☰ Navigation Tabs
Crystal structure of an acetolactate decarboxylase from Klebsiella pneumoniae
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BT2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20% (w/v) PEG-3000, 0.1M citrate, pH 5.5 and 12% w/v Polyethylene glycol 3,350, 0.1M sodium malonate, pH 6.0
Crystal Properties Matthews coefficient Solvent content 1.8 31.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.279 α = 90 b = 55.279 β = 90 c = 119.532 γ = 120
Symmetry Space Group P 31 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 PIXEL DECTRIS PILATUS 6M 2018-05-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.9785 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 1.8 50 100 0.021 27.8 19 20250
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.83 100 0.09 9.5 15
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 4BT2 1.8 47.87 19193 1006 99.88 0.17497 0.17272 0.1824 0.21914 0.2325 RANDOM 21.88
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 -0.03 -0.05 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.553 r_dihedral_angle_4_deg 18.776 r_dihedral_angle_3_deg 13.034 r_dihedral_angle_1_deg 6.926 r_long_range_B_refined 5.3 r_long_range_B_other 5.158 r_scangle_other 1.774 r_angle_refined_deg 1.563 r_angle_other_deg 1.388 r_mcangle_it 1.168
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.553 r_dihedral_angle_4_deg 18.776 r_dihedral_angle_3_deg 13.034 r_dihedral_angle_1_deg 6.926 r_long_range_B_refined 5.3 r_long_range_B_other 5.158 r_scangle_other 1.774 r_angle_refined_deg 1.563 r_angle_other_deg 1.388 r_mcangle_it 1.168 r_mcangle_other 1.168 r_scbond_it 1.126 r_scbond_other 1.125 r_mcbond_it 0.717 r_mcbond_other 0.713 r_chiral_restr 0.066 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 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 1750 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing