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Yorodumi- PDB-2mxq: The solution structure of DEFA1, a highly potent antimicrobial pe... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2mxq | ||||||
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Title | The solution structure of DEFA1, a highly potent antimicrobial peptide from the horse | ||||||
Components | Paneth cell-specific alpha-defensin 1 | ||||||
Keywords | ANTIMICROBIAL PROTEIN | ||||||
Function / homology | Function and homology information disruption of plasma membrane integrity in another organism / innate immune response in mucosa / phospholipid binding / antimicrobial humoral immune response mediated by antimicrobial peptide / antibacterial humoral response / cellular response to lipopolysaccharide / defense response to Gram-negative bacterium / defense response to Gram-positive bacterium / defense response to bacterium / extracellular space Similarity search - Function | ||||||
Biological species | Equus caballus (horse) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Jung, S. / Michalek, M. / Shomali, M. / Soennichsen, F.D. | ||||||
Citation | Journal: Biochem.Biophys.Res.Commun. / Year: 2015 Title: Solution structure and functional studies of the highly potent equine antimicrobial peptide DEFA1. Authors: Michalek, M. / Jung, S. / Shomali, M.R. / Cauchard, S. / Sonnichsen, F.D. / Grotzinger, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2mxq.cif.gz | 126.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2mxq.ent.gz | 107.3 KB | Display | PDB format |
PDBx/mmJSON format | 2mxq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mx/2mxq ftp://data.pdbj.org/pub/pdb/validation_reports/mx/2mxq | 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: 4086.807 Da / Num. of mol.: 1 / Fragment: residues 65-98 / Source method: obtained synthetically / Source: (synth.) Equus caballus (horse) / References: UniProt: A6YB85 |
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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: 0.5 mM protein, 93% H2O/7% D2O / Solvent system: 93% H2O/7% D2O |
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Sample | Conc.: 0.5 mM / Component: entity-1 |
Sample conditions | Ionic strength: 0.02 / pH: 5.7 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AMX / Manufacturer: Bruker / Model: AMX / Field strength: 600 MHz |
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-Processing
NMR software | Name: CYANA / Developer: Guntert P. / Classification: refinement |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 |
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: 10 |