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Yorodumi- PDB-6qkf: Structure investigations of Protegrin-4 by High resolution NMR sp... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6qkf | ||||||
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Title | Structure investigations of Protegrin-4 by High resolution NMR spectroscopy | ||||||
Components | Protegrin-4 | ||||||
Keywords | ANTIMICROBIAL PROTEIN / Protegrin | ||||||
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 | ||||||
Authors | Usachev, K.S. / Kolosova, O.A. / Klochkova, E.A. / Klochkov, V.V. | ||||||
Citation | Journal: Molecular Biology of the Cell / Year: 2018 Title: Structure investigations of Protegrin-4 by High resolution NMR spectroscopy Authors: Usachev, K.S. / Kolosova, O.A. / Klochkova, E.A. / 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 | 6qkf.cif.gz | 54.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6qkf.ent.gz | 38.1 KB | Display | PDB format |
PDBx/mmJSON format | 6qkf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qk/6qkf ftp://data.pdbj.org/pub/pdb/validation_reports/qk/6qkf | HTTPS FTP |
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-Related structure data
Similar structure data | |
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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: 2109.573 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) Sus scrofa (pig) / References: UniProt: P49933 |
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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: 5.1 mM Protegrin 4, 20 mM CHAPS, 90% H2O/10% D2O / Label: PG4+CHAPS / Solvent system: 90% H2O/10% D2O | ||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0 Not defined / Label: cond1 / pH: 6.8 / Pressure: 1 atm / Temperature: 293 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 2 | |||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 400 / Conformers submitted total number: 10 |