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Crystal structure of arabidopsis ADAL complexed with IMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6J23
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 0.2 M Ammonium acetate, 0.1 M Tris pH 8.5, 25% w/v Polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 2.26 45.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.63 α = 90 b = 81.921 β = 90 c = 87.15 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M 2019-01-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.97849 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.82 50 96.8 11.8 10.6 32042
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.82 1.92 0.135
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 6J23 1.82 30 30324 1640 96.23 0.18959 0.18748 0.22896 0.2562 RANDOM 21.786
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] 0.05 -0.4 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.821 r_dihedral_angle_3_deg 16.138 r_dihedral_angle_4_deg 15.907 r_dihedral_angle_1_deg 6.881 r_long_range_B_refined 6.168 r_long_range_B_other 6.143 r_scangle_other 4.081 r_mcangle_other 2.739 r_mcangle_it 2.738 r_scbond_it 2.611
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.821 r_dihedral_angle_3_deg 16.138 r_dihedral_angle_4_deg 15.907 r_dihedral_angle_1_deg 6.881 r_long_range_B_refined 6.168 r_long_range_B_other 6.143 r_scangle_other 4.081 r_mcangle_other 2.739 r_mcangle_it 2.738 r_scbond_it 2.611 r_scbond_other 2.611 r_mcbond_it 1.884 r_mcbond_other 1.881 r_angle_refined_deg 1.661 r_angle_other_deg 1.443 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 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 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 2710 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing