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Mechanism of Auxin Perception by the TIR1 Ubiqutin Ligase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2P1M PDB ENTRY 2P1M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 100 mM BTP, 10% 14% PEG 20,000, 200 mM NaCl, and 5 mM DTT, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.04 59.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.665 α = 90 b = 82.745 β = 100.4 c = 125.791 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC QUANTUM 315 2006-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.0000 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 99.6 0.075 15.5 4.2 61845 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.5 2.59 98.3 0.405 4.2
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 PDB ENTRY 2P1M 2.5 50 61845 3302 90.51 0.19863 0.19458 0.2356 0.27405 0.2414 RANDOM 7.709
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] 0.82 1.49 1.19 -1.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.506 r_dihedral_angle_4_deg 24.877 r_dihedral_angle_3_deg 24.518 r_dihedral_angle_1_deg 12.245 r_scangle_it 11.919 r_scbond_it 11.017 r_mcangle_it 5.968 r_mcbond_it 5.213 r_angle_refined_deg 2.793 r_chiral_restr 0.719
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.506 r_dihedral_angle_4_deg 24.877 r_dihedral_angle_3_deg 24.518 r_dihedral_angle_1_deg 12.245 r_scangle_it 11.919 r_scbond_it 11.017 r_mcangle_it 5.968 r_mcbond_it 5.213 r_angle_refined_deg 2.793 r_chiral_restr 0.719 r_nbtor_refined 0.359 r_nbd_refined 0.309 r_symmetry_vdw_refined 0.305 r_xyhbond_nbd_refined 0.219 r_symmetry_hbond_refined 0.189 r_bond_refined_d 0.029 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11250 Nucleic Acid Atoms Solvent Atoms 524 Heterogen Atoms 98
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing