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YEAST ALCOHOL DEHYDROGENASE WITH BOUND COENZYME
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4W6Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.4 298 100 MM SODIUM N-TRIS(HYDROXYMETHYL)METHYL-3-AMINOPROPANESULFONATE, 0.25 MM EDTA, 2 MM NAD+, 0.2 M 2,2,2-TRIFLUOROETHANOL, 1 MM YBCL3, 16 % POLYETHYETHYLENE GLYCOL 5000 MONOMETHYL ETHER, PH 8.4
Crystal Properties Matthews coefficient Solvent content 2.77 55.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.256 α = 90 b = 146.256 β = 90 c = 65.98 γ = 120
Symmetry Space Group P 3 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 CCD MAR CCD 130 mm 1997-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 1.39 EMBL/DESY, HAMBURG BW7A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3 20 98.1 0.064 18 4.8 74630 15427 60
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.08 84.41 0.326 0.326 2.8 4.1
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 4W6Z 3 19.99 15427 733 98.09 0.13462 0.13166 0.134 0.19653 0.1913 RANDOM 57.1
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] -4.91 -4.91 9.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.622 r_dihedral_angle_4_deg 18.559 r_dihedral_angle_3_deg 18.243 r_dihedral_angle_1_deg 7.334 r_long_range_B_refined 1.796 r_long_range_B_other 1.796 r_angle_refined_deg 1.755 r_angle_other_deg 1 r_mcangle_it 0.706 r_mcangle_other 0.705
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.622 r_dihedral_angle_4_deg 18.559 r_dihedral_angle_3_deg 18.243 r_dihedral_angle_1_deg 7.334 r_long_range_B_refined 1.796 r_long_range_B_other 1.796 r_angle_refined_deg 1.755 r_angle_other_deg 1 r_mcangle_it 0.706 r_mcangle_other 0.705 r_scangle_other 0.613 r_mcbond_it 0.397 r_mcbond_other 0.397 r_scbond_it 0.365 r_scbond_other 0.365 r_chiral_restr 0.086 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5164 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing