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Crystal structure of cytochrome P450 CYP121, P212121 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N40
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 278 PEG 3350 and 0.2M NaSCN, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.45 49.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.627 α = 90 b = 129.758 β = 90 c = 323.757 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 2005-01-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.93 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.6 20 93.2 0.082 8.3 314231 314231
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1N40 1.6 20 314231 314231 16692 93.2 0.16693 0.16693 0.16465 0.1787 0.21022 0.2209 RANDOM 23.496
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] 0.28 -0.14 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.121 r_dihedral_angle_4_deg 16.593 r_dihedral_angle_3_deg 13.325 r_sphericity_free 7.768 r_dihedral_angle_1_deg 5.36 r_scangle_it 3.963 r_sphericity_bonded 3.06 r_scbond_it 2.935 r_rigid_bond_restr 1.922 r_mcangle_it 1.913
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.121 r_dihedral_angle_4_deg 16.593 r_dihedral_angle_3_deg 13.325 r_sphericity_free 7.768 r_dihedral_angle_1_deg 5.36 r_scangle_it 3.963 r_sphericity_bonded 3.06 r_scbond_it 2.935 r_rigid_bond_restr 1.922 r_mcangle_it 1.913 r_angle_refined_deg 1.534 r_mcbond_it 1.425 r_angle_other_deg 0.913 r_mcbond_other 0.66 r_symmetry_vdw_other 0.306 r_nbd_refined 0.223 r_symmetry_hbond_refined 0.215 r_nbd_other 0.19 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.158 r_xyhbond_nbd_other 0.152 r_symmetry_vdw_refined 0.127 r_chiral_restr 0.092 r_nbtor_other 0.085 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17799 Nucleic Acid Atoms Solvent Atoms 2634 Heterogen Atoms 288
Software Software Software Name Purpose REFMAC refinement ADSC data collection DENZO data reduction SCALEPACK data scaling PHASER phasing