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Siderophore hydrolase EstB mutant S148A 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 MES pH 6.0
1 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.53 51.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.79 α = 90 b = 92.36 β = 90 c = 130.84 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 1.45 45 95.8 0.05 12.3 3.7 113283
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 1.45 1.55 96.5 0.59 2.2
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 1.45 15 107504 5659 95.73 0.16714 0.1662 0.1675 0.18511 0.1867 RANDOM 22.899
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] -0.23 1.45 -1.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.48 r_sphericity_free 16.085 r_dihedral_angle_4_deg 14.317 r_dihedral_angle_3_deg 9.924 r_dihedral_angle_1_deg 5.102 r_sphericity_bonded 4.559 r_long_range_B_refined 1.511 r_long_range_B_other 1.511 r_angle_refined_deg 1.051 r_angle_other_deg 0.865
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.48 r_sphericity_free 16.085 r_dihedral_angle_4_deg 14.317 r_dihedral_angle_3_deg 9.924 r_dihedral_angle_1_deg 5.102 r_sphericity_bonded 4.559 r_long_range_B_refined 1.511 r_long_range_B_other 1.511 r_angle_refined_deg 1.051 r_angle_other_deg 0.865 r_scbond_it 0.603 r_scbond_other 0.601 r_scangle_other 0.554 r_mcangle_it 0.525 r_mcangle_other 0.525 r_mcbond_it 0.515 r_mcbond_other 0.515 r_rigid_bond_restr 0.477 r_chiral_restr 0.056 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 4401 Nucleic Acid Atoms Solvent Atoms 606 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing