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Crystal Structure of the Sulfane Dehydrogenase SoxCD from Paracoccus pantotrophus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4% (W/V) MPEG 5000, 40 MM TRIS-HCL (PH 8), 20 MM CA-ACETATE, 10 MM CO(III)-HEXAMINECHLORIDE
Crystal Properties Matthews coefficient Solvent content 2.05 40.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.97 α = 90 b = 122.97 β = 90 c = 76.39 γ = 120
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 ADSC QUANTUM 315r M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 1.33 50 92 0.04 11.8 1.8 273185 -3 9.7
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 1.33 1.4 88.2 0.26 2.6 1.5
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 SAD THROUGHOUT NONE 1.33 50.01 273185 803 96.82 0.107 0.10699 0.1478 0.1111 0.1538 RANDOM 8.777
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] -0.05 -0.05 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.797 r_dihedral_angle_4_deg 16.506 r_dihedral_angle_3_deg 11.121 r_dihedral_angle_1_deg 6.24 r_scangle_it 3.899 r_scbond_it 2.864 r_mcangle_it 2.12 r_mcbond_other 1.65 r_rigid_bond_restr 1.548 r_mcbond_it 1.527
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.797 r_dihedral_angle_4_deg 16.506 r_dihedral_angle_3_deg 11.121 r_dihedral_angle_1_deg 6.24 r_scangle_it 3.899 r_scbond_it 2.864 r_mcangle_it 2.12 r_mcbond_other 1.65 r_rigid_bond_restr 1.548 r_mcbond_it 1.527 r_angle_refined_deg 1.499 r_angle_other_deg 0.913 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9173 Nucleic Acid Atoms Solvent Atoms 956 Heterogen Atoms 202
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling Auto-Rickshaw phasing