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Apo NIS synthetase DesD variant R306Q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2X0O PDB entry 2X0O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 0.16 M magnesium chloride hexahydrate, 0.08 M Tris hydrochloride, pH 8.5, 24% w/v PEG4000, 20% v/v glycerol
Crystal Properties Matthews coefficient Solvent content 2.4 48.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.322 α = 90 b = 95.696 β = 90 c = 181.624 γ = 90
Symmetry Space Group P 2 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 80 CMOS RDI CMOS_8M 2016-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 1.0 ALS 4.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.92 60.54 100 0.09 0.096 0.035 0.996 15.8 7.5 98322 13.62
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.92 1.95 100 0.236 0.254 0.093 0.945 7 7.5
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 2X0O 1.92 58.27 93456 4796 99.95 0.1608 0.1595 0.1701 0.1863 0.1931 RANDOM 19.017
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] -0.4 1.62 -1.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.515 r_dihedral_angle_4_deg 19.302 r_dihedral_angle_3_deg 12.729 r_dihedral_angle_1_deg 6.265 r_angle_refined_deg 2.648 r_angle_other_deg 2.568 r_mcangle_it 2.198 r_mcbond_it 1.315 r_mcbond_other 1.314 r_chiral_restr 0.182
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.515 r_dihedral_angle_4_deg 19.302 r_dihedral_angle_3_deg 12.729 r_dihedral_angle_1_deg 6.265 r_angle_refined_deg 2.648 r_angle_other_deg 2.568 r_mcangle_it 2.198 r_mcbond_it 1.315 r_mcbond_other 1.314 r_chiral_restr 0.182 r_bond_other_d 0.035 r_bond_refined_d 0.031 r_gen_planes_other 0.029 r_gen_planes_refined 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9370 Nucleic Acid Atoms Solvent Atoms 737 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling PHASER phasing