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Crystal structure of A. niger ochratoxinase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4C5Z PDB ENTRY 4C5Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 11% (W/V) PEG 3000, 0.1 M CITRATE PH 5.0, 0.2 M TRI-POTASSIUM CITRATE
Crystal Properties Matthews coefficient Solvent content 2.4 48.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 212.671 α = 90 b = 79.92 β = 105.25 c = 218.28 γ = 90
Symmetry Space Group I 1 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 PIXEL DECTRIS PILATUS 6M 2011-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 2.5 74.7 91 0.1 5.7 2.5 111178
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 2.64 70.5 0.36 2.1 1.9
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 4C5Z 2.5 74.47 105606 5524 90.53 0.20705 0.20585 0.2105 0.23054 0.2368 RANDOM 34.275
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] -1.96 -2.68 1.7 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.778 r_dihedral_angle_3_deg 17.858 r_dihedral_angle_4_deg 16.352 r_dihedral_angle_1_deg 5.911 r_long_range_B_refined 3.251 r_long_range_B_other 3.235 r_angle_other_deg 1.412 r_scangle_other 1.406 r_angle_refined_deg 1.342 r_mcangle_it 1.289
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.778 r_dihedral_angle_3_deg 17.858 r_dihedral_angle_4_deg 16.352 r_dihedral_angle_1_deg 5.911 r_long_range_B_refined 3.251 r_long_range_B_other 3.235 r_angle_other_deg 1.412 r_scangle_other 1.406 r_angle_refined_deg 1.342 r_mcangle_it 1.289 r_mcangle_other 1.289 r_scbond_it 0.821 r_scbond_other 0.821 r_mcbond_it 0.749 r_mcbond_other 0.749 r_chiral_restr 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.005 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 26059 Nucleic Acid Atoms Solvent Atoms 638 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing