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Crystal Structure of Camphor-soaked Ferric Cytochrome P450cam Mutant(D297L)
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 11-14% PEG 8000, 250mM potassium chloride, 10mM DTE, 1mM d-camphor, 50mM Tris-HCl, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.7 54.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.758 α = 90 b = 63.758 β = 90 c = 248.353 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 Bruker DIP-6040 2008-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.7 SPring-8 BL44XU
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 33.39 96.5 0.057 13.5 4.7 66343 22.37
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.6 1.66 98.9 0.398 4.7 6638
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 (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 1.6 33.39 66343 62126 3322 95.15 0.16251 0.16042 0.1617 0.20275 0.2025 RANDOM 23.287
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 33.843 r_dihedral_angle_3_deg 13.833 r_dihedral_angle_4_deg 11.141 r_sphericity_bonded 5.99 r_dihedral_angle_1_deg 5.457 r_scangle_it 2.935 r_scbond_it 1.977 r_angle_refined_deg 1.525 r_mcangle_it 1.246 r_mcbond_it 0.715
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.843 r_dihedral_angle_3_deg 13.833 r_dihedral_angle_4_deg 11.141 r_sphericity_bonded 5.99 r_dihedral_angle_1_deg 5.457 r_scangle_it 2.935 r_scbond_it 1.977 r_angle_refined_deg 1.525 r_mcangle_it 1.246 r_mcbond_it 0.715 r_nbtor_refined 0.309 r_symmetry_vdw_refined 0.247 r_nbd_refined 0.244 r_symmetry_hbond_refined 0.169 r_xyhbond_nbd_refined 0.149 r_metal_ion_refined 0.11 r_chiral_restr 0.105 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 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 3670 Nucleic Acid Atoms Solvent Atoms 831 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing