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Apo structure of Aldehyde Dehydrogenase from Bacillus cereus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4FR8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 287 0.15 M DL-malic acid pH 7.0, 18% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.59 52.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.527 α = 90 b = 93.284 β = 98.05 c = 145.472 γ = 90
Symmetry Space Group P 1 21 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 2012-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.97951 PAL/PLS 5C (4A)
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 2.6 50 99.2 0.046 69.7 7.4 67464 1
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 2.6 2.64 97.7 0.075 7.1
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 4FR8 2.6 49.57 64021 3423 99.09 0.18548 0.18201 0.1938 0.25095 0.2555 RANDOM 21.36
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] -0.01 0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.023 r_dihedral_angle_4_deg 20.628 r_dihedral_angle_3_deg 20.507 r_dihedral_angle_1_deg 7.098 r_long_range_B_other 4.05 r_long_range_B_refined 4.049 r_scangle_other 3.053 r_mcangle_other 2.077 r_mcangle_it 2.076 r_scbond_it 1.825
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.023 r_dihedral_angle_4_deg 20.628 r_dihedral_angle_3_deg 20.507 r_dihedral_angle_1_deg 7.098 r_long_range_B_other 4.05 r_long_range_B_refined 4.049 r_scangle_other 3.053 r_mcangle_other 2.077 r_mcangle_it 2.076 r_scbond_it 1.825 r_scbond_other 1.825 r_angle_refined_deg 1.78 r_mcbond_it 1.269 r_mcbond_other 1.268 r_angle_other_deg 1.096 r_chiral_restr 0.115 r_bond_refined_d 0.015 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 15117 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing