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Crystal Structure of Arabidopsis thaliana Bor1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4YZF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 100mM sodium citrate pH 5.8, 300mM lithium sulfate, 10.5% PEG3350
Crystal Properties Matthews coefficient Solvent content 5.22 76.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 184.557 α = 90 b = 184.557 β = 90 c = 89.826 γ = 90
Symmetry Space Group P 42 21 2
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 315r 2016-04-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1
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 4.1 20.07 96.3 0.176 19.3 12 11319
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 4.1 4.25 87.6 0.631 1.1 7.7
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 4YZF 4.11 20.07 11319 565 94.75 0.3602 0.35867 0.3598 0.39149 0.3923 RANDOM 257.892
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] -4.74 -4.74 9.48
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 68.255 r_long_range_B_other 68.255 r_mcangle_it 49.817 r_mcangle_other 49.805 r_scangle_other 47.919 r_dihedral_angle_2_deg 35.688 r_mcbond_it 32.127 r_mcbond_other 32.095 r_scbond_it 31.034 r_scbond_other 31.023
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 68.255 r_long_range_B_other 68.255 r_mcangle_it 49.817 r_mcangle_other 49.805 r_scangle_other 47.919 r_dihedral_angle_2_deg 35.688 r_mcbond_it 32.127 r_mcbond_other 32.095 r_scbond_it 31.034 r_scbond_other 31.023 r_dihedral_angle_3_deg 16.769 r_dihedral_angle_4_deg 13.686 r_dihedral_angle_1_deg 7.381 r_angle_other_deg 3.677 r_angle_refined_deg 1.384 r_chiral_restr 0.076 r_bond_refined_d 0.011 r_gen_planes_other 0.011 r_gen_planes_refined 0.006 r_bond_other_d 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 2875 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing