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Crystal structure of the Arabidopsis receptor kinase HAESA in complex with the peptide hormone IDA and the co-receptor SERK1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5IXO 5IXO, 4LSC experimental model PDB 4LSC 5IXO, 4LSC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 298 18% PEG 8,000, 0.2 M MgCl2, 0.1 M citric acid pH 4.0
Crystal Properties Matthews coefficient Solvent content 2.81 56.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.507 α = 90 b = 100.456 β = 90 c = 142.759 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 PILATUS3 6M 2014-08-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000020 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 2.43 50 99.4 0.107 0.999 16.1 9.8 41023 -3 59.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.43 2.57 96.4 1.96 9.3
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 MOLECULAR REPLACEMENT THROUGHOUT 5IXO, 4LSC 2.43 47.38 38969 2051 99.38 0.19478 0.19266 0.1966 0.23435 0.2329 RANDOM 59.535
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] -2.74 -2.1 4.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.695 r_dihedral_angle_4_deg 16.808 r_dihedral_angle_3_deg 13.116 r_dihedral_angle_1_deg 6.066 r_long_range_B_other 6.025 r_long_range_B_refined 6.024 r_scangle_other 2.564 r_scbond_it 1.557 r_scbond_other 1.556 r_mcangle_it 1.514
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.695 r_dihedral_angle_4_deg 16.808 r_dihedral_angle_3_deg 13.116 r_dihedral_angle_1_deg 6.066 r_long_range_B_other 6.025 r_long_range_B_refined 6.024 r_scangle_other 2.564 r_scbond_it 1.557 r_scbond_other 1.556 r_mcangle_it 1.514 r_mcangle_other 1.514 r_angle_refined_deg 1.41 r_angle_other_deg 1.038 r_mcbond_it 0.918 r_mcbond_other 0.917 r_chiral_restr 0.076 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6066 Nucleic Acid Atoms Solvent Atoms 135 Heterogen Atoms 176
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing