1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Ketchem, R.R.
Roux, B.
Cross, T.A.
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 H13 N O2
131.173
D-LEUCINE
D-peptide linking
C5 H11 N O2
117.146
D-VALINE
D-peptide linking
C2 H7 N O
61.083
ETHANOLAMINE
L-peptide COOH carboxy terminus
C6 H11 N O3
145.156
n
N-formyl-L-valine
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
R
C
N
16
N
C
N
17
N
C
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
O
N
22
N
O
N
23
N
H
N
24
N
H
N
25
N
H
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
N
N
37
R
C
N
38
N
C
N
39
N
C
N
40
N
C
N
41
N
C
N
42
N
O
N
43
N
O
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
H
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
C
N
56
N
N
N
57
N
C
N
58
N
O
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
C
N
67
N
N
N
68
N
O
N
69
S
C
N
70
N
C
N
71
N
C
N
72
N
C
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
H
N
79
N
H
N
80
N
H
N
81
N
H
N
82
N
O
N
83
N
C
N
84
N
H
N
85
N
O
N
86
N
H
N
87
N
N
N
88
N
C
N
89
N
C
N
90
N
O
N
91
N
O
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
N
N
98
S
C
N
99
N
C
N
100
N
O
N
101
N
C
Y
102
N
C
Y
103
N
C
Y
104
N
C
Y
105
N
N
Y
106
N
C
Y
107
N
C
Y
108
N
C
Y
109
N
C
Y
110
N
C
N
111
N
O
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
N
N
125
S
C
N
126
N
C
N
127
N
O
N
128
N
C
N
129
N
C
N
130
N
C
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
doub
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
doub
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
doub
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
doub
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
doub
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
doub
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
Y
102
N
doub
Y
103
N
sing
Y
104
N
sing
N
105
N
sing
Y
106
N
doub
Y
107
N
sing
Y
108
N
sing
N
109
N
sing
Y
110
N
sing
Y
111
N
doub
N
112
N
sing
Y
113
N
doub
N
114
N
sing
Y
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
doub
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
NE
J.Biomol.NMR
JBNME9
0800
0925-2738
8
1
10.1007/BF00198135
8810522
Macromolecular Structural Elucidation with Solid-State NMR-Derived Orientational Constraints.
1996
Boston : Birkhauser
Biological Membranes: A Molecular Perspective from Computation and Experiment
0-8176-3827-X
299
Computational Refinement Through Solid State NMR and Energy Constraints of a Membrane Bound Polypeptide
1996
US
Biochemistry
BICHAW
0033
0006-2960
34
857
10.1021/BI00003A020
7530046
Lipid-Peptide Interface: Valine Conformation and Dynamics in the Gramicidin Channel
1995
US
Biochemistry
BICHAW
0033
0006-2960
34
14138
10.1021/BI00043A019
7578011
Tryptophan Dynamics and Structural Refinement in a Lipid Bilayer Environment: Solid State NMR of the Gramicidin Channel
1995
US
Science
SCIEAS
0038
0036-8075
261
1457
10.1126/science.7690158
7690158
High-Resolution Conformation of Gramicidin a in a Lipid Bilayer by Solid-State NMR
1993
1
2
10.2210/pdb1mag/pdb
pdb_00001mag
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1882.294
GRAMICIDIN A
2
man
polymer
VALYL GRAMICIDIN
no
yes
(FVA)GA(DLE)A(DVA)V(DVA)W(DLE)W(DLE)W(DLE)W(ETA)
VGALAVVVWLWLWLWX
A,B
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
1393
BREVIBACILLUS BREVIS
citation
pdbx_database_status
diffrn
diffrn_radiation
diffrn_radiation_wavelength
pdbx_nmr_refine
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_assembly_prop
pdbx_struct_oper_list
atom_site
chem_comp_atom
chem_comp_bond
database_2
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Other
Database references
Other
Data collection
Derived calculations
Refinement description
Atomic model
Data collection
Database references
Derived calculations
1
0
1997-01-11
1
1
2011-06-14
1
2
2011-07-13
1
3
2011-07-27
1
4
2012-12-12
1
5
2017-12-20
1
6
2018-03-14
2
0
2023-11-15
_citation.pdbx_database_id_DOI
_pdbx_database_status.process_site
_pdbx_nmr_refine.details
_pdbx_nmr_refine.method
_pdbx_nmr_software.authors
_pdbx_nmr_spectrometer.field_strength
_pdbx_nmr_spectrometer.model
_pdbx_struct_assembly.details
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly_prop.value
_pdbx_struct_oper_list.symmetry_operation
_atom_site.auth_atom_id
_atom_site.label_atom_id
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
CRYSTAL STRUCTURE OF GRAMICIDIN S COMPLEXED WITH ALKALINE PROTEINASE SAVINASE
CRYSTAL STRUCTURE OF GRAMICIDIN A FROM CRYSTALS GROWN IN A LIPID CUBIC PHASE.
CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE
CRYSTAL STRUCTURE OF GRAMICIDIN A FROM BACILLUS BREVIS
CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE
CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLRXED WITH POTASSIUM THIOCYANATE
SOLUTION STRUCTURE OF THE GRAMICIDIN A
SOLUTION STRUCTURE OF GRAMICIDIN A IN SODIUM DODECYL SULFATE MICELLES
SOLUTION STRUCTURE OF A LINKED SHORTENED GRAMICIDIN A IN BENZENE/ACETONE 10:1
SOLUTION STRUCTURE OF GRAMICIDIN A IN METHANOL IN THE PRESENCE OF CACL
SOLUTION STRUCTURE OF GRAMICIDIN A (W15G) IN SODIUM DODECYL SULFATE MICELLES
SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES
SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES IN THE PRESENCE OF EXCESS NA+
SOLUTION STRUCTURE OF GRAMICIDIN A (V1F) IN SODIUM DODECYL SULFATE MICELLES
SOLUTION STRUCTURE OF GRAMICIDIN B IN SODIUM DODECYL SULFATE MICELLES
SOLUTION STRUCTURE OF GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES
SOLUTION STRUCTURE OF F1-GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES
SOLUTION STRUCTURE OF A LINKED UNSYMMETRIC GRAMICIDIN A IN A MEMBRANE-ISOELECTRICAL SOLVENTS MIXTURE, IN THE PRESENCE OF CSCL
CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL
CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH KI IN METHANOL
CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH NAI
CRYSTAL STRUCTURE OF GRAMICIDIN D IN N-PROPANOL
CRYSTAL STRUCTURE OF GRAMICIDIN D IN METHANOL
CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL
Y
BNL
1996-06-06
REL
GRAMICIDIN IS A HETEROGENEOUS MIXTURE OF SEVERAL COMPOUNDS
INCLUDING GRAMICIDIN A, B AND C WHICH ARE OBTAINED FROM
BACILLUS BREVIS AND CALLED COLLECTIVELY GRAMICIDIN D
HERE, GRAMICIDIN A IS REPRESENTED BY THE SEQUENCE (SEQRES)
Antibiotic
GRAMICIDIN A IS A HEXADECAMERIC HELICAL PEPTIDE
WITH ALTERNATING D,L CHARACTERISTICS.
THE N-TERM IS FORMYLATED (RESIDUE 0).
THE C-TERM IS CAPPED WITH ETHANOLAMINE (RESIDUE 16).
GRAMICIDIN A
Polypeptide
1
SOLID STATE
CROSS POLARIZED
7.0
303
K
CHARMM23 STRUCTURE REFINED WITH TORC (TOTAL REFINEMENT OF CONSTRAINTS), DEVELOPED IN AUTHORS' LAB. TORC RUNS AS A MODULE WITHIN CHARMM AND UTILIZES A SIMULATED ANNEALING PROTOCOL TO REFINE THE STRUCTURE AGAINST BOTH THE SOLID STATE NMR DATA (INCLUDING SOLID STATE NMR DERIVED ORIENTATIONAL CONSTRAINTS) AND THE CHARMM ENERGY.
simulated annealing
KETCHEM,ROUX,CROSS
refinement
TORC
KETCHEM,ROUX,CROSS
structure solution
TORC
400
CHEMAGNETICS
CMX
FVA
1
n
1
FVA
1
A
GLY
2
n
2
GLY
2
A
ALA
3
n
3
ALA
3
A
DLE
4
n
4
DLE
4
A
ALA
5
n
5
ALA
5
A
DVA
6
n
6
DVA
6
A
VAL
7
n
7
VAL
7
A
DVA
8
n
8
DVA
8
A
TRP
9
n
9
TRP
9
A
DLE
10
n
10
DLE
10
A
TRP
11
n
11
TRP
11
A
DLE
12
n
12
DLE
12
A
TRP
13
n
13
TRP
13
A
DLE
14
n
14
DLE
14
A
TRP
15
n
15
TRP
15
A
ETA
16
n
16
ETA
16
A
FVA
1
n
1
FVA
1
B
GLY
2
n
2
GLY
2
B
ALA
3
n
3
ALA
3
B
DLE
4
n
4
DLE
4
B
ALA
5
n
5
ALA
5
B
DVA
6
n
6
DVA
6
B
VAL
7
n
7
VAL
7
B
DVA
8
n
8
DVA
8
B
TRP
9
n
9
TRP
9
B
DLE
10
n
10
DLE
10
B
TRP
11
n
11
TRP
11
B
DLE
12
n
12
DLE
12
B
TRP
13
n
13
TRP
13
B
DLE
14
n
14
DLE
14
B
TRP
15
n
15
TRP
15
B
ETA
16
n
16
ETA
16
B
author_defined_assembly
2
dimeric
770
-2
2810
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
ALA
3
A
N
ALA
3
B
O
ALA
3
B
O
ALA
3
1
17.66
1.70
111.00
128.66
A
A
A
CB
CG
CD2
DLE
DLE
DLE
4
4
4
N
1
10.55
1.70
111.00
121.55
A
A
A
CB
CG
CD2
DLE
DLE
DLE
10
10
10
N
1
14.25
1.70
111.00
125.25
A
A
A
CB
CG
CD1
DLE
DLE
DLE
12
12
12
N
1
-13.02
2.00
110.40
97.38
A
A
A
N
CA
CB
DLE
DLE
DLE
14
14
14
N
1
11.95
1.70
111.00
122.95
A
A
A
CB
CG
CD1
DLE
DLE
DLE
14
14
14
N
1
17.66
1.70
111.00
128.66
B
B
B
CB
CG
CD2
DLE
DLE
DLE
4
4
4
N
1
10.55
1.70
111.00
121.55
B
B
B
CB
CG
CD2
DLE
DLE
DLE
10
10
10
N
1
14.25
1.70
111.00
125.25
B
B
B
CB
CG
CD1
DLE
DLE
DLE
12
12
12
N
1
-13.02
2.00
110.40
97.38
B
B
B
N
CA
CB
DLE
DLE
DLE
14
14
14
N
1
11.95
1.70
111.00
122.95
B
B
B
CB
CG
CD1
DLE
DLE
DLE
14
14
14
N
GRAMICIDIN A IN HYDRATED DMPC BILAYERS, SOLID STATE NMR
1
N
N
1
N
N
covale
1.344
both
A
FVA
1
A
C
FVA
1
1_555
A
GLY
2
A
N
GLY
2
1_555
covale
1.342
both
A
ALA
3
A
C
ALA
3
1_555
A
DLE
4
A
N
DLE
4
1_555
covale
1.366
both
A
DLE
4
A
C
DLE
4
1_555
A
ALA
5
A
N
ALA
5
1_555
covale
1.336
both
A
ALA
5
A
C
ALA
5
1_555
A
DVA
6
A
N
DVA
6
1_555
covale
1.354
both
A
DVA
6
A
C
DVA
6
1_555
A
VAL
7
A
N
VAL
7
1_555
covale
1.345
both
A
VAL
7
A
C
VAL
7
1_555
A
DVA
8
A
N
DVA
8
1_555
covale
1.351
both
A
DVA
8
A
C
DVA
8
1_555
A
TRP
9
A
N
TRP
9
1_555
covale
1.340
both
A
TRP
9
A
C
TRP
9
1_555
A
DLE
10
A
N
DLE
10
1_555
covale
1.340
both
A
DLE
10
A
C
DLE
10
1_555
A
TRP
11
A
N
TRP
11
1_555
covale
1.329
both
A
TRP
11
A
C
TRP
11
1_555
A
DLE
12
A
N
DLE
12
1_555
covale
1.342
both
A
DLE
12
A
C
DLE
12
1_555
A
TRP
13
A
N
TRP
13
1_555
covale
1.336
both
A
TRP
13
A
C
TRP
13
1_555
A
DLE
14
A
N
DLE
14
1_555
covale
1.354
both
A
DLE
14
A
C
DLE
14
1_555
A
TRP
15
A
N
TRP
15
1_555
covale
1.346
both
A
TRP
15
A
C
TRP
15
1_555
A
ETA
16
A
N
ETA
16
1_555
covale
1.344
both
B
FVA
1
B
C
FVA
1
1_555
B
GLY
2
B
N
GLY
2
1_555
covale
1.342
both
B
ALA
3
B
C
ALA
3
1_555
B
DLE
4
B
N
DLE
4
1_555
covale
1.366
both
B
DLE
4
B
C
DLE
4
1_555
B
ALA
5
B
N
ALA
5
1_555
covale
1.336
both
B
ALA
5
B
C
ALA
5
1_555
B
DVA
6
B
N
DVA
6
1_555
covale
1.354
both
B
DVA
6
B
C
DVA
6
1_555
B
VAL
7
B
N
VAL
7
1_555
covale
1.345
both
B
VAL
7
B
C
VAL
7
1_555
B
DVA
8
B
N
DVA
8
1_555
covale
1.351
both
B
DVA
8
B
C
DVA
8
1_555
B
TRP
9
B
N
TRP
9
1_555
covale
1.340
both
B
TRP
9
B
C
TRP
9
1_555
B
DLE
10
B
N
DLE
10
1_555
covale
1.340
both
B
DLE
10
B
C
DLE
10
1_555
B
TRP
11
B
N
TRP
11
1_555
covale
1.329
both
B
TRP
11
B
C
TRP
11
1_555
B
DLE
12
B
N
DLE
12
1_555
covale
1.342
both
B
DLE
12
B
C
DLE
12
1_555
B
TRP
13
B
N
TRP
13
1_555
covale
1.336
both
B
TRP
13
B
C
TRP
13
1_555
B
DLE
14
B
N
DLE
14
1_555
covale
1.354
both
B
DLE
14
B
C
DLE
14
1_555
B
TRP
15
B
N
TRP
15
1_555
covale
1.346
both
B
TRP
15
B
C
TRP
15
1_555
B
ETA
16
B
N
ETA
16
1_555
ANTIBIOTIC
GRAMICIDIN, ANTIFUNGAL, ANTIBACTERIAL, ANTIBIOTIC, MEMBRANE ION CHANNEL, LINEAR GRAMICIDIN, ORIENTED BILAYERS
NOR00243
NOR
1
NOR00243
1
16
1MAG
1
16
NOR00243
A
1
1
16
1
16
1MAG
1
16
NOR00243
B
1
1
16
2
anti-parallel
A
GLY
2
A
GLY
2
A
TRP
15
A
TRP
15
B
GLY
2
B
GLY
2
B
TRP
15
B
TRP
15
BINDING SITE FOR CHAIN A OF GRAMICIDIN A
Software
3
BINDING SITE FOR CHAIN B OF GRAMICIDIN A
Software
3
B
GLY
2
B
GLY
2
3
1_555
B
ALA
3
B
ALA
3
3
1_555
B
ALA
5
B
ALA
5
3
1_555
A
GLY
2
A
GLY
2
3
1_555
A
ALA
3
A
ALA
3
3
1_555
A
ALA
5
A
ALA
5
3
1_555
1
P 1