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The crystal structure of C185S mutant of recombinant sulfite oxidase with bound substrate, sulfite, at the active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2A99 recombinant chicken liver sulfite oxidase 2A99
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 291 2% PEG 4000 (w/v), 10 % MPD (v/v), 100 mM Sodium acetate pH 5.0, and 0.5 mM Sodium Sulfite, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.78 55.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.284 α = 90 b = 86.284 β = 90 c = 152.339 γ = 90
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 MARMOSAIC 225 mm CCD 2008-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 0.9795 APS 22-BM
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 2.4 47.62 99.4 0.082 30.9 6.7 21565 21565 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 95.4 0.372 3.4 5.6
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 recombinant chicken liver sulfite oxidase 2A99 2.4 47.62 20449 1101 99.28 0.18054 0.17937 0.1932 0.20179 0.2159 RANDOM 19.725
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] 1.06 1.06 -2.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.629 r_dihedral_angle_4_deg 22.862 r_dihedral_angle_3_deg 14.111 r_dihedral_angle_1_deg 6.186 r_scangle_it 3.044 r_scbond_it 1.851 r_angle_refined_deg 1.401 r_mcangle_it 1.067 r_mcbond_it 0.544 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.629 r_dihedral_angle_4_deg 22.862 r_dihedral_angle_3_deg 14.111 r_dihedral_angle_1_deg 6.186 r_scangle_it 3.044 r_scbond_it 1.851 r_angle_refined_deg 1.401 r_mcangle_it 1.067 r_mcbond_it 0.544 r_chiral_restr 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2876 Nucleic Acid Atoms Solvent Atoms 85 Heterogen Atoms 32
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling