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Crystal structure of aminotransferase Aro8 from Candida albicans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JE5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 292 0.2 M MgCl2, 0.1 M Bis-Tris pH 5.5, 25% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.41 48.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.371 α = 90 b = 102.258 β = 90 c = 147.051 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 CCD MARMOSAIC 225 mm CCD 2016-08-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.3 0.895 BESSY 14.3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.96 50 99.4 0.148 0.997 13.05 7.1 76434
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.96 2.08 96.6 0.697 2.03 7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4JE5 1.96 48.29 74317 2100 99.38 0.17847 0.17693 0.23294 0.1951 RANDOM 24.991
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] 0.99 -0.59 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.071 r_dihedral_angle_4_deg 15.933 r_dihedral_angle_3_deg 14.53 r_dihedral_angle_1_deg 7.06 r_long_range_B_refined 5.388 r_long_range_B_other 5.253 r_scangle_other 3.762 r_mcangle_it 2.891 r_mcangle_other 2.891 r_scbond_it 2.415
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.071 r_dihedral_angle_4_deg 15.933 r_dihedral_angle_3_deg 14.53 r_dihedral_angle_1_deg 7.06 r_long_range_B_refined 5.388 r_long_range_B_other 5.253 r_scangle_other 3.762 r_mcangle_it 2.891 r_mcangle_other 2.891 r_scbond_it 2.415 r_scbond_other 2.382 r_mcbond_it 1.942 r_mcbond_other 1.941 r_angle_refined_deg 1.528 r_angle_other_deg 1.329 r_chiral_restr 0.078 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7577 Nucleic Acid Atoms Solvent Atoms 948 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing