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Crystal structure of the LeuRS editing domain of Candida albicans Mutant K510A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WFG PDB ENTRY 2WFG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4 0.2 M AMMONIUM ACETATE, 0.1 M SODIUM ACETATE TRIHYDRATE PH 4.0, 24% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.01 38.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.349 α = 90 b = 41.104 β = 106.71 c = 67.264 γ = 90
Symmetry Space Group C 1 2 1
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 2013-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F APS 21-ID-F
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 1.81 64 90.5 0.07 20.8 4.9 18976 2
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 1.81 1.85 49 0.5 2.6 4.3
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 PDB ENTRY 2WFG 1.81 64.42 18676 998 90.44 0.16776 0.1651 0.21844 0.2281 RANDOM 27.545
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] -0.1 0.5 -0.52 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.789 r_dihedral_angle_3_deg 14.649 r_dihedral_angle_4_deg 11.777 r_dihedral_angle_1_deg 5.994 r_mcangle_it 3.226 r_scbond_it 2.619 r_mcbond_it 1.981 r_mcbond_other 1.979 r_angle_refined_deg 1.441 r_angle_other_deg 0.757
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.789 r_dihedral_angle_3_deg 14.649 r_dihedral_angle_4_deg 11.777 r_dihedral_angle_1_deg 5.994 r_mcangle_it 3.226 r_scbond_it 2.619 r_mcbond_it 1.981 r_mcbond_other 1.979 r_angle_refined_deg 1.441 r_angle_other_deg 0.757 r_chiral_restr 0.086 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1932 Nucleic Acid Atoms Solvent Atoms 147 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement DENZO data reduction DENZO data scaling PHASER phasing