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Structure of alcohol dehydrogenase from Drosophila lebanonesis T114V mutant complexed with NAD+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A4U PDB ENTRY 1a4u
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 24.8% PEG (3350), 0.2M lithium sulfate, 0.1M Bis-Tris, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.7 54.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.3 α = 90 b = 53.87 β = 103.6 c = 76.75 γ = 90
Symmetry Space Group C 1 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 ADSC QUANTUM 315r bent cylindrical mirror 2008-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97245 ESRF ID23-1
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 1.45 31.25 97.9 0.118 7.4 3.5 103038 2 2 27.6
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 1.45 1.53 90.3 0.497 1.2 3 13812
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1a4u 1.45 31.25 103038 100725 2047 97.76 0.2065 0.20584 0.2062 0.23921 0.239 RANDOM 24.148
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] -1.4 -0.15 2.67 -1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.207 r_dihedral_angle_4_deg 18.542 r_dihedral_angle_3_deg 13.4 r_dihedral_angle_1_deg 5.452 r_sphericity_free 2.815 r_scangle_it 2.149 r_sphericity_bonded 2.106 r_scbond_it 1.432 r_angle_refined_deg 1.151 r_mcangle_it 1.037
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.207 r_dihedral_angle_4_deg 18.542 r_dihedral_angle_3_deg 13.4 r_dihedral_angle_1_deg 5.452 r_sphericity_free 2.815 r_scangle_it 2.149 r_sphericity_bonded 2.106 r_scbond_it 1.432 r_angle_refined_deg 1.151 r_mcangle_it 1.037 r_rigid_bond_restr 0.793 r_mcbond_it 0.664 r_nbtor_refined 0.301 r_nbd_refined 0.199 r_symmetry_hbond_refined 0.161 r_symmetry_vdw_refined 0.143 r_xyhbond_nbd_refined 0.122 r_chiral_restr 0.08 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3892 Nucleic Acid Atoms Solvent Atoms 594 Heterogen Atoms 48
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement XDS data reduction SCALA data scaling