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Complex of rice blast (Magnaporthe oryzae) effector protein APikL2F with the host target sHMA94 from Setaria italica
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7NLJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293.15 0.2 M lithium sulfate, 0.1 M BIS-TRIS pH 6.5, 25 % PEG3350
Crystal Properties Matthews coefficient Solvent content 2.35 47.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.444 α = 90 b = 222.479 β = 90 c = 102.015 γ = 90
Symmetry Space Group C 2 2 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 2019-10-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.91188 Diamond I03
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 2.3 109.51 99.9 0.087 0.999 10.6 6.6 63610
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 2.3 2.36 99.8 0.756
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 7NLJ 2.3 109.51 60412 3170 99.88 0.2092 0.2074 0.2425 0.2349 RANDOM 58.393
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] -2.56 -1.52 4.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.858 r_dihedral_angle_3_deg 16.869 r_dihedral_angle_4_deg 14.795 r_dihedral_angle_1_deg 7.327 r_angle_refined_deg 1.612 r_angle_other_deg 1.317 r_chiral_restr 0.072 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.858 r_dihedral_angle_3_deg 16.869 r_dihedral_angle_4_deg 14.795 r_dihedral_angle_1_deg 7.327 r_angle_refined_deg 1.612 r_angle_other_deg 1.317 r_chiral_restr 0.072 r_bond_refined_d 0.013 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 10600 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 92
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction autoPROC data reduction PHASER phasing