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Crystal structure of mutant CJ YCEI protein (CJ-N182C) with mercuribenzoic acid guest structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5W37 PDB entry 5W37
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 3.2 M ammonium sulfate, 0.1 M Bis-Tris
Crystal Properties Matthews coefficient Solvent content 5.81 78.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 179.065 α = 90 b = 179.065 β = 90 c = 50.648 γ = 120
Symmetry Space Group P 6 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CMOS RDI CMOS_8M 2016-12-02 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 Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.704 38.769 98.8 0.109 0.112 0.025 20.7 18.3 13431 13431
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.704 2.85 92.2 1.201 1.201 1.286 0.441 0.6 7.4
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 5W37 2.7 38.77 12754 677 98.72 0.2059 0.2047 0.2054 0.2281 0.2288 RANDOM 71.559
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] 0.02 0.01 0.02 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.389 r_dihedral_angle_4_deg 27.057 r_dihedral_angle_3_deg 20.165 r_dihedral_angle_1_deg 7.653 r_angle_refined_deg 2.013 r_chiral_restr 0.116 r_bond_refined_d 0.062 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1319 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 38
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction REFMAC phasing