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Alcohol Dehydrogenase from Thauera aromatica complexed with NADH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H6E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 298 0.1 M Tris HCl pH 8.5; 0.05 M MgCl2, 12% v/v methylpentanediol
Crystal Properties Matthews coefficient Solvent content 3.41 63.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.423 α = 90 b = 239.331 β = 90 c = 168.456 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 PIXEL DECTRIS PILATUS 6M-F 2019-09-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.915890 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim 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 2.6 84.37 100 0.09 0.05 1 15.6 8.1 47369
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 1.11 0.63 0.79 7.8
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 2H6E 2.6 84.37 44983 2352 99.97 0.2171 0.2153 0.219 0.2521 0.2497 RANDOM 65.757
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] 7.45 -1.71 -5.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.519 r_dihedral_angle_4_deg 19.818 r_dihedral_angle_3_deg 18.381 r_dihedral_angle_1_deg 7.451 r_angle_refined_deg 1.559 r_angle_other_deg 1.265 r_chiral_restr 0.06 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.519 r_dihedral_angle_4_deg 19.818 r_dihedral_angle_3_deg 18.381 r_dihedral_angle_1_deg 7.451 r_angle_refined_deg 1.559 r_angle_other_deg 1.265 r_chiral_restr 0.06 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7546 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 158
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling MOLREP phasing