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Structure of A. niger Fdc I327S variant in complex with indol-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 2.42 49.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.703 α = 90 b = 63.798 β = 90 c = 87.7 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 1.06 87.7 95.9 0.172 1 6 6.6 196014
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 1.06 1.12 75.9 1.016 0.7 1.5
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 1.06 87.7 196014 9773 78.833 0.136 0.1346 0.1427 0.1581 0.1643 12.073
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] 0.171 -0.743 0.571
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.158 r_dihedral_angle_4_deg 21.898 r_dihedral_angle_3_deg 11.768 r_rigid_bond_restr 9.12 r_dihedral_angle_1_deg 6.809 r_lrange_it 4.171 r_lrange_other 4.171 r_scangle_it 3.905 r_scangle_other 3.904 r_scbond_it 3.688
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.158 r_dihedral_angle_4_deg 21.898 r_dihedral_angle_3_deg 11.768 r_rigid_bond_restr 9.12 r_dihedral_angle_1_deg 6.809 r_lrange_it 4.171 r_lrange_other 4.171 r_scangle_it 3.905 r_scangle_other 3.904 r_scbond_it 3.688 r_scbond_other 3.688 r_mcangle_other 2.279 r_mcangle_it 2.277 r_angle_refined_deg 2.227 r_mcbond_it 2.093 r_mcbond_other 2.093 r_angle_other_deg 1.693 r_nbd_refined 0.272 r_symmetry_xyhbond_nbd_refined 0.246 r_nbd_other 0.231 r_symmetry_nbd_other 0.198 r_symmetry_nbd_refined 0.192 r_xyhbond_nbd_refined 0.186 r_nbtor_refined 0.181 r_xyhbond_nbd_other 0.156 r_symmetry_xyhbond_nbd_other 0.149 r_chiral_restr 0.142 r_symmetry_nbtor_other 0.091 r_metal_ion_refined 0.084 r_gen_planes_refined 0.025 r_bond_refined_d 0.021 r_gen_planes_other 0.006 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3850 Nucleic Acid Atoms Solvent Atoms 611 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling