+Open data
-Basic information
Entry | Database: PDB / ID: 1yrc | ||||||
---|---|---|---|---|---|---|---|
Title | X-ray Crystal Structure of hydrogenated Cytochrome P450cam | ||||||
Components | Cytochrome P450-cam | ||||||
Keywords | OXIDOREDUCTASE / mono-oxygenase / heme / ferric | ||||||
Function / homology | Function and homology information camphor 5-monooxygenase / camphor 5-monooxygenase activity / (+)-camphor catabolic process / iron ion binding / heme binding / cytoplasm Similarity search - Function | ||||||
Biological species | Pseudomonas putida (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.4 Å | ||||||
Authors | Meilleur, F. / Dauvergne, M.-T. / Schlichting, I. / Myles, D.A.A. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2005 Title: Production and X-ray crystallographic analysis of fully deuterated cytochrome P450cam. Authors: Meilleur, F. / Dauvergne, M.T. / Schlichting, I. / Myles, D.A. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1yrc.cif.gz | 106.9 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1yrc.ent.gz | 79.4 KB | Display | PDB format |
PDBx/mmJSON format | 1yrc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/yr/1yrc ftp://data.pdbj.org/pub/pdb/validation_reports/yr/1yrc | HTTPS FTP |
---|
-Related structure data
Related structure data | 1yrdC 2cppS S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 46588.879 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas putida (bacteria) / Plasmid: pETM11 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P00183, camphor 5-monooxygenase |
---|---|
#2: Chemical | ChemComp-K / |
#3: Chemical | ChemComp-HEM / |
#4: Chemical | ChemComp-CAM / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.73 Å3/Da / Density % sol: 54.6 % |
---|---|
Crystal grow | Temperature: 277 K / Method: microdialysis / pH: 7.4 Details: TRISHCl, KCl, Camphor, DTE, PEG 8000, pH 7.4, MICRODIALYSIS, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.939 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Oct 30, 2001 |
Radiation | Monochromator: NULL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.939 Å / Relative weight: 1 |
Reflection | Resolution: 1.4→20 Å / Num. all: 100765 / Num. obs: 100765 / % possible obs: 99.8 % / Redundancy: 6.5 % / Biso Wilson estimate: 22.5 Å2 / Rsym value: 0.049 / Net I/σ(I): 7.8 |
Reflection shell | Resolution: 1.4→1.45 Å / Mean I/σ(I) obs: 2.7 / Rsym value: 0.316 / % possible all: 99.1 |
-Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2CPP Resolution: 1.4→20 Å / Cross valid method: THROUGHOUT / Stereochemistry target values: Engh & Huber
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.4→20 Å
| |||||||||||||||||||||||||
Refine LS restraints |
|