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I220V horse liver alcohol dehydrogenase complexed with NAD and pyrazole
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 7 298 50 MM AMMONIUM N-[TRIS(HYDROXYMETHYL) METHYL]-2-AMINOETHANE SULFONATE, PH 6.7 (AT 25 C), 0.25 MM EDTA, 10 MG/ML PROTEIN, 1 MM NAD+, 10) MM PYRAZOLE, 16 TO 25 % 2-METHYL-2,4-PENTANEDIOL
Crystal Properties Matthews coefficient Solvent content 2.39 48.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.23 α = 91.88 b = 51.26 β = 103.12 c = 92.41 γ = 109.95
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 2009-03-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.80 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 1.6 20 93.4 0.123 0.414 6.46 89788 20.1
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 1.6 1.66 93.7 0.414 2.9 6.13
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 1.6 20 89788 1163 93.41 0.16122 0.16071 0.1718 0.20093 0.2118 RANDOM 22.272
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] -0.27 -0.13 0.12 1.16 0.31 -1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.724 r_dihedral_angle_4_deg 13.432 r_dihedral_angle_3_deg 12.934 r_dihedral_angle_1_deg 6.427 r_long_range_B_refined 6.083 r_long_range_B_other 5.732 r_scangle_other 4.006 r_scbond_it 2.737 r_scbond_other 2.736 r_mcangle_it 2.186
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.724 r_dihedral_angle_4_deg 13.432 r_dihedral_angle_3_deg 12.934 r_dihedral_angle_1_deg 6.427 r_long_range_B_refined 6.083 r_long_range_B_other 5.732 r_scangle_other 4.006 r_scbond_it 2.737 r_scbond_other 2.736 r_mcangle_it 2.186 r_mcangle_other 2.186 r_angle_refined_deg 2.012 r_mcbond_it 1.674 r_mcbond_other 1.673 r_angle_other_deg 0.926 r_chiral_restr 0.122 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5568 Nucleic Acid Atoms Solvent Atoms 850 Heterogen Atoms 118
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction d*TREK data scaling O model building REFMAC phasing