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Yorodumi- PDB-2feu: P450CAM from Pseudomonas putida reconstituted with manganic proto... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2feu | ||||||
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Title | P450CAM from Pseudomonas putida reconstituted with manganic protoporphyrin IX | ||||||
Components | Cytochrome P450-cam | ||||||
Keywords | OXIDOREDUCTASE / MONO-OXYGENASE / HEME / Manganic / Substrate-bound | ||||||
Function / homology | Function and homology information camphor 5-monooxygenase / camphor 5-monooxygenase activity / (+)-camphor catabolic process / cholest-4-en-3-one 26-monooxygenase activity / steroid hydroxylase activity / cholesterol catabolic process / iron ion binding / heme binding / cytoplasm Similarity search - Function | ||||||
Biological species | Pseudomonas putida (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / FOURIER SYNTHESIS / Resolution: 1.7 Å | ||||||
Authors | von Koenig, K. / Makris, T.M. / Sligar, S.G. / Schlichting, I. | ||||||
Citation | Journal: J.Inorg.Biochem. / Year: 2006 Title: The status of high-valent metal oxo complexes in the P450 cytochromes. Authors: Makris, T.M. / von Koenig, K. / Schlichting, I. / Sligar, S.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2feu.cif.gz | 192.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2feu.ent.gz | 149.1 KB | Display | PDB format |
PDBx/mmJSON format | 2feu.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2feu_validation.pdf.gz | 1.1 MB | Display | wwPDB validaton report |
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Full document | 2feu_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | 2feu_validation.xml.gz | 39.8 KB | Display | |
Data in CIF | 2feu_validation.cif.gz | 58.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fe/2feu ftp://data.pdbj.org/pub/pdb/validation_reports/fe/2feu | HTTPS FTP |
-Related structure data
Related structure data | 2fe6C 2ferC 1dz4S C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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Details | The biological unit is a monomer, there are 2 biological units in the asu (chains A & B). |
-Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 46471.789 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas putida (bacteria) / Gene: camC, cyp101 / Plasmid: pet28 / Production host: Escherichia coli (E. coli) / Strain (production host): AW804(DE3) / References: UniProt: P00183, camphor 5-monooxygenase |
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-Non-polymers , 5 types, 735 molecules
#2: Chemical | #3: Chemical | #4: Chemical | #5: Chemical | ChemComp-TRS / | #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.2 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 7.4 Details: 7.5 MG/ML P450, 25 MM POTASSIUM PHOSPHATE, 250 MM KCL, 100 UM CAMPHOR, 50 MM TRIS, 13.5-15% PEG8000, 100 UM CAMPHOR, 50 MM DTE, pH 7.40, VAPOR DIFFUSION, SITTING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.98 |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Feb 7, 2005 |
Radiation | Monochromator: SI (111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→19.8 Å / Num. obs: 83714 / % possible obs: 95.2 % / Observed criterion σ(I): 0 / Biso Wilson estimate: 27.27 Å2 / Rmerge(I) obs: 0.057 / Rsym value: 0.049 / Net I/σ(I): 17 |
Reflection shell | Resolution: 1.7→1.85 Å / Rmerge(I) obs: 0.376 / Mean I/σ(I) obs: 4.48 / Rsym value: 0.324 / % possible all: 90.8 |
-Processing
Software |
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Refinement | Method to determine structure: FOURIER SYNTHESIS Starting model: PDB ENTRY 1DZ4 Resolution: 1.7→19.8 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: ENGH & HUBER
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Solvent computation | Bsol: 47.87 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.25 Å2
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Refinement step | Cycle: LAST / Resolution: 1.7→19.8 Å
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Refine LS restraints |
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Xplor file |
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