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Alcohol dehydrogenase TADH from Thermus sp. ATN1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2D8A PDB ENTRY 2D8A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 1 M SODIUM CHLORIDE AND 1.5 M AMMONIUM SULPHATE IN 0.1 M BIS-TRIS BUFFER AT PH 6.5.
Crystal Properties Matthews coefficient Solvent content 2.5 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.367 α = 90 b = 87.367 β = 90 c = 337.56 γ = 120
Symmetry Space Group P 31 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 PIXEL DECTRIS PILATUS 6M 2012-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 Diamond I04-1
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 2.74 48.22 99.9 0.09 22.2 12.2 40559 2
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 2.74 2.91 99.4 0.5 4.9 11.9
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 2D8A 2.74 112.52 38461 2045 99.96 0.19431 0.19157 0.1971 0.24758 0.2499 RANDOM 55.545
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] 0.24 0.12 0.24 -0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.352 r_dihedral_angle_4_deg 22.577 r_dihedral_angle_3_deg 18.167 r_dihedral_angle_1_deg 6.392 r_mcangle_it 6.013 r_mcbond_it 3.983 r_mcbond_other 3.982 r_scbond_it 3.843 r_angle_refined_deg 1.508 r_angle_other_deg 0.835
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.352 r_dihedral_angle_4_deg 22.577 r_dihedral_angle_3_deg 18.167 r_dihedral_angle_1_deg 6.392 r_mcangle_it 6.013 r_mcbond_it 3.983 r_mcbond_other 3.982 r_scbond_it 3.843 r_angle_refined_deg 1.508 r_angle_other_deg 0.835 r_chiral_restr 0.077 r_bond_refined_d 0.011 r_bond_other_d 0.006 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 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_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10065 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling BALBES phasing