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Structure of the aflatoxin aldehyde reductase in complex with NADPH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GVE PDB ENTRY 1GVE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP SITTING DROP RESERVOIR: 0.2 M AMMONIUM CITRATE 20 % PEG3350 PROTEIN: 0.01 M HEPES PH 7.5 0.5 M NACL 5 % GLYCEROL 0.5 % TCEP
Crystal Properties Matthews coefficient Solvent content 2.25 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.989 α = 88.72 b = 78.786 β = 71.14 c = 86.019 γ = 75.22
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 2005-03-13 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 2.4 39.98 91 0.08 6.4 1.62 49989 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 2.4 2.5 60 0.25 1.9 0.9
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 1GVE 2.4 40 48161 1828 90.4 0.157 0.155 0.1655 0.205 0.2122 RANDOM 28.88
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] -0.49 0.7 0.22 0.43 0.91 -0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.902 r_dihedral_angle_4_deg 18.823 r_dihedral_angle_3_deg 14.866 r_dihedral_angle_1_deg 5.964 r_scangle_it 5.576 r_scbond_it 4.089 r_mcangle_it 2.071 r_mcbond_it 1.505 r_angle_refined_deg 1.402 r_angle_other_deg 1.025
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.902 r_dihedral_angle_4_deg 18.823 r_dihedral_angle_3_deg 14.866 r_dihedral_angle_1_deg 5.964 r_scangle_it 5.576 r_scbond_it 4.089 r_mcangle_it 2.071 r_mcbond_it 1.505 r_angle_refined_deg 1.402 r_angle_other_deg 1.025 r_xyhbond_nbd_refined 0.208 r_nbd_refined 0.205 r_symmetry_vdw_other 0.202 r_nbd_other 0.181 r_nbtor_refined 0.179 r_symmetry_vdw_refined 0.114 r_symmetry_hbond_refined 0.103 r_nbtor_other 0.087 r_chiral_restr 0.073 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 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 9951 Nucleic Acid Atoms Solvent Atoms 540 Heterogen Atoms 244
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing