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Crystal structure of the LeuRS editing domain of Candida albicans Mutant K510A in complex with the adduct formed by AN2690-AMP
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 7.4 0.2 M SODIUM ACETATE, 0.1 M HEPES SODIUM PH 7.4, 30% PEG 2000
Crystal Properties Matthews coefficient Solvent content 1.99 38.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.176 α = 90 b = 58.427 β = 90 c = 95.163 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 2013-06-30 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 1.47 49.79 99.3 0.07 37.4 9.1 38517 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 1.47 1.51 91.2 0.5 4.2 8.8
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 PDB ENTRY 2WFG 1.47 49.79 38517 2033 99.33 0.19994 0.19899 0.2087 0.2175 0.2239 RANDOM 14.162
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] -0.25 0.14 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.912 r_sphericity_free 15.862 r_dihedral_angle_3_deg 11.227 r_dihedral_angle_4_deg 7.828 r_sphericity_bonded 4.965 r_dihedral_angle_1_deg 4.604 r_angle_refined_deg 1.192 r_rigid_bond_restr 1.036 r_angle_other_deg 0.67 r_mcangle_it 0.452
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.912 r_sphericity_free 15.862 r_dihedral_angle_3_deg 11.227 r_dihedral_angle_4_deg 7.828 r_sphericity_bonded 4.965 r_dihedral_angle_1_deg 4.604 r_angle_refined_deg 1.192 r_rigid_bond_restr 1.036 r_angle_other_deg 0.67 r_mcangle_it 0.452 r_scbond_it 0.435 r_mcbond_it 0.38 r_mcbond_other 0.379 r_chiral_restr 0.114 r_bond_refined_d 0.004 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1986 Nucleic Acid Atoms Solvent Atoms 249 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing