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Open data
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Basic information
Entry | Database: PDB / ID: 7x53 | ||||||
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Title | cytochrome P450 monooxygenase | ||||||
![]() | Cytochrome P450 family protein | ||||||
![]() | TRANSFERASE / heme / hydroxylation / epoxidation | ||||||
Function / homology | ![]() oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen / monooxygenase activity / iron ion binding / heme binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Yan, Y. / Zheng, C. | ||||||
Funding support | 1items
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![]() | ![]() Title: Structure of cytochrome P450 monooxygenase at 3.35 Angstroms resolution. Authors: Yan, Y. / Zheng, C. / Wei, S. / Jing, W. / Liang, G. / Cong, G. / Jia, L. / Xiulai, C. / Liming, L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 168.3 KB | Display | ![]() |
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PDB format | ![]() | 132.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1 MB | Display | ![]() |
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Full document | ![]() | 1 MB | Display | |
Data in XML | ![]() | 30.2 KB | Display | |
Data in CIF | ![]() | 40.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments: Component-ID: 1 / Ens-ID: 1 / Beg auth comp-ID: ARG / Beg label comp-ID: ARG / End auth comp-ID: TRP / End label comp-ID: TRP / Auth seq-ID: 6 - 411 / Label seq-ID: 6 - 411
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Components
#1: Protein | Mass: 46516.844 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Production host: ![]() ![]() References: UniProt: Q88LH7 #2: Chemical | #3: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.05 Å3/Da / Density % sol: 39.93 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, sitting drop Details: 0.1 M HEPES pH 7.5, 25% Polyethylene glycol 3350, 0.1 M TCEP hydrochloride |
-Data collection
Diffraction | Mean temperature: 288.15 K / Serial crystal experiment: N |
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Diffraction source | Source: SEALED TUBE / Type: BRUKER D8 QUEST / Wavelength: 1.542 Å |
Detector | Type: Bruker PHOTON II / Detector: PIXEL / Date: Jan 19, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.542 Å / Relative weight: 1 |
Reflection | Resolution: 3.35→23.51 Å / Num. obs: 10361 / % possible obs: 94.5 % / Redundancy: 4.92 % / Biso Wilson estimate: 52.4 Å2 / CC1/2: 0.989 / Net I/σ(I): 2.94 |
Reflection shell | Resolution: 3.35→3.62 Å / Num. unique obs: 2188 / CC1/2: 0.948 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 62.78 Å2 / Biso mean: 47.8991 Å2 / Biso min: 36.74 Å2 | |||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.35→23.51 Å
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Refine LS restraints NCS |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 4
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