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Structure of A. niger Fdc I327S variant in complex with benzothiophene 2 carboxylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZAA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2 M potassium thiocyanate, Bis-Tris propane pH 6.5, 20% w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.39 48.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.571 α = 90 b = 63.357 β = 90 c = 87.594 γ = 90
Symmetry Space Group P 21 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-F 2018-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.916 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) CC (Half) 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 1.28 87.594 94.6 0.104 1 9.4 6.4 107134
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.28 1.37 57.1 1.116 0.6 1.5 6.4
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS FREE R-VALUE 4ZAA 1.281 87.59 107134 5237 78.173 0.162 0.1592 0.1636 0.2108 0.2116 17.43
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] -0.239 -0.616 0.856
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.821 r_dihedral_angle_4_deg 23.249 r_dihedral_angle_3_deg 12.947 r_dihedral_angle_1_deg 7.179 r_scangle_it 5.311 r_scangle_other 5.31 r_rigid_bond_restr 5.219 r_scbond_it 4.969 r_scbond_other 4.968 r_lrange_it 4.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.821 r_dihedral_angle_4_deg 23.249 r_dihedral_angle_3_deg 12.947 r_dihedral_angle_1_deg 7.179 r_scangle_it 5.311 r_scangle_other 5.31 r_rigid_bond_restr 5.219 r_scbond_it 4.969 r_scbond_other 4.968 r_lrange_it 4.95 r_lrange_other 4.751 r_mcangle_other 3.702 r_mcangle_it 3.694 r_mcbond_it 3.127 r_mcbond_other 3.08 r_angle_refined_deg 2.061 r_angle_other_deg 1.605 r_nbd_refined 0.262 r_nbd_other 0.219 r_symmetry_nbd_other 0.206 r_symmetry_nbd_refined 0.201 r_xyhbond_nbd_refined 0.192 r_nbtor_refined 0.175 r_symmetry_xyhbond_nbd_refined 0.16 r_chiral_restr 0.115 r_metal_ion_refined 0.1 r_symmetry_nbtor_other 0.087 r_gen_planes_refined 0.018 r_bond_refined_d 0.015 r_gen_planes_other 0.006 r_bond_other_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3850 Nucleic Acid Atoms Solvent Atoms 551 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling