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The structure of thiocyanate dehydrogenase from Thioalkalivibrio paradoxus mutant with His 482 replaced by Gln
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5OEX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 294 0.17M Ammonium acetate, 0.085 M Sodium cacjdilate pH 6.5, 25.5 % v/v Polyatilen glycol 8000, 15% v/v glycerol
Crystal Properties Matthews coefficient Solvent content 2.43 49.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.08 α = 90 b = 160.41 β = 98.114 c = 90.88 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS 6M 2017-12-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.968623 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) CC (Half) 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 1.8 90 96.2 0.122 0.987 6.63 2.7 176251
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.85 98 0.456 0.824 2.2 2.57
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5OEX 1.8 89.97 176251 8761 96.253 0.161 0.1591 0.1639 0.1984 0.2017 23.99
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] 0.112 -1.128 0.176 0.032
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.672 r_dihedral_angle_4_deg 20.739 r_sphericity_bonded 16.629 r_dihedral_angle_3_deg 13.884 r_dihedral_angle_1_deg 7.447 r_lrange_it 5.394 r_scangle_it 4.336 r_scbond_it 3.011 r_mcangle_it 2.538 r_angle_refined_deg 1.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.672 r_dihedral_angle_4_deg 20.739 r_sphericity_bonded 16.629 r_dihedral_angle_3_deg 13.884 r_dihedral_angle_1_deg 7.447 r_lrange_it 5.394 r_scangle_it 4.336 r_scbond_it 3.011 r_mcangle_it 2.538 r_angle_refined_deg 1.937 r_mcbond_it 1.897 r_nbtor_refined 0.306 r_symmetry_nbd_refined 0.253 r_nbd_refined 0.197 r_chiral_restr 0.145 r_symmetry_xyhbond_nbd_refined 0.139 r_xyhbond_nbd_refined 0.119 r_bond_refined_d 0.02 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14585 Nucleic Acid Atoms Solvent Atoms 1183 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing