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Siderophore hydrolase EstB mutant H267N from Aspergillus fumigatus
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 citrate pH 4.5
0.9 M ammonium tartrate
Crystal Properties Matthews coefficient Solvent content 2.55 51.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.97 α = 90 b = 92.61 β = 90 c = 130.9 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 2016-04-16 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 1.7 45 98.3 0.052 14.7 4.5 73016
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 1.7 1.8 99.1 0.576 3.1
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 1.7 15 69245 3644 98.09 0.16009 0.15865 0.1713 0.18724 0.1995 RANDOM 29.249
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] -0.21 2.33 -2.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.942 r_sphericity_free 20.533 r_dihedral_angle_4_deg 15.974 r_dihedral_angle_3_deg 10.783 r_sphericity_bonded 5.912 r_dihedral_angle_1_deg 5.045 r_long_range_B_refined 2.001 r_long_range_B_other 1.616 r_angle_refined_deg 1.053 r_mcangle_it 0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.942 r_sphericity_free 20.533 r_dihedral_angle_4_deg 15.974 r_dihedral_angle_3_deg 10.783 r_sphericity_bonded 5.912 r_dihedral_angle_1_deg 5.045 r_long_range_B_refined 2.001 r_long_range_B_other 1.616 r_angle_refined_deg 1.053 r_mcangle_it 0.89 r_mcangle_other 0.89 r_angle_other_deg 0.864 r_scangle_other 0.816 r_mcbond_it 0.761 r_mcbond_other 0.761 r_scbond_it 0.736 r_scbond_other 0.736 r_rigid_bond_restr 0.483 r_chiral_restr 0.057 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 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 4478 Nucleic Acid Atoms Solvent Atoms 533 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing