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Crystal Structure of Camphor-soaked Ferric Cytochrome P450cam Mutant (D297A)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ZAX PDB ENTRY 2ZAX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 298 12-15% PEG 4000, 50mM Tris-HCl, 250mM KCl, 0.1mM d-Camphor, 10mM dithioerythritol(DTE), pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.73 54.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.749 α = 90 b = 63.749 β = 90 c = 250.943 γ = 90
Symmetry Space Group P 43 21 2
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 2008-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0 Photon Factory AR-NW12A
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 1.55 33.54 99.1 0.058 12.1 7.1 76367 75680 16.799
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.55 1.61 99.9 0.366 5.6 7433
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 2ZAX 1.55 33.54 71854 3796 99.29 0.1617 0.16045 0.1595 0.18471 0.1829 RANDOM 19.373
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.095 r_dihedral_angle_3_deg 13.021 r_dihedral_angle_4_deg 11.075 r_sphericity_bonded 9.211 r_dihedral_angle_1_deg 5.858 r_scangle_it 2.423 r_scbond_it 1.602 r_angle_refined_deg 1.488 r_mcangle_it 1.153 r_mcbond_it 0.667
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.095 r_dihedral_angle_3_deg 13.021 r_dihedral_angle_4_deg 11.075 r_sphericity_bonded 9.211 r_dihedral_angle_1_deg 5.858 r_scangle_it 2.423 r_scbond_it 1.602 r_angle_refined_deg 1.488 r_mcangle_it 1.153 r_mcbond_it 0.667 r_nbtor_refined 0.312 r_nbd_refined 0.223 r_symmetry_vdw_refined 0.195 r_metal_ion_refined 0.126 r_symmetry_hbond_refined 0.126 r_xyhbond_nbd_refined 0.121 r_chiral_restr 0.094 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3458 Nucleic Acid Atoms Solvent Atoms 863 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing