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Alcohol dehydrogenase from Candida magnoliae DSMZ 70638 (ADHA): complex with NADP+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6TQ3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 20% w/v PEG 3350, 0.2 M sodium citrate.
Crystal Properties Matthews coefficient Solvent content 2.6 52.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.115 α = 90 b = 113.136 β = 94.04 c = 124.206 γ = 90
Symmetry Space Group I 1 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 100 PIXEL DECTRIS PILATUS3 S 6M 2016-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.972640 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.6 84 97.4 0.17 0.2 0.104 0.982 6 3.6 134154
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.63 97.5 1.038 1.228 0.645 0.398 3.5
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6TQ3 1.6 83.55 127609 6542 97.31 0.1439 0.1412 0.1966 0.2205 RANDOM 18.356
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] 0.37 0.2 0.03 -0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.553 r_sphericity_free 28.014 r_dihedral_angle_4_deg 17.994 r_dihedral_angle_3_deg 13.44 r_sphericity_bonded 10.796 r_dihedral_angle_1_deg 6.461 r_rigid_bond_restr 5.285 r_angle_refined_deg 2.505 r_angle_other_deg 1.215 r_chiral_restr 0.152
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.553 r_sphericity_free 28.014 r_dihedral_angle_4_deg 17.994 r_dihedral_angle_3_deg 13.44 r_sphericity_bonded 10.796 r_dihedral_angle_1_deg 6.461 r_rigid_bond_restr 5.285 r_angle_refined_deg 2.505 r_angle_other_deg 1.215 r_chiral_restr 0.152 r_bond_refined_d 0.027 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7044 Nucleic Acid Atoms Solvent Atoms 559 Heterogen Atoms 177
Software Software Software Name Purpose XDS data reduction Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing