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Yorodumi- PDB-2gwp: High-resolution solution structure of the salt-bridge defficient ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2gwp | ||||||
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Title | High-resolution solution structure of the salt-bridge defficient mouse defensin (E15D)-Cryptdin4 | ||||||
Components | Defensin-related cryptdin 4 | ||||||
Keywords | ANTIBIOTIC / triple stranded beta sheet / beta hairpin | ||||||
Function / homology | Function and homology information pore-forming activity / disruption of plasma membrane integrity in another organism / azurophil granule / transport vesicle / innate immune response in mucosa / phospholipid binding / antimicrobial humoral immune response mediated by antimicrobial peptide / antibacterial humoral response / killing of cells of another organism / cellular response to lipopolysaccharide ...pore-forming activity / disruption of plasma membrane integrity in another organism / azurophil granule / transport vesicle / innate immune response in mucosa / phospholipid binding / antimicrobial humoral immune response mediated by antimicrobial peptide / antibacterial humoral response / killing of cells of another organism / cellular response to lipopolysaccharide / defense response to Gram-negative bacterium / defense response to Gram-positive bacterium / defense response to bacterium / protein homodimerization activity / extracellular space Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR / Structure was calculated using torsion angle dynamics, refinement in explicit solvent using Cartesian dynamics within CNS. | ||||||
Authors | Rosengren, K.J. / Craik, D.J. / Vogel, H.J. / Daly, N.L. / Ouellette, A.J. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2006 Title: Structural and functional characterization of the conserved salt bridge in mammalian paneth cell alpha-defensins: solution structures of mouse CRYPTDIN-4 and (E15D)-CRYPTDIN-4. Authors: Rosengren, K.J. / Daly, N.L. / Fornander, L.M. / Shirafuji, Y. / Qu, X. / Vogel, H.J. / Ouellette, A.J. / Craik, D.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2gwp.cif.gz | 203.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2gwp.ent.gz | 176.7 KB | Display | PDB format |
PDBx/mmJSON format | 2gwp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gw/2gwp ftp://data.pdbj.org/pub/pdb/validation_reports/gw/2gwp | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 3757.583 Da / Num. of mol.: 1 / Fragment: Cryptdin4 / Mutation: E15D Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Defcr4 / Plasmid: PET-28A / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)-CODON-PLUS-RIL / References: UniProt: P28311 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: This structure was determined using standard 2D homonuclear techniques. |
-Sample preparation
Details |
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Sample conditions |
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-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 600 MHz |
-Processing
NMR software |
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Refinement | Method: Structure was calculated using torsion angle dynamics, refinement in explicit solvent using Cartesian dynamics within CNS. Software ordinal: 1 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations,structures with the lowest energy Conformers calculated total number: 50 / Conformers submitted total number: 20 |