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Plant peptide hormone receptor complex H1LS1
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 K/Na tartrate
20% w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 3.34 63.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.332 α = 90 b = 145.878 β = 90 c = 169.539 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 2019-09-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.000000 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 2.31 110.604 100 0.319 0.332 0.09 0.998 8.3 26 106364
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 2.31 2.35 3.518 3.652 0.981 0.703 26.7
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 (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 2.31 110.58 106247 5326 99.984 0.256 0.2546 0.246 0.275 0.2648 42.702
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] 6.324 -2.049 -4.274
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.441 r_dihedral_angle_4_deg 17.709 r_dihedral_angle_other_1_deg 17.146 r_dihedral_angle_3_deg 14.653 r_lrange_it 8.16 r_lrange_other 8.159 r_scangle_it 5.918 r_scangle_other 5.918 r_dihedral_angle_1_deg 5.242 r_dihedral_angle_other_3_deg 4.957
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.441 r_dihedral_angle_4_deg 17.709 r_dihedral_angle_other_1_deg 17.146 r_dihedral_angle_3_deg 14.653 r_lrange_it 8.16 r_lrange_other 8.159 r_scangle_it 5.918 r_scangle_other 5.918 r_dihedral_angle_1_deg 5.242 r_dihedral_angle_other_3_deg 4.957 r_mcangle_it 4.79 r_mcangle_other 4.79 r_scbond_it 3.896 r_scbond_other 3.895 r_mcbond_it 3.163 r_mcbond_other 3.163 r_angle_other_deg 1.28 r_angle_refined_deg 1.25 r_symmetry_xyhbond_nbd_refined 0.203 r_symmetry_nbd_other 0.183 r_metal_ion_refined 0.179 r_nbd_refined 0.176 r_nbd_other 0.165 r_nbtor_refined 0.155 r_symmetry_nbd_refined 0.155 r_xyhbond_nbd_refined 0.133 r_ncsr_local_group_3 0.117 r_ext_dist_refined_d 0.111 r_symmetry_nbtor_other 0.077 r_ncsr_local_group_2 0.061 r_ncsr_local_group_1 0.06 r_chiral_restr 0.056 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11809 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms 624
Software Software Software Name Purpose REFMAC refinement REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing