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Siderophore hydrolase EstB from Aspergillus fumigatus in complex with TAFC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GUD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M MES pH 6.5
0.65 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.45 49.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.74 α = 90 b = 89.99 β = 90 c = 129.81 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2016-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
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 2.1 45 96.9 0.06 10.8 3.4 37038
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 2.1 2.2 97.7 0.447 2.5
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 (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 6GUD 2.1 15 35075 1846 96.57 0.20004 0.1981 0.2071 0.23793 0.2461 RANDOM 43.906
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] -1.26 3.3 -2.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.98 r_sphericity_free 26.623 r_sphericity_bonded 16.745 r_dihedral_angle_4_deg 12.192 r_dihedral_angle_3_deg 11.164 r_dihedral_angle_1_deg 5.287 r_long_range_B_refined 2.533 r_long_range_B_other 2.392 r_mcangle_it 1.257 r_mcangle_other 1.257
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.98 r_sphericity_free 26.623 r_sphericity_bonded 16.745 r_dihedral_angle_4_deg 12.192 r_dihedral_angle_3_deg 11.164 r_dihedral_angle_1_deg 5.287 r_long_range_B_refined 2.533 r_long_range_B_other 2.392 r_mcangle_it 1.257 r_mcangle_other 1.257 r_scangle_other 1.071 r_angle_refined_deg 0.87 r_mcbond_it 0.856 r_mcbond_other 0.854 r_scbond_it 0.742 r_scbond_other 0.736 r_angle_other_deg 0.699 r_rigid_bond_restr 0.184 r_chiral_restr 0.033 r_bond_refined_d 0.003 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4448 Nucleic Acid Atoms Solvent Atoms 175 Heterogen Atoms 99
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing