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Structural evidence for a ligand coordination switch in liver alcohol dehydrogenase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HEU PDB ENTRY 1HEU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 DIALYSIS 30 MM TRIS/HCL PH 8.2 25 % MPD
Crystal Properties Matthews coefficient Solvent content 2.2 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.87 α = 104.4 b = 44.46 β = 101.4 c = 94.18 γ = 71.1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 IMAGE PLATE MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B EMBL/DESY, HAMBURG BW7B
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 25 80 0.04 16.7 1.7 323884
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 1.03 67.5 0.44 1.4 1.3
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 PDB ENTRY 1HEU 1 20 322228 1613 79.9 0.125 0.125 0.1575 0.152 0.1756 RANDOM 12.8
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 1.49 0.15 -0.01 -0.05 -1.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.009 r_dihedral_angle_4_deg 14.658 r_dihedral_angle_3_deg 12.66 r_dihedral_angle_1_deg 6.292 r_scangle_it 5.46 r_scbond_it 4.34 r_angle_other_deg 3.29 r_mcbond_it 3.136 r_mcangle_it 3.131 r_angle_refined_deg 2.207
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.009 r_dihedral_angle_4_deg 14.658 r_dihedral_angle_3_deg 12.66 r_dihedral_angle_1_deg 6.292 r_scangle_it 5.46 r_scbond_it 4.34 r_angle_other_deg 3.29 r_mcbond_it 3.136 r_mcangle_it 3.131 r_angle_refined_deg 2.207 r_chiral_restr 0.305 r_nbd_refined 0.243 r_symmetry_hbond_refined 0.243 r_symmetry_vdw_refined 0.234 r_symmetry_vdw_other 0.226 r_nbd_other 0.225 r_xyhbond_nbd_refined 0.189 r_nbtor_refined 0.164 r_nbtor_other 0.095 r_gen_planes_other 0.032 r_bond_refined_d 0.026 r_gen_planes_refined 0.013 r_bond_other_d r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5570 Nucleic Acid Atoms Solvent Atoms 1241 Heterogen Atoms 100
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing