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Crystal structure of Plasmodium falciparum MIF in complex with 3-[(2-methyl-6-phenylpyridin-4-yl)oxy]phenol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 2 M ammonium sulphate, 0.1 M NaCl, 0.1 M Tris.HCl pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.01 38.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.036 α = 90 b = 79.75 β = 90 c = 97.082 γ = 90
Symmetry Space Group I 2 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 93 IMAGE PLATE RIGAKU RAXIS IV++ 2013-09-14 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 3.02 50 96.8 0.078 13.5 5 6087
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 3.02 3.07 98.7 0.301 5.1 312
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 3.02 25.02 6077 280 96.16 0.2505 0.2467 0.2604 0.3243 0.3216 RANDOM 48.283
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] -0.03 0.17 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.129 r_dihedral_angle_3_deg 15.082 r_dihedral_angle_4_deg 11.57 r_dihedral_angle_1_deg 7.222 r_mcangle_it 5.814 r_mcbond_it 3.659 r_mcbond_other 3.655 r_angle_refined_deg 1.467 r_angle_other_deg 1.144 r_chiral_restr 0.073
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.129 r_dihedral_angle_3_deg 15.082 r_dihedral_angle_4_deg 11.57 r_dihedral_angle_1_deg 7.222 r_mcangle_it 5.814 r_mcbond_it 3.659 r_mcbond_other 3.655 r_angle_refined_deg 1.467 r_angle_other_deg 1.144 r_chiral_restr 0.073 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.005 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2091 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 21
Software Software Software Name Purpose HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing DENZO data reduction SCALEPACK data scaling