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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 3BE7 PDB ENTRIES 3BE7, 3FEQ, 2R8C, 3MTW, 2QS8 experimental model PDB 3FEQ PDB ENTRIES 3BE7, 3FEQ, 2R8C, 3MTW, 2QS8 experimental model PDB 2R8C PDB ENTRIES 3BE7, 3FEQ, 2R8C, 3MTW, 2QS8 experimental model PDB 3MTW PDB ENTRIES 3BE7, 3FEQ, 2R8C, 3MTW, 2QS8 experimental model PDB 2QS8 PDB ENTRIES 3BE7, 3FEQ, 2R8C, 3MTW, 2QS8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9 12% (W/V) PEG 3000, 0.1 M BICINE PH 9.0, 0.2 M TRI-POTASSIUM CITRATE
Crystal Properties Matthews coefficient Solvent content 3.56 65.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 183.24 α = 90 b = 183.24 β = 90 c = 78.98 γ = 90
Symmetry Space Group P 4 21 2
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 3 72.5 96.2 0.2 6.3 5.5 26324
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 3.16 97.2 0.75 2.2 5.7
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 ENTRIES 3BE7, 3FEQ, 2R8C, 3MTW, 2QS8 3 67.44 24926 1341 95.39 0.18999 0.18801 0.1916 0.22583 0.232 RANDOM 59.349
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] -1.55 -1.55 3.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.079 r_dihedral_angle_4_deg 17.746 r_dihedral_angle_3_deg 17.607 r_dihedral_angle_1_deg 6.223 r_long_range_B_refined 5.385 r_long_range_B_other 5.383 r_scangle_other 2.768 r_mcangle_it 2.529 r_mcangle_other 2.529 r_scbond_it 1.737
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.079 r_dihedral_angle_4_deg 17.746 r_dihedral_angle_3_deg 17.607 r_dihedral_angle_1_deg 6.223 r_long_range_B_refined 5.385 r_long_range_B_other 5.383 r_scangle_other 2.768 r_mcangle_it 2.529 r_mcangle_other 2.529 r_scbond_it 1.737 r_scbond_other 1.736 r_mcbond_it 1.515 r_mcbond_other 1.515 r_angle_refined_deg 1.438 r_angle_other_deg 0.992 r_chiral_restr 0.075 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.003 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 6516 Nucleic Acid Atoms Solvent Atoms 31 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing