1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Shenkarev, Z.O.
Balashova, T.A.
Yakimenko, Z.A.
Ovchinnikova, T.V.
Arseniev, A.S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
C2 H4 O
44.053
ACETYL GROUP
non-polymer
C4 H9 N O2
103.120
n
ALPHA-AMINOISOBUTYRIC ACID
L-peptide linking
C5 H11 N O2
117.146
D-ISOVALINE
D-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O3
131.130
n
4-HYDROXYPROLINE
HYDROXYPROLINE
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
C9 H13 N O
151.206
n
L-PHENYLALANINOL
bound form of Phenylalaninal
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
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
UK
J.Pept.Sci.
JPSIEI
1225
1075-2617
9
817
826
10.1002/PSC.499
14658801
Biosynthetic Uniform 13C,15N-Labelling of Zervamicin Iib. Complete 13C and 15N NMR Assignment.
2003
NE
FEBS Lett.
FEBLAL
0165
0014-5793
466
333
10.1016/S0014-5793(99)01707-X
NMR Structure of the Channel-Former Zervamicin Iib in Isotropic Solvents
2000
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1823.183
ZERVAMICIN IIB
1
nat
polymer
no
yes
(ACE)WIQ(DIV)IT(AIB)L(AIB)(HYP)Q(AIB)(HYP)(AIB)P(PHL)
XWIQVITALAPQAPAPF
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
118885
EMERICELLOPSIS SALMOSYNNEMATA
336 IMI 58330
cell
chem_comp
citation
citation_author
diffrn
diffrn_radiation
diffrn_radiation_wavelength
pdbx_nmr_exptl_sample_conditions
pdbx_nmr_representative
repository
Initial release
Version format compliance
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Other
Data collection
Database references
Experimental preparation
Other
Structure summary
1
0
2004-11-09
1
1
2011-06-14
1
2
2011-07-13
1
3
2011-07-27
1
4
2012-12-12
1
5
2018-10-10
_chem_comp.pdbx_synonyms
_pdbx_nmr_exptl_sample_conditions.pressure_units
_pdbx_nmr_representative.selection_criteria
CRYSTAL STRUCTURE OF THE PEPTAIBOL TRICHOTOXIN_A50E
SOLUTION STRUCTURE OF THE PEPTIABOL ZERVAMICIN IIB
SOLUTION STRUCTURE OF THE PEPTAIBOL ZERVAMICIN IIB BOUND TO DPC MICELLES
SOLUTION STRUCTURE OF THE PEPTAIBOL ANTIAMOEBIN I
CRYSTAL STRUCTURE OF THE PEPTAIBOL ANTIAMOEBIN I
CRYSTAL STRUCTURE OF THE PEPTAIBOL ALAMETHICIN
SOLUTION STRUCTURE OF THE PEPTAIBOL CHRYSOSPERMIN C BOUND TO DPC MICELLES
CRYSTAL STRUCTURE OF THE PEPTAIBOL CEPHAIBOL C
CRYSTAL STRUCTURE OF THE PEPTAIBOL CEPHAIBOL B
CRYSTAL STRUCTURE OF THE PEPTAIBOL CEPHAIBOL A
RCSB
Y
RCSB
2003-10-31
REL
REL
ZERVAMICIN IIB IS LINEAR PEPTIDE, A MEMBER OF THE PEPTAIBOL
FAMILY OF MEMBRANE CHANNEL FORMING PEPTIDES.
HERE, ZERVAMICIN IS REPRESENTED BY THE SEQUENCE (SEQRES)
Antibiotic
ZERVAMICIN IS A HEXADECAMERIC HELICAL PEPTIDE.
THE N-TERM IS ACETYLATED (RESIDUE 0)
Zervamicin IIB
Peptaibol
THIS STRUCTURE IS A REFINED STRUCTURE OF PREVIOUS DEPOSITION (1DLZ) ON THE BASIS OF HYDROGEN BOND RESTRAINTS, DETERMINED EXPERIMENTALY. INCLUDING RESTRAINTS FOR OBSERVED BIFURCATED HYDROGEN BOND.
STRUCTURES WITH THE LEAST RESTRAINT VIOLATIONS, STRUCTURES WITH THE LOWEST ENERGY,TARGET FUNCTION
1000
24
LONG RANGE 2D-HNCO
0
6.2
1
atm
305
K
STRUCTURE WAS REFINED USING ADDITIONAL 22/22 (UPPER/LOWER) RESTRAINTS FOR HYDROGEN BONDS. REFINEMENT WAS DONE IN ECEPP/2 FORCE FIELD USING IMPLICIT SOLVENT MODEL
SIMULATED ANNEALING, TORSION ANGLE DYNAMICS, ENERGY MINIMISATION
1
lowest energy
4MM U-15N-13C ZRV-IIB, METHANOL (CD3OH) PH 6.2
VON FREYBERG
refinement
FANTOM 4.0
structure solution
XWINNMR 2.6
structure solution
XEASY X
structure solution
DYANA 1.5
500
Bruker
Avance
ACE
0
n
1
ACE
0
A
TRP
1
n
2
TRP
1
A
ILE
2
n
3
ILE
2
A
GLN
3
n
4
GLN
3
A
DIV
4
n
5
DIV
4
A
ILE
5
n
6
ILE
5
A
THR
6
n
7
THR
6
A
AIB
7
n
8
AIB
7
A
LEU
8
n
9
LEU
8
A
AIB
9
n
10
AIB
9
A
HYP
10
n
11
HYP
10
A
GLN
11
n
12
GLN
11
A
AIB
12
n
13
AIB
12
A
HYP
13
n
14
HYP
13
A
AIB
14
n
15
AIB
14
A
PRO
15
n
16
PRO
15
A
PHL
16
n
17
PHL
16
A
software_defined_assembly
PQS
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
ZERVAMICIN IIB
Refined structure of peptaibol zervamicin IIB in methanol solution from trans-hydrogen bond J couplings
1
N
N
A
TRP
1
A
TRP
2
HELX_P
A
HYP
13
A
HYP
14
1
1
13
covale
1.325
A
ACE
0
A
C
ACE
1
1_555
A
TRP
1
A
N
TRP
2
1_555
covale
1.325
A
GLN
3
A
C
GLN
4
1_555
A
DIV
4
A
N
DIV
5
1_555
covale
1.326
A
DIV
4
A
C
DIV
5
1_555
A
ILE
5
A
N
ILE
6
1_555
covale
1.325
A
THR
6
A
C
THR
7
1_555
A
AIB
7
A
N
AIB
8
1_555
covale
1.325
A
AIB
7
A
C
AIB
8
1_555
A
LEU
8
A
N
LEU
9
1_555
covale
1.325
A
LEU
8
A
C
LEU
9
1_555
A
AIB
9
A
N
AIB
10
1_555
covale
1.360
A
AIB
9
A
C
AIB
10
1_555
A
HYP
10
A
N
HYP
11
1_555
covale
1.324
A
HYP
10
A
C
HYP
11
1_555
A
GLN
11
A
N
GLN
12
1_555
covale
1.324
A
GLN
11
A
C
GLN
12
1_555
A
AIB
12
A
N
AIB
13
1_555
covale
1.360
A
AIB
12
A
C
AIB
13
1_555
A
HYP
13
A
N
HYP
14
1_555
covale
1.325
A
HYP
13
A
C
HYP
14
1_555
A
AIB
14
A
N
AIB
15
1_555
covale
1.359
A
AIB
14
A
C
AIB
15
1_555
A
PRO
15
A
N
PRO
16
1_555
covale
1.326
A
PRO
15
A
C
PRO
16
1_555
A
PHL
16
A
N
PHL
17
1_555
ANTIBIOTIC
ZREVAMICIN, BIFURCATED HYDROGEN BOND, PEPTAIBOL, ANTIBACTERIAL, ANTIFUNGAL, ANTIBIOTIC, BENT HELIX
NOR01092
NOR
1
NOR01092
0
16
1R9U
0
16
NOR01092
A
1
1
17
1
P 1