[English] 日本語
Yorodumi- PDB-2m1f: NMR Structure of Antiamoebin I (peptaibol antibiotic) bound to DM... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2m1f | ||||||
---|---|---|---|---|---|---|---|
Title | NMR Structure of Antiamoebin I (peptaibol antibiotic) bound to DMPC/DHPC bicelles | ||||||
Components | Antiamoebin I | ||||||
Keywords | ANTIBIOTIC / membrane-active / peptaibol | ||||||
Function / homology | Antiamoebin 1 / : Function and homology information | ||||||
Biological species | Emericellopsis minima (fungus) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | fewest violations, model1 | ||||||
Authors | Shenkarev, Z.O. / Paramonov, A.S. / Gizatullina, A.K. | ||||||
Citation | Journal: Chem.Biodivers. / Year: 2013 Title: Peptaibol antiamoebin I: spatial structure, backbone dynamics, interaction with bicelles and lipid-protein nanodiscs, and pore formation in context of barrel-stave model. Authors: Shenkarev, Z.O. / Paramonov, A.S. / Lyukmanova, E.N. / Gizatullina, A.K. / Zhuravleva, A.V. / Tagaev, A.A. / Yakimenko, Z.A. / Telezhinskaya, I.N. / Kirpichnikov, M.P. / Ovchinnikova, T.V. / Arseniev, A.S. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2m1f.cif.gz | 102.5 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2m1f.ent.gz | 82.7 KB | Display | PDB format |
PDBx/mmJSON format | 2m1f.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2m1f_validation.pdf.gz | 365.9 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 2m1f_full_validation.pdf.gz | 383 KB | Display | |
Data in XML | 2m1f_validation.xml.gz | 11.4 KB | Display | |
Data in CIF | 2m1f_validation.cif.gz | 16.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/m1/2m1f ftp://data.pdbj.org/pub/pdb/validation_reports/m1/2m1f | HTTPS FTP |
-Related structure data
Related structure data | |
---|---|
Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Contents: 120 mM DHPC, 30 mM DMPC, 7.5 mM acetic acid, 2.5 mM sodium acetate, 1 mM [U-100% 13C; U-100% 15N] ANTIAMOEBIN I, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||||||||||||||
Sample conditions | pH: 5.1 / Pressure: ambient / Temperature: 313 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: Avance / Field strength: 600 MHz |
---|
-Processing
NMR software |
| |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: simulated annealing / Software ordinal: 1 | |||||||||||||||||||||
NMR representative | Selection criteria: fewest violations | |||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 50 / Conformers submitted total number: 20 |