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Crystal structure of the Arabidopsis receptor kinase HAESA LRR ectdomain in complex with the peptide hormone IDA.
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 4 298 19% PEG 3350, 0.2 M MgCl2, 0.1 M citric acid pH 4.0
Crystal Properties Matthews coefficient Solvent content 2.68 54.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 148.282 α = 90 b = 148.282 β = 90 c = 57.93 γ = 120
Symmetry Space Group P 31 2 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 PILATUS3 6M 2014-04-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000010 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 1.86 128.42 99.8 0.055 1 16.7 20.3 61813 -3 80
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 1.86 1.97 98.6 2 19.1
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 FOURIER SYNTHESIS THROUGHOUT 5IXO 1.86 128.42 58551 2988 99.99 0.18415 0.18293 0.1901 0.20729 0.2146 RANDOM 79.083
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] 0.43 0.22 0.43 -1.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.795 r_dihedral_angle_4_deg 17.233 r_dihedral_angle_3_deg 12.744 r_dihedral_angle_1_deg 6.349 r_long_range_B_refined 6.205 r_long_range_B_other 6.205 r_scangle_other 5.534 r_scbond_it 3.852 r_scbond_other 3.851 r_mcangle_it 3.008
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.795 r_dihedral_angle_4_deg 17.233 r_dihedral_angle_3_deg 12.744 r_dihedral_angle_1_deg 6.349 r_long_range_B_refined 6.205 r_long_range_B_other 6.205 r_scangle_other 5.534 r_scbond_it 3.852 r_scbond_other 3.851 r_mcangle_it 3.008 r_mcangle_other 3.008 r_mcbond_it 2.563 r_mcbond_other 2.563 r_angle_refined_deg 1.691 r_angle_other_deg 1.12 r_chiral_restr 0.096 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 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 4611 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms 182
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC refinement