+Open data
-Basic information
Entry | Database: PDB / ID: 1ytr | ||||||
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Title | NMR structure of plantaricin a in dpc micelles, 20 structures | ||||||
Components | Bacteriocin plantaricin A | ||||||
Keywords | ANTIBIOTIC / pheromone / amphipathic helix / micelle | ||||||
Function / homology | Bacteriocin-type signal sequence / cytolysis / defense response to bacterium / Bacteriocin plantaricin-A Function and homology information | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Kristiansen, P.E. / Fimland, G. / Mantzilas, D. / Nissen-Meyer, J. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2005 Title: Structure and mode of action of the membrane-permeabilizing antimicrobial peptide pheromone plantaricin A Authors: Kristiansen, P.E. / Fimland, G. / Mantzilas, D. / Nissen-Meyer, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ytr.cif.gz | 154.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ytr.ent.gz | 113.6 KB | Display | PDB format |
PDBx/mmJSON format | 1ytr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/yt/1ytr ftp://data.pdbj.org/pub/pdb/validation_reports/yt/1ytr | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 2991.594 Da / Num. of mol.: 1 / Source method: obtained synthetically Details: The peptide was chemically synthesized. The sequence of the peptide is naturally found in Lactobacillus plantarum. References: UniProt: P80214 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 2.9mM PlnA in 100mM DPC, 10% D2O, 90% H20 / Solvent system: 10% D2O, 90% H20 |
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Sample conditions | Ionic strength: 0 / pH: 4 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 800 MHz |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||
NMR ensemble | Conformer selection criteria: lowest energy / Conformers calculated total number: 100 / Conformers submitted total number: 20 |