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Crystal structure of the abscisic receptor PYL2 in complex with pyrabactin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KB0 PDB entry 3KB0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 2M ammonium sulfate, 0.1M HEPES, 10 % glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.52 51.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.268 α = 90 b = 105.074 β = 90 c = 185.076 γ = 90
Symmetry Space Group C 2 2 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 CCD MARMOSAIC 300 mm CCD 2009-11-20 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 1.85 30 93.6 0.1 32.2 12.7 47822 51071 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 3KB0 1.85 29.51 52150 46913 3668 96.99 0.19736 0.19449 0.2017 0.23479 0.2378 RANDOM 32.201
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] -0.92 1.31 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.98 r_dihedral_angle_4_deg 15.837 r_sphericity_free 13.861 r_dihedral_angle_3_deg 13.033 r_sphericity_bonded 8.055 r_scangle_it 5.446 r_dihedral_angle_1_deg 4.81 r_scbond_it 3.549 r_mcangle_it 3.262 r_rigid_bond_restr 2.045
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.98 r_dihedral_angle_4_deg 15.837 r_sphericity_free 13.861 r_dihedral_angle_3_deg 13.033 r_sphericity_bonded 8.055 r_scangle_it 5.446 r_dihedral_angle_1_deg 4.81 r_scbond_it 3.549 r_mcangle_it 3.262 r_rigid_bond_restr 2.045 r_mcbond_it 1.92 r_angle_refined_deg 1.493 r_angle_other_deg 0.937 r_mcbond_other 0.615 r_chiral_restr 0.099 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4193 Nucleic Acid Atoms Solvent Atoms 327 Heterogen Atoms 96
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling