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Crystal Structure of Camphor-soaked Ferric Cytochrome P450cam Mutant (D297N)
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, 1mM d-Camphor, 10mM dithioerythritol(DTE), pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.71 54.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.604 α = 90 b = 63.604 β = 90 c = 250.105 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 1.5 33.45 95.7 0.042 20.3 7 80010 15.22
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) 1.5 1.55 72.1 0.185 5.7 5908
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 1.5 33.45 75941 4018 95.85 0.15921 0.1582 0.1571 0.17808 0.1758 RANDOM 17.706
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] -0.07 -0.07 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.566 r_dihedral_angle_3_deg 13.165 r_dihedral_angle_4_deg 10.228 r_dihedral_angle_1_deg 5.6 r_sphericity_bonded 5.456 r_scangle_it 2.476 r_scbond_it 1.613 r_angle_refined_deg 1.467 r_mcangle_it 1.108 r_mcbond_it 0.628
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.566 r_dihedral_angle_3_deg 13.165 r_dihedral_angle_4_deg 10.228 r_dihedral_angle_1_deg 5.6 r_sphericity_bonded 5.456 r_scangle_it 2.476 r_scbond_it 1.613 r_angle_refined_deg 1.467 r_mcangle_it 1.108 r_mcbond_it 0.628 r_nbtor_refined 0.309 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.2 r_metal_ion_refined 0.127 r_xyhbond_nbd_refined 0.114 r_symmetry_hbond_refined 0.104 r_chiral_restr 0.095 r_bond_refined_d 0.01 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 3488 Nucleic Acid Atoms Solvent Atoms 826 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection DPS data reduction HKL-2000 data scaling MOLREP phasing