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Crystal Structure of Ferric Cytochrome P450cam
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CPP PDB ENTRY 2CPP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 298 11-14% PEG 4000, 50mM Tris-HCl, 250mM KCl, 1mM d-camphor, 10mM dithioerythritol(DTE), pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.7 54.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.86 α = 90 b = 63.86 β = 90 c = 247.304 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 315 2007-09-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.8 SPring-8 BL41XU
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 1.35 23.06 99.5 0.064 41.4 6.9 113101 18.235
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) 1.35 1.4 100 0.4 4.8 7.2 11165
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 2CPP 1.35 23.06 107332 5660 99.53 0.16435 0.16299 0.1624 0.18981 0.1899 RANDOM 17.588
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 33.869 r_dihedral_angle_4_deg 13.573 r_dihedral_angle_3_deg 12.818 r_sphericity_bonded 6.273 r_dihedral_angle_1_deg 5.608 r_scangle_it 2.409 r_scbond_it 1.616 r_angle_refined_deg 1.504 r_angle_other_deg 1.325 r_mcangle_it 1.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.869 r_dihedral_angle_4_deg 13.573 r_dihedral_angle_3_deg 12.818 r_sphericity_bonded 6.273 r_dihedral_angle_1_deg 5.608 r_scangle_it 2.409 r_scbond_it 1.616 r_angle_refined_deg 1.504 r_angle_other_deg 1.325 r_mcangle_it 1.065 r_mcbond_it 0.6 r_rigid_bond_restr 0.517 r_symmetry_vdw_other 0.323 r_nbtor_refined 0.241 r_symmetry_vdw_refined 0.235 r_nbd_refined 0.222 r_nbd_other 0.215 r_nbtor_other 0.171 r_metal_ion_refined 0.167 r_mcbond_other 0.161 r_xyhbond_nbd_refined 0.134 r_symmetry_hbond_refined 0.109 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_sphericity_free
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4711 Nucleic Acid Atoms Solvent Atoms 877 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing