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Plant peptide hormone receptor complex H1L3S1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5IXO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 291 0.2 M magnesium chloride
0.1 M HEPES pH 7.5
25 % w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 3.05 59.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.838 α = 90 b = 144.501 β = 90 c = 168.432 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 PILATUS 2M 2019-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.000029 SLS X06DA
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 2.7 48.17 99.9 0.316 0.35 0.149 0.997 5.7 10.3 60957
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 2.7 2.77 1.965 2.164 0.9 0.821 10.9
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5IXO 2.7 47.657 60863 3065 99.82 0.354 0.3526 0.3467 0.3708 0.3653 48.532
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] 7.128 -0.13 -6.998
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.963 r_dihedral_angle_other_1_deg 20.38 r_dihedral_angle_3_deg 14.426 r_dihedral_angle_4_deg 14.004 r_lrange_it 8.455 r_lrange_other 8.455 r_dihedral_angle_1_deg 5.583 r_mcangle_it 3.031 r_mcangle_other 3.031 r_scangle_it 2.599
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.963 r_dihedral_angle_other_1_deg 20.38 r_dihedral_angle_3_deg 14.426 r_dihedral_angle_4_deg 14.004 r_lrange_it 8.455 r_lrange_other 8.455 r_dihedral_angle_1_deg 5.583 r_mcangle_it 3.031 r_mcangle_other 3.031 r_scangle_it 2.599 r_scangle_other 2.599 r_mcbond_other 1.747 r_mcbond_it 1.746 r_scbond_it 1.573 r_scbond_other 1.573 r_angle_refined_deg 1.366 r_angle_other_deg 1.327 r_nbd_other 0.235 r_symmetry_nbd_other 0.192 r_nbd_refined 0.183 r_symmetry_nbd_refined 0.162 r_nbtor_refined 0.159 r_xyhbond_nbd_refined 0.131 r_symmetry_xyhbond_nbd_refined 0.127 r_symmetry_nbtor_other 0.083 r_ext_dist_refined_d 0.076 r_ncsr_local_group_1 0.073 r_ncsr_local_group_2 0.07 r_ncsr_local_group_3 0.056 r_symmetry_xyhbond_nbd_other 0.055 r_chiral_restr 0.054 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11587 Nucleic Acid Atoms Solvent Atoms 23 Heterogen Atoms 428
Software Software Software Name Purpose REFMAC refinement Aimless data scaling xia2 data reduction Coot model building PHASER phasing