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High-resolution crystal structure of the electron transfer complex of cytochrome p450cam with putidaredoxin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3W9C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 289 0.1M HEPES, 0.1M Sodium Chloride, 1.6M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.03 39.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.49 α = 90 b = 77.956 β = 95.51 c = 59.968 γ = 90
Symmetry Space Group C 1 2 1
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 RAYONIX MX-225 2013-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 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 1.7 61.66 99.6 0.084 39.2 4.6 51169
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73
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 3w9c 1.7 59.66 48328 2579 99.32 0.15788 0.15603 0.167 0.19158 0.2012 RANDOM 27.446
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] 0.09 -0.01 -0.1 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.196 r_dihedral_angle_4_deg 15.248 r_dihedral_angle_3_deg 14.782 r_long_range_B_refined 6.817 r_long_range_B_other 6.756 r_dihedral_angle_1_deg 6.237 r_scangle_other 5.724 r_scbond_it 3.955 r_scbond_other 3.949 r_mcangle_it 3.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.196 r_dihedral_angle_4_deg 15.248 r_dihedral_angle_3_deg 14.782 r_long_range_B_refined 6.817 r_long_range_B_other 6.756 r_dihedral_angle_1_deg 6.237 r_scangle_other 5.724 r_scbond_it 3.955 r_scbond_other 3.949 r_mcangle_it 3.22 r_mcangle_other 3.22 r_mcbond_it 2.403 r_mcbond_other 2.402 r_angle_refined_deg 2.137 r_angle_other_deg 0.996 r_chiral_restr 0.136 r_bond_refined_d 0.02 r_gen_planes_refined 0.011 r_gen_planes_other 0.005 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3970 Nucleic Acid Atoms Solvent Atoms 294 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing