+Open data
-Basic information
Entry | Database: PDB / ID: 3o26 | ||||||
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Title | The structure of salutaridine reductase from Papaver somniferum. | ||||||
Components | Salutaridine reductase | ||||||
Keywords | OXIDOREDUCTASE / short chain dehydrogenase/reductases | ||||||
Function / homology | Function and homology information salutaridine reductase (NADPH) / salutaridine reductase (NADPH) activity / morphine biosynthetic process / NADP binding Similarity search - Function | ||||||
Biological species | Papaver somniferum (opium poppy) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / MAD / Resolution: 1.91 Å | ||||||
Authors | Higashi, Y. / Kutchen, T.M. / Smith, T.J. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2010 Title: The atomic structure of salutaridine reductase from the opium poppy Papaver somniferum. Authors: Higashi, Y. / Kutchan, T.M. / Smith, T.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3o26.cif.gz | 73.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3o26.ent.gz | 58.4 KB | Display | PDB format |
PDBx/mmJSON format | 3o26.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3o26_validation.pdf.gz | 770.9 KB | Display | wwPDB validaton report |
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Full document | 3o26_full_validation.pdf.gz | 775.5 KB | Display | |
Data in XML | 3o26_validation.xml.gz | 16.5 KB | Display | |
Data in CIF | 3o26_validation.cif.gz | 24.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/o2/3o26 ftp://data.pdbj.org/pub/pdb/validation_reports/o2/3o26 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 34082.633 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Papaver somniferum (opium poppy) / Production host: Escherichia coli (E. coli) / References: UniProt: Q071N0, salutaridine reductase (NADPH) |
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#2: Chemical | ChemComp-NDP / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.15 Å3/Da / Density % sol: 70.37 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.3 Details: 0.1 M MES pH 6.0-6.6, 1.9 M ammonium sulfate, 5%(v/v) PEG400, 0.1 M LiCl, 3%(v/v) glycerol. 2uL of 6 mg/ml SeMet SalR in addition of 4 mM NADPH was mixed with 2uL of the reservoir solution, ...Details: 0.1 M MES pH 6.0-6.6, 1.9 M ammonium sulfate, 5%(v/v) PEG400, 0.1 M LiCl, 3%(v/v) glycerol. 2uL of 6 mg/ml SeMet SalR in addition of 4 mM NADPH was mixed with 2uL of the reservoir solution, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-BM / Wavelength: 0.9797 Å |
Detector | Type: SBC-3 / Detector: CCD / Date: Jun 30, 2009 |
Radiation | Monochromator: graphite / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9797 Å / Relative weight: 1 |
Reflection | Resolution: 1.91→39 Å / Num. all: 45225 / Num. obs: 40176 / % possible obs: 94.3 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 |
Reflection shell | Resolution: 1.91→1.96 Å / Redundancy: 4.4 % / Mean I/σ(I) obs: 4.7 / Rsym value: 0.279 / % possible all: 68 |
-Phasing
Phasing | Method: MAD |
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-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.91→37.458 Å / Occupancy max: 1 / Occupancy min: 1 / SU ML: 0.21 / σ(F): 0.13 / Phase error: 19.53 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 60.279 Å2 / ksol: 0.4 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.91→37.458 Å
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Refine LS restraints |
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LS refinement shell |
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