
7.76
-74.99
22
A
VAL
6
45.07
18.99
22
A
ARG
9
-65.54
-150.36
22
A
ILE
11
21.53
-81.75
22
A
TYR
12
170.38
-1.69
22
A
ARG
15
-81.50
-85.18
23
A
TYR
3
-138.98
-88.28
23
A
PHE
4
-50.29
19.42
23
A
ARG
5
-168.93
-37.79
23
A
VAL
6
37.01
84.47
23
A
TYR
7
-145.43
-0.55
23
A
TYR
8
-137.94
-78.29
23
A
ARG
9
111.92
-33.75
23
A
TYR
12
-93.57
50.52
23
A
TYR
13
-53.29
-117.62
24
A
TYR
3
-176.37
-157.54
24
A
PHE
4
-38.87
148.57
24
A
ARG
5
96.89
-45.27
24
A
VAL
6
24.87
88.21
24
A
TYR
7
-152.25
13.12
24
A
TYR
8
-128.68
-107.06
24
A
ARG
9
-157.68
-42.87
24
A
TYR
12
72.47
-58.98
24
A
TYR
13
52.44
-62.11
24
A
ARG
14
-153.86
37.70
24
A
TYR
16
-45.28
-70.31
25
A
TYR
3
-131.54
-102.20
25
A
VAL
6
39.48
71.39
25
A
TYR
7
-157.16
14.78
25
A
TYR
8
-171.57
-35.60
25
A
ARG
9
52.45
-100.04
25
A
ILE
11
-97.93
-64.43
25
A
TYR
12
169.27
-20.56
26
A
TRP
2
-96.48
-119.22
26
A
TYR
3
-153.50
-76.30
26
A
VAL
6
7.82
52.24
26
A
ILE
11
45.05
-102.37
26
A
TYR
12
172.76
31.01
26
A
TYR
16
-105.55
77.87
27
A
TRP
2
-89.79
-108.22
27
A
TYR
3
-99.50
-97.99
27
A
PHE
4
-63.80
55.36
27
A
ARG
5
-162.42
-70.33
27
A
VAL
6
43.76
4.47
27
A
ARG
14
-131.96
-77.63
27
A
ARG
15
44.76
-83.57
28
A
TRP
2
-57.95
-95.71
28
A
TYR
3
-115.34
-120.91
28
A
PHE
4
-60.44
-70.93
28
A
VAL
6
59.07
-51.59
28
A
TYR
7
47.02
8.16
28
A
ILE
11
-24.31
-65.34
29
A
TRP
2
-12.09
79.29
29
A
TYR
3
13.93
-91.89
29
A
PHE
4
-57.84
57.89
29
A
ARG
5
171.05
-46.66
29
A
VAL
6
30.68
56.21
29
A
TYR
7
-151.75
23.41
29
A
TYR
12
85.28
30.83
29
A
ARG
15
-50.97
109.52
30
A
TYR
3
28.76
-167.76
30
A
PHE
4
11.38
36.95
30
A
ARG
5
-152.32
-63.09
30
A
VAL
6
56.21
-42.14
30
A
ARG
9
71.45
-52.78
30
A
ILE
11
-5.18
-86.00
30
A
TYR
12
134.33
-11.06
31
A
TYR
3
-173.86
-86.72
31
A
PHE
4
-64.16
62.25
31
A
ARG
5
168.87
-55.67
31
A
VAL
6
37.11
71.36
31
A
ILE
11
-46.53
172.18
31
A
TYR
13
-93.96
-91.21
minimized average
TPY4 Tachyplesin I tyrosine mutant in the presence of dodecylphosphocholine micelles (300 mM)
1
N
N
ANTIMICROBIAL PROTEIN
Tachyplesin I, TPY4, dodecylphosphocholine, micelle, beta hairpin, ANTIMICROBIAL PROTEIN
TAC1_TACTR
UNP
1
24
P14213
KWCFRVCYRGICYRRCR
24
40
1MA6
1
17
P14213
A
1
1
17
1
CYS
engineered mutation
TYR
3
1MA6
A
P14213
UNP
26
3
1
CYS
engineered mutation
TYR
7
1MA6
A
P14213
UNP
30
7
1
CYS
engineered mutation
TYR
12
1MA6
A
P14213
UNP
35
12
1
CYS
engineered mutation
TYR
16
1MA6
A
P14213
UNP
39
16