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Crystal structure of the abscisic acid receptor PYR1 in complex with an antagonist
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3WG8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1 M MES, pH 6.5, 16% PEG 3000
Crystal Properties Matthews coefficient Solvent content 1.89 34.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.203 α = 90 b = 38.203 β = 90 c = 263.349 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 270 2016-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.5 50 98.9 0.114 20.7 3.3 12089
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.54 93.7 0.536 2.8
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 3WG8 2.5 35 12089 647 98.59 0.25758 0.25579 0.2554 0.29395 0.3 RANDOM 45.939
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] 1.61 1.61 -3.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.069 r_dihedral_angle_4_deg 18.27 r_dihedral_angle_3_deg 15.717 r_dihedral_angle_1_deg 6.003 r_long_range_B_refined 5.037 r_long_range_B_other 5.036 r_mcangle_it 3.043 r_mcangle_other 3.043 r_scangle_other 2.48 r_mcbond_other 1.702
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.069 r_dihedral_angle_4_deg 18.27 r_dihedral_angle_3_deg 15.717 r_dihedral_angle_1_deg 6.003 r_long_range_B_refined 5.037 r_long_range_B_other 5.036 r_mcangle_it 3.043 r_mcangle_other 3.043 r_scangle_other 2.48 r_mcbond_other 1.702 r_mcbond_it 1.701 r_scbond_it 1.412 r_scbond_other 1.412 r_angle_refined_deg 1.326 r_angle_other_deg 0.966 r_chiral_restr 0.064 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.003 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 2743 Nucleic Acid Atoms Solvent Atoms 18 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing