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Crystal structure of human aflatoxin B1 aldehyde reductase member 3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BP1 PDB ENTRY 2BP1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 600 NL SITTING DROPS 0.05 M CACL2, 10% ETHYLENE-GLYCOL, 0.1 M TRIS PH 8, 20% PEG6000
Crystal Properties Matthews coefficient Solvent content 3 58.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.963 α = 90 b = 126.963 β = 90 c = 490.497 γ = 120
Symmetry Space Group P 32 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 MARRESEARCH MIRRORS 2005-08-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 3 59.09 99.7 0.09 11.16 4.98 92971 2
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 3 3.1 97.6 0.5 2.22 4.84
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 2BP1 3 164.4 88149 4628 99.8 0.24 0.239 0.2433 0.253 0.2547 RANDOM 46.3
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] 1.78 0.89 1.78 -2.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.41 r_dihedral_angle_4_deg 15.045 r_dihedral_angle_3_deg 14.506 r_dihedral_angle_1_deg 5.526 r_scangle_it 1.347 r_angle_refined_deg 1.158 r_angle_other_deg 1.15 r_scbond_it 0.808 r_mcangle_it 0.547 r_mcbond_it 0.327
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.41 r_dihedral_angle_4_deg 15.045 r_dihedral_angle_3_deg 14.506 r_dihedral_angle_1_deg 5.526 r_scangle_it 1.347 r_angle_refined_deg 1.158 r_angle_other_deg 1.15 r_scbond_it 0.808 r_mcangle_it 0.547 r_mcbond_it 0.327 r_symmetry_vdw_other 0.276 r_symmetry_vdw_refined 0.245 r_nbd_refined 0.213 r_nbtor_refined 0.186 r_nbd_other 0.183 r_xyhbond_nbd_refined 0.144 r_symmetry_hbond_refined 0.12 r_nbtor_other 0.085 r_chiral_restr 0.056 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 26897 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms 532
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing