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horse liver S48T alcohol dehydrogenase complexed with NAD and trifluoroethanol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DWV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 7 278 50 mM ammonium N-[tris(hydroxymethyl)methyl]-2-aminomethane sulfonate, pH 7.0 (pH 6.7 at 25 C), 0.25 mM EDTA, 10 mg/ml protein, 1 mM NAD+, 100 mM trifluoroethanol, 12-25 % 2-methyl-2,4-pentanediol
Crystal Properties Matthews coefficient Solvent content 2.26 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.4 α = 91.97 b = 51.38 β = 103.03 c = 92.29 γ = 110.28
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 2008-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.827 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 1.14 20 90.7 0.047 13.8 3.72 244846 9.4
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 1.14 1.17 54.6 0.372 3.2
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 4DWV 1.14 20 243550 1206 90.68 0.12613 0.12602 0.1358 0.14788 0.1581 RANDOM 14.897
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] 0.25 -0.37 0.22 0.52 -0.02 -0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.517 r_sphericity_free 23.844 r_dihedral_angle_4_deg 15.33 r_dihedral_angle_3_deg 10.85 r_sphericity_bonded 6.627 r_dihedral_angle_1_deg 6.255 r_rigid_bond_restr 3.183 r_long_range_B_refined 3.01 r_long_range_B_other 2.262 r_angle_refined_deg 1.839
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.517 r_sphericity_free 23.844 r_dihedral_angle_4_deg 15.33 r_dihedral_angle_3_deg 10.85 r_sphericity_bonded 6.627 r_dihedral_angle_1_deg 6.255 r_rigid_bond_restr 3.183 r_long_range_B_refined 3.01 r_long_range_B_other 2.262 r_angle_refined_deg 1.839 r_scangle_other 1.792 r_scbond_it 1.581 r_scbond_other 1.581 r_mcangle_it 1.194 r_mcangle_other 1.194 r_angle_other_deg 1.016 r_mcbond_it 0.979 r_mcbond_other 0.978 r_chiral_restr 0.108 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_bond_other_d 0.002 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_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5572 Nucleic Acid Atoms Solvent Atoms 1028 Heterogen Atoms 136
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction d*TREK data scaling REFMAC phasing