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The 2.2 A crystal structure of CYP154C5 from Nocardia farcinica in complex with pregnenolone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GWI PDB-entry 1GWI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 0.3 M MgCHO2 , pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.46 49.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.12 α = 90 b = 103.12 β = 90 c = 217.83 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2011-08-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.2 82.63 100 0.139 10.5 5.9 43848 43848
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.32 100 0.559 0.559 3.3 5.7 6381
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB-entry 1GWI 2.2 82.63 43846 2204 99.98 0.1581 0.1557 0.1651 0.2024 0.2105 RANDOM 42.2999
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -1.22 -0.61 -1.22 1.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.286 r_dihedral_angle_4_deg 14.627 r_dihedral_angle_3_deg 13.349 r_dihedral_angle_1_deg 5.451 r_angle_refined_deg 1.658 r_angle_other_deg 0.762 r_chiral_restr 0.06 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_gen_planes_other 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.286 r_dihedral_angle_4_deg 14.627 r_dihedral_angle_3_deg 13.349 r_dihedral_angle_1_deg 5.451 r_angle_refined_deg 1.658 r_angle_other_deg 0.762 r_chiral_restr 0.06 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6215 Nucleic Acid Atoms Solvent Atoms 490 Heterogen Atoms 147
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection