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Cytochrome P460 from Nitrosomonas europaea - probable physiological 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 2.59 52.08
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 80.1 0.04 19.1 3.4 17344 2 24.2
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 15 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 43.35 17341 921 91 0.197 0.195 0.1928 0.231 0.2271 RANDOM 28.6
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 38.38 r_dihedral_angle_4_deg 19.111 r_dihedral_angle_3_deg 13.866 r_dihedral_angle_1_deg 7.688 r_scangle_it 3.367 r_scbond_it 2.206 r_mcangle_it 1.729 r_angle_refined_deg 1.653 r_mcbond_it 1.006 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.38 r_dihedral_angle_4_deg 19.111 r_dihedral_angle_3_deg 13.866 r_dihedral_angle_1_deg 7.688 r_scangle_it 3.367 r_scbond_it 2.206 r_mcangle_it 1.729 r_angle_refined_deg 1.653 r_mcbond_it 1.006 r_nbtor_refined 0.302 r_nbd_refined 0.26 r_symmetry_vdw_refined 0.17 r_symmetry_hbond_refined 0.169 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.141 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 138 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling