1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Hsu, S.-T.
Breukink, E.
Bierbaum, G.
Sahl, H.-G.
de Kruijff, B.
Kaptein, R.
van Nuland, N.A.
Bonvin, A.M.
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 S
121.158
y
CYSTEINE
L-peptide linking
C4 H9 N O2
103.120
D-ALPHA-AMINOBUTYRIC ACID
D-peptide linking
C3 H5 N O2
87.077
n
2-AMINO-ACRYLIC ACID
2,3-DIDEHYDROALANINE
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
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C2 H5 N S
75.133
2-AMINO-ETHENETHIOL
2-THIOETHENAMINE
non-polymer
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
278
13110
10.1074/JBC.M211144200
12562773
NMR Study of Mersacidin and Lipid II Interaction in Dodecylphosphocholine Micelles. Conformational Changes are a Key to Antimicrobial Activity
2003
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
x-ray
1
1.0
1834.256
LANTIBIOTIC MERSACIDIN
1
nat
polymer
TYPE-B LANTIBIOTICS MERSACIDIN
no
yes
C(DBB)F(DBB)LPGGGGVC(DBB)L(DBB)(DHA)ECI(TEE)
CTFTLPGGGGVCTLTSECIX
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
69002
BACILLUS SP. HIL-Y85/54728
HIL Y-85, 54728
pdbx_database_related
pdbx_nmr_ensemble
pdbx_nmr_sample_details
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_assembly_prop
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Other
Other
Data collection
Database references
Derived calculations
Experimental preparation
1
0
2003-03-11
1
1
2009-02-24
1
2
2011-07-13
1
3
2011-07-27
1
4
2012-12-12
1
5
2018-08-08
_pdbx_nmr_ensemble.conformer_selection_criteria
_pdbx_nmr_ensemble.conformers_calculated_total_number
_pdbx_nmr_sample_details.contents
_pdbx_nmr_sample_details.label
_pdbx_nmr_sample_details.solvent_system
_pdbx_nmr_sample_details.type
_pdbx_nmr_software.classification
_pdbx_nmr_software.name
_pdbx_nmr_software.version
_pdbx_struct_assembly.details
_pdbx_struct_assembly.method_details
_pdbx_struct_oper_list.symmetry_operation
SOLUTION STRUCTURE OF THE LANTIBIOTIC ACTAGARDINE
SOLUTION STRUCTURE OF TYPE B LANTIBIOTICS MERSACIDIN IN MEOH/H2O MIXTURE
SOLUTION STRUCTURE OF TYPE B LANTIBIOTICS MERSACIDIN IN DPC MICELLES
CRYSTAL STRUCTURE OF THE TUPE B LANTIBIOTIC MERSACIDIN
SOLUTION STRUCTURE OF THE LANTIBIOTIC EPILANCIN 15X
SOLUTION STRUCTURE OF NISIN AND LIPID II COMPLEX
SOLUTION STRUCTURE OF THE LANTIBIOTIC CINNAMYCIN COMPLEXED WITH LYSOPHOSPHATIDYLETHANOLAMINE
SOLUTION STRUCTURE OF LCH-ALPHA PEPTIDE FROM TWO-COMPONENT LANTIBIOTIC SYSTEM LICHENICIDIN VK21 A1
SOLUTION STRUCTURE OF LCH-BETA PEPTIDE FROM TWO-COMPONENT LANTIBIOTIC LICHENICIDIN VK21 A2
Chemical shift data of mersacidin in MeOH/H2O
chemical shift data of mersacidin DPCbound
Chemical shift data of mersacidin in lipid II
RCSB
Y
RCSB
2002-09-17
REL
REL
MERSACIDIN IS A GLOBULAR TYPE B LANTIBIOTIC. THE
LANTIBIOTICS ARE CHARACTERIZED BY THIOETHER AMINO ACIDS LANTHIONINE
AND/OR METHYLLANTHIONINE.
HERE, MERSACIDIN IS REPRESENTED BY THE SEQUENCE (SEQRES)
Antibiotic
MERSACIDIN IS A TETRACYCLIC PEPTIDE. POST TRANSLATIONAL MATURATION
OF LANTIBIOTICS INVOLVES THE ENZYMIC CONVERSION OF THR, AND SER INTO
DEHYDRATED AA AND THE FORMATION OF THIOETHER BONDS WITH CYSTEINE. THE
CARBOXY-TERMINAL BETA-METHYLLANTHIONINE UNDERGOES
DECARBOXYLATION. THIOETHER BONDS WITH CYSTEINE RESULT IN FOUR
RINGS. THIS IS FOLLOWED BY MEMBRANE TRANSLOCATION AND CLEAVAGE OF THE
MODIFIED PRECURSOR.
Mersacidin
Oligopeptide
structures with the lowest energy
50
17
2D NOESY
2D TOCSY
DQF-COSY
6.0
1
atm
293
K
OPLS WATER REFINEMENT
SIMULATED ANNEALING TORSION, ANGLE DYNAMICS
2 mM mersacidin in 10 mM sodium phosphate buffer at pH 6.0, 2mM unlabeled lipid II, 100mM perdeuterated DPC, 37% methanol/63% H2O
sample_1
37% methanol/63% H2O
micelle
refinement
ARIA
1.1
collection
XWINNMR
processing
NMRPIPE
structure calculation
CNS
1.1
structure calculation
ARIA
1.1
500
Varian
UNITYPLUS
600
Bruker
DRX
750
Bruker
DRX
CYS
1
n
1
CYS
1
A
DBB
2
n
2
DBB
2
A
PHE
3
n
3
PHE
3
A
DBB
4
n
4
DBB
4
A
LEU
5
n
5
LEU
5
A
PRO
6
n
6
PRO
6
A
GLY
7
n
7
GLY
7
A
GLY
8
n
8
GLY
8
A
GLY
9
n
9
GLY
9
A
GLY
10
n
10
GLY
10
A
VAL
11
n
11
VAL
11
A
CYS
12
n
12
CYS
12
A
DBB
13
n
13
DBB
13
A
LEU
14
n
14
LEU
14
A
DBB
15
n
15
DBB
15
A
DHA
16
n
16
DHA
16
A
GLU
17
n
17
GLU
17
A
CYS
18
n
18
CYS
18
A
ILE
19
n
19
ILE
19
A
TEE
20
n
20
TEE
20
A
author_defined_assembly
1
monomeric
210
-2
1560
A
DBB
2
POST-TRANSLATIONAL MODIFICATION
A
DBB
2
THR
A
DBB
4
POST-TRANSLATIONAL MODIFICATION
A
DBB
4
THR
A
DBB
13
POST-TRANSLATIONAL MODIFICATION
A
DBB
13
THR
A
DBB
15
POST-TRANSLATIONAL MODIFICATION
A
DBB
15
THR
A
DHA
16
POST-TRANSLATIONAL MODIFICATION
A
DHA
16
SER
A
TEE
20
POST-TRANSLATIONAL MODIFICATION
A
TEE
20
CYS
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
1
A
A
HB2
SG
DBB
CYS
4
12
1.02
1
A
A
HB2
SG
DBB
TEE
15
20
1.15
2
A
A
CG
SG
DBB
CYS
13
18
1.85
3
A
A
HB2
SG
DBB
TEE
15
20
1.07
3
A
A
HB2
SG
DBB
CYS
4
12
1.27
3
A
A
CG
SG
DBB
CYS
4
12
1.89
3
A
A
CG
SG
DBB
CYS
13
18
2.03
4
A
A
HB2
SG
DBB
CYS
4
12
1.12
4
A
A
CG
SG
DBB
CYS
4
12
2.06
4
A
A
CG
SG
DBB
CYS
13
18
2.11
5
A
A
HB2
SG
DBB
CYS
4
12
1.22
5
A
A
CG
SG
DBB
CYS
13
18
1.73
5
A
A
CG
SG
DBB
CYS
4
12
1.95
6
A
A
HB2
SG
DBB
TEE
15
20
1.06
6
A
A
HB2
SG
DBB
CYS
4
12
1.20
6
A
A
CG
SG
DBB
CYS
13
18
1.94
6
A
A
CG
SG
DBB
CYS
4
12
2.02
7
A
A
HB2
SG
DBB
CYS
4
12
0.87
7
A
A
CG
SG
DBB
CYS
13
18
2.02
8
A
A
HB2
SG
DBB
TEE
15
20
1.17
8
A
A
HB2
SG
DBB
CYS
4
12
1.33
8
A
A
CG
SG
DBB
CYS
13
18
1.82
9
A
A
HB2
SG
DBB
TEE
15
20
0.99
9
A
A
HB2
SG
DBB
CYS
4
12
1.19
9
A
A
CG
SG
DBB
CYS
13
18
1.80
9
A
A
CG
SG
DBB
CYS
4
12
1.95
10
A
A
HB2
SG
DBB
TEE
15
20
1.09
10
A
A
SG
CG
CYS
DBB
1
2
1.51
10
A
A
SG
HG1
CYS
DBB
1
2
1.52
10
A
A
SG
HG3
CYS
DBB
1
2
1.52
10
A
A
CG
SG
DBB
CYS
13
18
1.69
11
A
A
HB2
SG
DBB
TEE
15
20
1.05
11
A
A
HB2
HD3
LEU
PRO
5
6
1.34
11
A
A
CG
SG
DBB
CYS
13
18
1.90
12
A
A
HB2
SG
DBB
CYS
4
12
1.31
12
A
A
HD2
HB3
PHE
CYS
3
18
1.31
12
A
A
CG
SG
DBB
CYS
4
12
1.76
12
A
A
CG
SG
DBB
CYS
13
18
1.85
13
A
A
CG
SG
DBB
CYS
13
18
1.86
14
A
A
HB2
SG
DBB
TEE
15
20
1.15
14
A
A
HB2
SG
DBB
CYS
4
12
1.29
14
A
A
HA
HB2
DBB
CYS
13
18
1.32
14
A
A
CG
SG
DBB
CYS
13
18
1.71
15
A
A
HD2
HB3
PHE
CYS
3
18
1.35
15
A
A
HB2
SG
DBB
CYS
4
12
1.36
15
A
A
CG
SG
DBB
CYS
4
12
1.72
15
A
A
CG
SG
DBB
CYS
13
18
1.90
16
A
A
HB2
SG
DBB
CYS
4
12
0.93
16
A
A
CG
SG
DBB
CYS
13
18
1.71
17
A
A
HB2
SG
DBB
CYS
4
12
0.78
17
A
A
HB2
SG
DBB
TEE
15
20
1.07
17
A
A
CG
SG
DBB
CYS
13
18
1.83
1
A
DBB
2
-72.55
-145.54
1
A
PHE
3
-58.25
106.61
1
A
DBB
4
151.99
125.46
1
A
CYS
18
-138.37
-83.89
2
A
DBB
2
-73.15
-150.17
2
A
LEU
5
-175.62
-35.12
2
A
PRO
6
-96.27
-159.97
2
A
CYS
18
-141.74
-82.85
3
A
DBB
2
-73.05
-146.13
3
A
DBB
4
134.47
141.81
3
A
LEU
5
-130.79
-54.71
3
A
CYS
18
-131.75
-86.56
4
A
DBB
2
-69.54
158.71
4
A
DBB
4
119.35
164.57
4
A
LEU
5
-165.68
-38.44
4
A
CYS
12
-67.11
99.37
4
A
CYS
18
-136.67
-84.93
5
A
DBB
2
-74.87
-147.37
5
A
DBB
4
130.74
100.16
5
A
CYS
18
-136.55
-87.39
6
A
DBB
2
-71.82
-164.23
6
A
DBB
4
128.72
98.65
6
A
CYS
18
-134.58
-85.31
7
A
DBB
2
176.15
-146.28
7
A
LEU
5
-178.30
-36.87
7
A
PRO
6
-91.97
-159.02
7
A
VAL
11
-128.84
-88.48
7
A
CYS
12
-173.84
81.23
7
A
CYS
18
-132.79
-69.32
7
A
ILE
19
-103.77
-77.33
8
A
DBB
2
177.80
-143.62
8
A
DBB
4
151.39
68.43
8
A
PRO
6
-78.56
-168.69
8
A
CYS
18
-131.77
-82.96
9
A
DBB
2
-72.88
-147.40
9
A
DBB
4
127.74
64.44
9
A
CYS
18
-133.75
-86.21
10
A
DBB
2
-177.98
-168.09
10
A
PHE
3
-68.14
93.77
10
A
DBB
4
146.25
101.13
10
A
CYS
18
-144.52
-85.34
11
A
DBB
2
-70.58
-154.22
11
A
LEU
5
-137.10
-68.18
11
A
CYS
12
78.87
120.41
11
A
CYS
18
-142.91
-82.03
12
A
DBB
2
173.11
-144.53
12
A
DBB
4
112.53
155.85
12
A
CYS
18
-136.86
-84.71
13
A
DBB
2
-70.23
-151.24
13
A
DBB
4
150.21
101.76
13
A
CYS
18
-129.23
-86.34
13
A
ILE
19
-68.12
-77.54
14
A
DBB
2
-73.42
-147.68
14
A
DBB
4
141.47
100.84
14
A
PRO
6
-68.70
92.58
14
A
CYS
18
-134.90
-87.82
15
A
DBB
2
-72.65
-148.69
15
A
DBB
4
128.82
140.68
15
A
CYS
18
-143.40
-85.72
16
A
DBB
2
-73.14
-148.43
16
A
DBB
4
150.69
151.58
16
A
CYS
18
-138.67
-83.88
17
A
DBB
2
-74.73
-147.71
17
A
DBB
4
151.01
150.52
17
A
CYS
18
-143.79
-82.18
LANTIBIOTIC MERSACIDIN
NMR solution structure of type-B lantibiotics mersacidin bound to lipid II in DPC micelles
1
N
N
covale
1.340
A
CYS
1
A
C
CYS
1
1_555
A
DBB
2
A
N
DBB
2
1_555
covale
1.807
A
CYS
1
A
SG
CYS
1
1_555
A
DBB
2
A
CB
DBB
2
1_555
covale
1.328
A
DBB
2
A
C
DBB
2
1_555
A
PHE
3
A
N
PHE
3
1_555
covale
1.323
A
PHE
3
A
C
PHE
3
1_555
A
DBB
4
A
N
DBB
4
1_555
covale
1.331
A
DBB
4
A
C
DBB
4
1_555
A
LEU
5
A
N
LEU
5
1_555
covale
1.810
A
DBB
4
A
CB
DBB
4
1_555
A
CYS
12
A
SG
CYS
12
1_555
covale
1.327
A
CYS
12
A
C
CYS
12
1_555
A
DBB
13
A
N
DBB
13
1_555
covale
1.803
A
DBB
13
A
CB
DBB
13
1_555
A
CYS
18
A
SG
CYS
18
1_555
covale
1.322
A
DBB
13
A
C
DBB
13
1_555
A
LEU
14
A
N
LEU
14
1_555
covale
1.327
A
LEU
14
A
C
LEU
14
1_555
A
DBB
15
A
N
DBB
15
1_555
covale
1.810
A
DBB
15
A
CB
DBB
15
1_555
A
TEE
20
A
SG
TEE
20
1_555
covale
1.334
A
DBB
15
A
C
DBB
15
1_555
A
DHA
16
A
N
DHA
16
1_555
covale
1.327
A
DHA
16
A
C
DHA
16
1_555
A
GLU
17
A
N
GLU
17
1_555
covale
1.327
A
ILE
19
A
C
ILE
19
1_555
A
TEE
20
A
N
TEE
20
1_555
ANTIBIOTIC
ANTIBIOTIC, ANTIMICROBIAL, LANTIBIOTICS, BACTERIOCIN, PEPTIDOGLYCAN, METHICILLIN RESISTANCE, THIOESTER
A
CYS
1
A
CYS
1
1
A
DBB
2
A
DBB
2
1.95
A
CYS
1
A
CYS
1
2
A
DBB
2
A
DBB
2
1.88
A
CYS
1
A
CYS
1
3
A
DBB
2
A
DBB
2
0.64
A
CYS
1
A
CYS
1
4
A
DBB
2
A
DBB
2
0.39
A
CYS
1
A
CYS
1
5
A
DBB
2
A
DBB
2
1.46
A
CYS
1
A
CYS
1
6
A
DBB
2
A
DBB
2
1.07
A
CYS
1
A
CYS
1
7
A
DBB
2
A
DBB
2
-1.75
A
CYS
1
A
CYS
1
8
A
DBB
2
A
DBB
2
-2.39
A
CYS
1
A
CYS
1
9
A
DBB
2
A
DBB
2
1.28
A
CYS
1
A
CYS
1
10
A
DBB
2
A
DBB
2
-3.46
A
CYS
1
A
CYS
1
11
A
DBB
2
A
DBB
2
4.13
A
CYS
1
A
CYS
1
12
A
DBB
2
A
DBB
2
-2.28
A
CYS
1
A
CYS
1
13
A
DBB
2
A
DBB
2
4.83
A
CYS
1
A
CYS
1
14
A
DBB
2
A
DBB
2
0.63
A
CYS
1
A
CYS
1
15
A
DBB
2
A
DBB
2
1.65
A
CYS
1
A
CYS
1
16
A
DBB
2
A
DBB
2
0.96
A
CYS
1
A
CYS
1
17
A
DBB
2
A
DBB
2
0.99
MRSA_BACSP
UNP
1
P43683
49
68
1MQZ
1
20
P43683
A
1
1
20
1
P 1