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Plant peptide hormone receptor complex H1C9S1
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 3.16 61.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.962 α = 90 b = 169.894 β = 96.744 c = 143.547 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 PILATUS 2M 2020-02-21 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 2.87 49.095 99.6 0.211 0.25 0.132 0.996 7.5 6.9 101500
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 2.87 2.92 1.684 1.995 1.061 0.54 6.7
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 2.872 49.095 101472 5185 99.621 0.239 0.2382 0.238 0.2622 0.2621 52.948
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] 8.384 -0.06 -3.518 -4.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.853 r_dihedral_angle_other_1_deg 32.195 r_dihedral_angle_4_deg 16.905 r_dihedral_angle_3_deg 15.797 r_lrange_it 7.988 r_lrange_other 7.988 r_dihedral_angle_other_3_deg 6.178 r_dihedral_angle_1_deg 5.725 r_scangle_it 4.139 r_scangle_other 4.139
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.853 r_dihedral_angle_other_1_deg 32.195 r_dihedral_angle_4_deg 16.905 r_dihedral_angle_3_deg 15.797 r_lrange_it 7.988 r_lrange_other 7.988 r_dihedral_angle_other_3_deg 6.178 r_dihedral_angle_1_deg 5.725 r_scangle_it 4.139 r_scangle_other 4.139 r_mcangle_it 3.788 r_mcangle_other 3.788 r_scbond_it 2.705 r_scbond_other 2.705 r_mcbond_it 2.333 r_mcbond_other 2.333 r_angle_refined_deg 1.308 r_angle_other_deg 1.287 r_symmetry_nbd_refined 0.225 r_symmetry_xyhbond_nbd_refined 0.221 r_nbd_other 0.208 r_symmetry_nbd_other 0.19 r_nbd_refined 0.18 r_ext_dist_refined_d 0.17 r_nbtor_refined 0.161 r_metal_ion_refined 0.152 r_xyhbond_nbd_refined 0.126 r_symmetry_nbtor_other 0.086 r_ncsr_local_group_7 0.076 r_ncsr_local_group_14 0.066 r_xyhbond_nbd_other 0.064 r_ncsr_local_group_2 0.059 r_ncsr_local_group_12 0.056 r_ncsr_local_group_9 0.054 r_ncsr_local_group_1 0.053 r_chiral_restr 0.052 r_ncsr_local_group_3 0.052 r_ncsr_local_group_13 0.052 r_ncsr_local_group_5 0.051 r_ncsr_local_group_11 0.049 r_ncsr_local_group_10 0.047 r_ncsr_local_group_8 0.046 r_ncsr_local_group_6 0.045 r_ncsr_local_group_4 0.043 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_symmetry_xyhbond_nbd_other 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 23182 Nucleic Acid Atoms Solvent Atoms 47 Heterogen Atoms 1147
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction Coot model building