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The mechanism of GM-CSF inhibition by human GM-CSF auto-antibodies
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JIX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 283.15 0.16 M Calcium acetate, 14.4% PEG8000, 0.08 M Sodium Cacodylate pH 6.5 and 20% glycerol
Crystal Properties Matthews coefficient Solvent content 3.24 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.437 α = 91.17 b = 100.535 β = 117.96 c = 101.866 γ = 108.65
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 ADSC QUANTUM 315r 2014-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.954 Australian Synchrotron MX2
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 2.6 50.01 98.7 0.246 0.281 0.134 0.967 39 4.1 94668
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.64 93.4 0.828 0.344 2.7
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 2JIX 2.6 50.01 89368 4789 98.64 0.232 0.2303 0.2344 0.2644 0.2657 RANDOM 44.751
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] -1.1 0.38 0.54 1.08 -0.77 -0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.064 r_dihedral_angle_4_deg 19.986 r_dihedral_angle_3_deg 16.919 r_dihedral_angle_1_deg 7.079 r_angle_refined_deg 1.675 r_angle_other_deg 1.004 r_chiral_restr 0.094 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.006
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.064 r_dihedral_angle_4_deg 19.986 r_dihedral_angle_3_deg 16.919 r_dihedral_angle_1_deg 7.079 r_angle_refined_deg 1.675 r_angle_other_deg 1.004 r_chiral_restr 0.094 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16012 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms
Software Software Software Name Purpose Aimless data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction