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The 2.4 A crystal structure of CYP154C5 from Nocardia farcinica in complex with testosterone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4J6B preliminary solved structure of PDB-entry 4J6B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 298 0.3 M MgCHO2 in the reservoir, condition mixed 1:1 from protein stock and reservoir, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.46 49.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.99 α = 90 b = 102.99 β = 90 c = 218.42 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 2012-07-28 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 2.4 82.573 99.8 0.141 5.9 3.4 33703 33703
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 2.4 2.53 99.1 0.391 0.391 2.9 3.3 4866
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 preliminary solved structure of PDB-entry 4J6B 2.4 82.57 33701 1711 99.76 0.1839 0.1805 0.1916 0.2444 0.2477 RANDOM 44.1382
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] -1.99 -1 -1.99 2.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.592 r_dihedral_angle_4_deg 14.895 r_dihedral_angle_3_deg 14.295 r_dihedral_angle_1_deg 6.016 r_angle_refined_deg 1.415 r_angle_other_deg 0.648 r_chiral_restr 0.048 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.592 r_dihedral_angle_4_deg 14.895 r_dihedral_angle_3_deg 14.295 r_dihedral_angle_1_deg 6.016 r_angle_refined_deg 1.415 r_angle_other_deg 0.648 r_chiral_restr 0.048 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6243 Nucleic Acid Atoms Solvent Atoms 375 Heterogen Atoms 144
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection