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Crystal structure of the STRUBBELIG-RECEPTOR FAMILY 6 (SRF6) ectodomain from Arabidopsis thaliana
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 298 25% PEG3350, 0.2M NaCl, 0.1M citrate pH 4.0
Crystal Properties Matthews coefficient Solvent content 2.23 44.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.72 α = 90 b = 76.72 β = 90 c = 86.43 γ = 90
Symmetry Space Group P 43 21 2
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 2018-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.977944 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.5 45.95 99.9 0.174 0.999 13.9 13.6 39355 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.59 99.3 2.58 0.508 1.11 12.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.501 45.948 41806 2091 99.926 0.164 0.1621 0.1762 0.195 0.203 RANDOM 18.124
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] 0.77 0.77 -1.539
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.892 r_dihedral_angle_3_deg 11 r_dihedral_angle_2_deg 9.84 r_dihedral_angle_1_deg 6.967 r_lrange_it 6.022 r_lrange_other 6.022 r_scangle_it 4.495 r_scangle_other 4.493 r_scbond_it 3.018 r_scbond_other 2.995
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.892 r_dihedral_angle_3_deg 11 r_dihedral_angle_2_deg 9.84 r_dihedral_angle_1_deg 6.967 r_lrange_it 6.022 r_lrange_other 6.022 r_scangle_it 4.495 r_scangle_other 4.493 r_scbond_it 3.018 r_scbond_other 2.995 r_mcangle_it 2.556 r_mcangle_other 2.555 r_mcbond_it 1.815 r_mcbond_other 1.815 r_angle_refined_deg 1.798 r_angle_other_deg 0.632 r_metal_ion_refined 0.326 r_nbd_refined 0.282 r_symmetry_nbd_refined 0.271 r_symmetry_xyhbond_nbd_refined 0.213 r_symmetry_nbd_other 0.19 r_nbd_other 0.189 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.172 r_symmetry_metal_ion_refined 0.101 r_chiral_restr 0.093 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1695 Nucleic Acid Atoms Solvent Atoms 237 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing