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Crystal structure of P1M mutant of Macrophage Migration Inhibitory Factor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 2 M ammonium Sulphate, 3% 2-propanol, 20 mM Tris.HCl, pH 7.5
Crystal Properties Matthews coefficient Solvent content 3.72 66.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.959 α = 90 b = 95.959 β = 90 c = 104.115 γ = 120
Symmetry Space Group P 31 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 93 IMAGE PLATE RIGAKU RAXIS IV++ 2014-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 1.9 50 99.3 0.071 20.1 5.1 43923
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 1.9 1.93 99.5 0.234 5 2192
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.9 47.98 43810 2065 99.11 0.2263 0.2251 0.2307 0.2512 0.2547 RANDOM 19.267
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.728 r_dihedral_angle_4_deg 22.759 r_dihedral_angle_3_deg 11.374 r_dihedral_angle_1_deg 5.752 r_angle_other_deg 3.705 r_mcangle_it 2.257 r_angle_refined_deg 1.826 r_mcbond_it 1.664 r_mcbond_other 1.66 r_chiral_restr 0.114
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.728 r_dihedral_angle_4_deg 22.759 r_dihedral_angle_3_deg 11.374 r_dihedral_angle_1_deg 5.752 r_angle_other_deg 3.705 r_mcangle_it 2.257 r_angle_refined_deg 1.826 r_mcbond_it 1.664 r_mcbond_other 1.66 r_chiral_restr 0.114 r_bond_refined_d 0.021 r_gen_planes_other 0.021 r_gen_planes_refined 0.011 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2491 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 27
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling PHASER phasing