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Mechanism of Auxin Perception by the TIR1 ubiquitin ligase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P2M PDB ENTRY 1P2M
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, 5 mM DTT, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.96 58.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.971 α = 90 b = 82.456 β = 103.84 c = 125.32 γ = 90
Symmetry Space Group C 1 2 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 2006-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.0000 ALS 8.2.1
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 1.62 50 99 0.066 27.2 3.7 70515 70515 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.62 1.68
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1P2M 1.9 50 70515 3736 93.83 0.18618 0.18382 0.23097 0.2179 RANDOM 20.472
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] 0.72 0.52 1.08 -1.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.777 r_dihedral_angle_4_deg 19.46 r_dihedral_angle_3_deg 17.231 r_dihedral_angle_1_deg 5.742 r_sphericity_free 5.531 r_scangle_it 4.225 r_sphericity_bonded 3.488 r_scbond_it 2.816 r_rigid_bond_restr 1.809 r_mcangle_it 1.742
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.777 r_dihedral_angle_4_deg 19.46 r_dihedral_angle_3_deg 17.231 r_dihedral_angle_1_deg 5.742 r_sphericity_free 5.531 r_scangle_it 4.225 r_sphericity_bonded 3.488 r_scbond_it 2.816 r_rigid_bond_restr 1.809 r_mcangle_it 1.742 r_angle_refined_deg 1.641 r_mcbond_it 1.202 r_nbtor_refined 0.313 r_nbd_refined 0.223 r_symmetry_hbond_refined 0.193 r_symmetry_vdw_refined 0.189 r_xyhbond_nbd_refined 0.182 r_chiral_restr 0.129 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5627 Nucleic Acid Atoms Solvent Atoms 631 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing