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Crystal structure of human ALDH3A1 with its isozyme selective inhibitor - N-[4-(4-methylsulfonyl-2-nitroanilino)phenyl]acetamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SZA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298.15 0.2 M Potassium acetate, 20 % PEG 3350, (3 microliters of 3 mg/mL of ALDH3A1 + 3 microlitres of mother liquor), pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298.15K
Crystal Properties Matthews coefficient Solvent content 2.2 44.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.106 α = 112.38 b = 95.38 β = 91.68 c = 117.228 γ = 90.99
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 MARMOSAIC 300 mm CCD mirrors 2010-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.9869 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 50 93.6 0.25 0.067 10.4 2.2 123251 115363 0.2 26.5
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 2.5 2.54 72.5 0.25 3.1 2 4489
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 3SZA 2.5 50 117300 109547 5803 93.39 0.23541 0.23435 0.2357 0.25529 0.2549 RANDOM 62.888
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] 7.49 2.1 -1.72 -4.29 -1.9 -4.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.324 r_dihedral_angle_4_deg 18.05 r_dihedral_angle_3_deg 15.928 r_dihedral_angle_1_deg 5.056 r_scangle_it 1.691 r_angle_refined_deg 1.146 r_scbond_it 0.929 r_mcangle_it 0.685 r_mcbond_it 0.35 r_chiral_restr 0.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.324 r_dihedral_angle_4_deg 18.05 r_dihedral_angle_3_deg 15.928 r_dihedral_angle_1_deg 5.056 r_scangle_it 1.691 r_angle_refined_deg 1.146 r_scbond_it 0.929 r_mcangle_it 0.685 r_mcbond_it 0.35 r_chiral_restr 0.069 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 27874 Nucleic Acid Atoms Solvent Atoms 219 Heterogen Atoms 192
Software Software Software Name Purpose HKL-3000 data collection AMoRE phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling