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Mechanistic and Structural Studies of H373Q Flavocytochrome b2: Effects of Mutating the Active Site Base
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FCB pdb entry 1FCB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 4.6 291 100 mM Sodium citrate, 17% PEG 3K, 0.2mM Sucrose monolaurate, pH 4.6, EVAPORATION, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.82 67.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 163.689 α = 90 b = 163.689 β = 90 c = 112.021 γ = 120
Symmetry Space Group P 32 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 120 CCD ADSC QUANTUM 4 2006-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0 APS 23-ID-D
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 2.8 50 88 0.26 14.5 69254 36191
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 1FCB 2.8 50 35636 1941 87.6 0.21 0.206 0.2272 0.278 0.2781 RANDOM 69.71
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] 1.08 0.54 1.08 -1.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.977 r_dihedral_angle_3_deg 27.967 r_dihedral_angle_4_deg 26.622 r_dihedral_angle_1_deg 13.79 r_scangle_it 7.292 r_scbond_it 4.586 r_angle_refined_deg 4.284 r_mcangle_it 3.097 r_mcbond_it 1.894 r_nbtor_refined 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.977 r_dihedral_angle_3_deg 27.967 r_dihedral_angle_4_deg 26.622 r_dihedral_angle_1_deg 13.79 r_scangle_it 7.292 r_scbond_it 4.586 r_angle_refined_deg 4.284 r_mcangle_it 3.097 r_mcbond_it 1.894 r_nbtor_refined 0.4 r_nbd_refined 0.372 r_symmetry_vdw_refined 0.317 r_chiral_restr 0.302 r_xyhbond_nbd_refined 0.286 r_symmetry_hbond_refined 0.282 r_metal_ion_refined 0.125 r_bond_refined_d 0.05 r_gen_planes_refined 0.014 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 r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6914 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 111
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling