☰ Navigation Tabs
X-ray structure of Lactobacillus brevis alcohol dehydrogenase mutant - K32A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6H07
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 Protein solution (30 g LbADH L -1 , 20 mM HEPES/NaOH pH 7.0, 1 mM
MgCl 2 and precipitation buffer (1 mM Tris/HCl pH 7.5, 50 mM MgCl 2 and 273 mM PEG 550 MME)
Crystal Properties Matthews coefficient Solvent content 2.45 49.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.58 α = 90 b = 81.78 β = 90 c = 114.89 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 4M 2018-07-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-3 0.968 ESRF MASSIF-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.55 45.97 99.6 0.08059 0.08545 0.02802 0.999 17.07 9.1 38205 23.28
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.552 1.608 97.39 2.356 2.494 0.8105 0.405 0.74 9.2
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 6h07 1.55 45.97 36331 1913 99.39 0.1732 0.172 0.1831 0.1965 0.2084 RANDOM 21.68
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] -1.18 2.38 -1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.584 r_dihedral_angle_4_deg 16.291 r_dihedral_angle_3_deg 12.1 r_dihedral_angle_1_deg 7.065 r_angle_other_deg 1.458 r_angle_refined_deg 1.409 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.584 r_dihedral_angle_4_deg 16.291 r_dihedral_angle_3_deg 12.1 r_dihedral_angle_1_deg 7.065 r_angle_other_deg 1.458 r_angle_refined_deg 1.409 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1867 Nucleic Acid Atoms Solvent Atoms 303 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing