+Open data
-Basic information
Entry | Database: PDB / ID: 2nc7 | ||||||
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Title | Antimicrobial peptide protegrin PG-5 | ||||||
Components | Protegrin-5 | ||||||
Keywords | ANTIMICROBIAL PROTEIN / protegrin / antimicrobial peptide / DPC micelle | ||||||
Function / homology | Function and homology information lipopolysaccharide binding / antimicrobial humoral immune response mediated by antimicrobial peptide / defense response to Gram-negative bacterium / defense response to Gram-positive bacterium / innate immune response / extracellular space Similarity search - Function | ||||||
Biological species | Sus scrofa (pig) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Kolosova, O.A. / Klochkova, E.A. / Aganov, A.V. / Klochkov, V.V. | ||||||
Citation | Journal: Eur. Biophys. J. / Year: 2017 Title: Oligomerization of the antimicrobial peptide Protegrin-5 in a membrane-mimicking environment. Structural studies by high-resolution NMR spectroscopy. Authors: Usachev, K.S. / Kolosova, O.A. / Klochkova, E.A. / Yulmetov, A.R. / Aganov, A.V. / Klochkov, V.V. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2nc7.cif.gz | 99.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2nc7.ent.gz | 72.3 KB | Display | PDB format |
PDBx/mmJSON format | 2nc7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nc/2nc7 ftp://data.pdbj.org/pub/pdb/validation_reports/nc/2nc7 | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 2106.593 Da / Num. of mol.: 1 / Fragment: UNP residues 131-148 / Source method: obtained synthetically / Source: (synth.) Sus scrofa (pig) / References: UniProt: P49934 |
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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: 3 mg/mL PG, 20 mg/mL [U-99% 2H] DPC, 450 uL H2O, 50 uL [U-99% 2H] D2O, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||
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Sample |
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Sample conditions | Temperature: 293 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | |||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 1000 / Conformers submitted total number: 20 |