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Complex of blast (Magnaporthe oryzae) effector PWT7 with the engineered integrated HMA domain of Rwt7 from wheat
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M Tris-HCl pH 8.5, 25% (w/v) PEG 6000
Crystal Properties Matthews coefficient Solvent content 2.37 48.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.524 α = 90 b = 66.174 β = 104.85 c = 65.747 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER2 XE 16M 2025-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.750006 Diamond I04
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 0.99 66.17 100 0.063 0.066 0.017 1 15.2 13.7 186021
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.99 1.01 100 1.66 1.723 0.461 0.817 13.7
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 0.99 63.63 176527 9457 100 0.14087 0.14025 0.1395 0.15265 0.1518 RANDOM 14.631
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] 0.26 -0.14 -0.12 -0.06
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 11.824 r_dihedral_angle_3_deg 10.502 r_long_range_B_other 10.2 r_dihedral_angle_2_deg 10.108 r_dihedral_angle_1_deg 6.552 r_scangle_other 5.445 r_rigid_bond_restr 4.201 r_scbond_it 3.925 r_scbond_other 3.924 r_mcangle_other 3.749
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 11.824 r_dihedral_angle_3_deg 10.502 r_long_range_B_other 10.2 r_dihedral_angle_2_deg 10.108 r_dihedral_angle_1_deg 6.552 r_scangle_other 5.445 r_rigid_bond_restr 4.201 r_scbond_it 3.925 r_scbond_other 3.924 r_mcangle_other 3.749 r_mcangle_it 3.748 r_mcbond_it 2.572 r_mcbond_other 2.563 r_angle_refined_deg 1.948 r_angle_other_deg 0.662 r_chiral_restr 0.106 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2440 Nucleic Acid Atoms Solvent Atoms 477 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Aimless data scaling DIALS data reduction PHASER phasing PDB_EXTRACT data extraction