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Cytochrome P460 from Nitrosomonas europaea - probable nonphysiological oxidized form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other INITIAL MODEL FROM SULPHUR SAD STRUCTURE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.2 pH 5.20
Crystal Properties Matthews coefficient Solvent content 2.6 51.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.256 α = 90 b = 53.256 β = 90 c = 127.033 γ = 120
Symmetry Space Group P 31 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 IMAGE PLATE RIGAKU IMAGE PLATE VARIMAX CONFOCAL MAXFLUX 2005-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 1.69 43 80.9 0.04 17.7 2.9 17631 2 25.3
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 1.69 1.75 13.5 0.1 2.8 1.1
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 INITIAL MODEL FROM SULPHUR SAD STRUCTURE 1.8 43.36 17631 952 92.5 0.199 0.197 0.1945 0.237 0.2323 RANDOM 26.3
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] 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.586 r_dihedral_angle_4_deg 21.394 r_dihedral_angle_3_deg 14.826 r_dihedral_angle_1_deg 8.107 r_scangle_it 3.398 r_scbond_it 2.283 r_mcangle_it 1.756 r_angle_refined_deg 1.641 r_mcbond_it 1.023 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.586 r_dihedral_angle_4_deg 21.394 r_dihedral_angle_3_deg 14.826 r_dihedral_angle_1_deg 8.107 r_scangle_it 3.398 r_scbond_it 2.283 r_mcangle_it 1.756 r_angle_refined_deg 1.641 r_mcbond_it 1.023 r_nbtor_refined 0.304 r_nbd_refined 0.27 r_symmetry_vdw_refined 0.176 r_symmetry_hbond_refined 0.173 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.142 r_bond_refined_d 0.014 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_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1223 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling