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V203A horse liver alcohol dehydrogenase E complexed with NAD and 2,2,2-trifluoroethanol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DXH PDB ENTRY 4DXH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 7 278 50 mN ammonium N-[tris(hydroxymethyl)methyl]-2-amminoethanesulfonate and 0.5 mM EDTA, pH 6.7 (at 25 deg C), 10 mg/ml protein, 1 mM NAD+, 100 mM 2,2,2-trifluoroethanol, 13-25 % 2-methyl-2,4-methylpentanediol, MICRODIALYSIS, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.4 48.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.28 α = 91.88 b = 51.41 β = 103.09 c = 92.53 γ = 109.94
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 NOIR-1 Rosenbaum-Rock vertically focussed mirrors 2007-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.802 ALS 4.2.2
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 1.1 20 88.3 0.041 12.2 3.05 310308 266123 11.9
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 1.1 1.14 50.6 0.385 2.2 2.91 15266
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 PDB ENTRY 4DXH 1.1 19.58 263388 2690 88.31 0.13781 0.13743 0.17474 0.195 RANDOM 17.884
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] 0.04 -0.08 -0.02 0.21 -0.34 -0.16
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 53.322 r_dihedral_angle_2_deg 38.071 r_sphericity_bonded 13.932 r_dihedral_angle_4_deg 13.355 r_rigid_bond_restr 12.098 r_dihedral_angle_3_deg 11.105 r_dihedral_angle_1_deg 6.256 r_long_range_B_refined 5.868 r_long_range_B_other 4.218 r_scangle_other 3.338
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 53.322 r_dihedral_angle_2_deg 38.071 r_sphericity_bonded 13.932 r_dihedral_angle_4_deg 13.355 r_rigid_bond_restr 12.098 r_dihedral_angle_3_deg 11.105 r_dihedral_angle_1_deg 6.256 r_long_range_B_refined 5.868 r_long_range_B_other 4.218 r_scangle_other 3.338 r_scbond_other 3.171 r_scbond_it 3.17 r_angle_refined_deg 1.933 r_mcangle_it 1.755 r_mcangle_other 1.755 r_mcbond_it 1.657 r_mcbond_other 1.657 r_angle_other_deg 0.927 r_chiral_restr 0.121 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5566 Nucleic Acid Atoms Solvent Atoms 1034 Heterogen Atoms 136
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement d*TREK data reduction d*TREK data scaling