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Heavy metal associated domain of NLR-type immune receptor Pikp1 from rice (Oryza sativa)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 PROTEIN WAS CRYSTALLLIZED WITH 0.1M MIB BUFFER, PH 5.0 AND 25% PEG 1500
Crystal Properties Matthews coefficient Solvent content 3.2 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.65 α = 90 b = 54.65 β = 90 c = 235.22 γ = 120
Symmetry Space Group P 65 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 100 PIXEL DECTRIS PIXEL 2014-04-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 2.1 47.33 100 0.08 32.3 45 12356 2
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 2.1 2.15 99.9 1.17 4.6 46.8
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 SAD THROUGHOUT NONE 2.1 47.33 12356 691 99.98 0.20354 0.20201 0.2084 0.22904 0.2327 RANDOM 54.756
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] 0.28 0.14 0.28 -0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.083 r_dihedral_angle_3_deg 17.14 r_dihedral_angle_4_deg 14.846 r_dihedral_angle_1_deg 6.034 r_scbond_it 3.839 r_mcangle_it 3.401 r_mcbond_other 2.306 r_mcbond_it 2.304 r_angle_refined_deg 1.792 r_angle_other_deg 0.815
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.083 r_dihedral_angle_3_deg 17.14 r_dihedral_angle_4_deg 14.846 r_dihedral_angle_1_deg 6.034 r_scbond_it 3.839 r_mcangle_it 3.401 r_mcbond_other 2.306 r_mcbond_it 2.304 r_angle_refined_deg 1.792 r_angle_other_deg 0.815 r_chiral_restr 0.101 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1063 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement AutoSol phasing