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Yorodumi- PDB-6go0: PLANTARICIN S-B IN 100 MM DPC MICELLES. THIS IS THE BETA PART OF ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6go0 | ||||||
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Title | PLANTARICIN S-B IN 100 MM DPC MICELLES. THIS IS THE BETA PART OF THE BACTERIOCIN PLANTARICIN S | ||||||
Components | Plantaricin S beta protein | ||||||
Keywords | ANTIMICROBIAL PROTEIN / ANTIMICROBIAL PROTEIN Bacteriocin menbrane interacting peptide | ||||||
Function / homology | Plantaricin S beta protein Function and homology information | ||||||
Biological species | Lactobacillus plantarum (bacteria) | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Authors | Ekblad, B. / Kristiansen, P.E. | ||||||
Citation | Journal: Sci Rep / Year: 2019 Title: NMR structures and mutational analysis of the two peptides constituting the bacteriocin plantaricin S. Authors: Ekblad, B. / Kristiansen, P.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6go0.cif.gz | 156.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6go0.ent.gz | 131.4 KB | Display | PDB format |
PDBx/mmJSON format | 6go0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/go/6go0 ftp://data.pdbj.org/pub/pdb/validation_reports/go/6go0 | HTTPS FTP |
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-Related structure data
Related structure data | 6gnzC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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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: 2877.255 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Lactobacillus plantarum (bacteria) / References: UniProt: O32830 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: micelle Contents: 1 mM Plantaricin S-b, 95 % H2O, 5 % [U-2H] D2O, 100 mM [U-2H] DPC, 0.2 mM DSS, 95% H2O/5% D2O Label: no labeling / Solvent system: 95% H2O/5% D2O | ||||||||||||||||||||||||
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Sample |
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Sample conditions | Details: Sample of PlS-b was purchased from GENSCRIPT at above 98% purity and used as is without further purification, or addition of salts/buffers. Ionic strength: 0 Not defined / Label: conditions_1 / pH: 6.5 / Pressure: 1 atm / Temperature: 298 K / Temperature err: 0.2 |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE II / Manufacturer: Bruker / Model: AVANCE II / Field strength: 600 MHz / Details: cryoprobe |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 6 Details: refined using distance and dihedral restraints in DMSO using the RECOORD script | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |