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Crystal structure of pyrabactin-bound abscisic acid receptor PYL1 in complex with type 2C protein phosphatase ABI1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KDJ PDB entry 3KDJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 0.2M ammonium sulphate, 0.1M BisTris, 22% PEG 3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.19 43.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.978 α = 115.78 b = 66.71 β = 95.43 c = 72.598 γ = 105.6
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 MARMOSAIC 300 mm CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.00 APS 21-ID-D
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 2.15 30 92 0.098 49.1 13.4 50236 46283 2 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB entry 3KDJ 2.15 29.62 50236 46283 3617 96.99 0.21301 0.2103 0.2173 0.24751 0.2503 RANDOM 40.935
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] 0.28 -1.47 -2.38 0.11 1.22 -0.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.28 r_dihedral_angle_4_deg 20.253 r_dihedral_angle_3_deg 15.062 r_sphericity_free 14.877 r_sphericity_bonded 5.583 r_scangle_it 5.425 r_dihedral_angle_1_deg 4.677 r_scbond_it 3.638 r_mcangle_it 3.306 r_rigid_bond_restr 2.702
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.28 r_dihedral_angle_4_deg 20.253 r_dihedral_angle_3_deg 15.062 r_sphericity_free 14.877 r_sphericity_bonded 5.583 r_scangle_it 5.425 r_dihedral_angle_1_deg 4.677 r_scbond_it 3.638 r_mcangle_it 3.306 r_rigid_bond_restr 2.702 r_mcbond_it 1.869 r_angle_refined_deg 1.552 r_angle_other_deg 0.909 r_mcbond_other 0.771 r_chiral_restr 0.092 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6956 Nucleic Acid Atoms Solvent Atoms 180 Heterogen Atoms 48
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling