+Open data
-Basic information
Entry | Database: PDB / ID: 6n6q | ||||||
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Title | Crystal structure of a Cytochrome P450 (CYP102L1) | ||||||
Components | Cytochrome P450 (CYP102L1) | ||||||
Keywords | OXIDOREDUCTASE | ||||||
Function / homology | Function and homology information oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen / iron ion binding / heme binding Similarity search - Function | ||||||
Biological species | Mycobacterium phage Adler (virus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.5 Å | ||||||
Authors | Follmer, A.H. / Poulos, T.L. | ||||||
Funding support | United States, 1items
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Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2019 Title: On the occurrence of cytochrome P450 in viruses. Authors: Lamb, D.C. / Follmer, A.H. / Goldstone, J.V. / Nelson, D.R. / Warrilow, A.G. / Price, C.L. / True, M.Y. / Kelly, S.L. / Poulos, T.L. / Stegeman, J.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6n6q.cif.gz | 452.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6n6q.ent.gz | 298.6 KB | Display | PDB format |
PDBx/mmJSON format | 6n6q.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/n6/6n6q ftp://data.pdbj.org/pub/pdb/validation_reports/n6/6n6q | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 53647.719 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycobacterium phage Adler (virus) / Gene: MaF1660_ph0012 / Production host: Escherichia coli (E. coli) / References: UniProt: V5UQK0 #2: Chemical | ChemComp-HEM / #3: Chemical | ChemComp-CAC / #4: 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: 2.61 Å3/Da / Density % sol: 52.96 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 0.1 M Sodium Cacodylate pH 6.5, 1.26 M AmSO4, 4.2 % (v/v) Dextran Sulfate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-2 / Wavelength: 1.734 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: May 28, 2017 |
Radiation | Monochromator: Si(111) and Si(220) double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.734 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→66.56 Å / Num. obs: 73160 / % possible obs: 99.16 % / Redundancy: 2 % / Biso Wilson estimate: 61.8981945929 Å2 / CC1/2: 0.994 / Rmerge(I) obs: 0.05555 / Net I/av σ(I): 7.55 / Net I/σ(I): 7.55 |
Reflection shell | Resolution: 2.5→2.589 Å / Redundancy: 2 % / Rmerge(I) obs: 0.8252 / Mean I/σ(I) obs: 0.83 / Num. unique obs: 7248 / CC1/2: 0.396 / % possible all: 99.49 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.5→66.56 Å / SU ML: 0.447753736588 / Cross valid method: FREE R-VALUE / σ(F): 1.32681066748 / Phase error: 32.6464373538
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 69.0998341316 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→66.56 Å
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Refine LS restraints |
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LS refinement shell |
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