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Complex of rice blast (Magnaporthe oryzae) effector protein APikL2A with host target sHMA25 from Setaria italica
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5A6W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 Morpheus well H10 Molecular Dimensions. 0.1 M Amino acids, 0.1 M Buffer System 3, 50% v/v Precipitant Mix 2
Crystal Properties Matthews coefficient Solvent content 2.42 49.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.208 α = 90 b = 46.684 β = 90 c = 88.953 γ = 90
Symmetry Space Group P 21 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 100 PIXEL DECTRIS PILATUS3 6M 2017-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.8 41.039 100 0.058 0.99 21.5 13 18505
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.84 100 0.798 12.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5A6w 1.8 41.04 17641 813 99.96 0.2012 0.1991 0.2445 0.2617 RANDOM 44.666
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] -0.48 -1.04 1.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.705 r_dihedral_angle_4_deg 22.162 r_dihedral_angle_3_deg 13.764 r_dihedral_angle_1_deg 6.615 r_angle_refined_deg 1.592 r_angle_other_deg 1.384 r_chiral_restr 0.07 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.705 r_dihedral_angle_4_deg 22.162 r_dihedral_angle_3_deg 13.764 r_dihedral_angle_1_deg 6.615 r_angle_refined_deg 1.592 r_angle_other_deg 1.384 r_chiral_restr 0.07 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1321 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 12
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction autoPROC data reduction PHASER phasing