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Fructose-6-phosphate aldolase A from E.coli soaked in acetylacetone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4RXF PDB ENTRY 4RXF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293.2 25% PEG3350, 0.1M Tris-HCl pH 8.5, 0.2M LiCl , VAPOR DIFFUSION, HANGING DROP, temperature 293.2K
Crystal Properties Matthews coefficient Solvent content 2.45 49.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.485 α = 90 b = 130.709 β = 90.21 c = 355.18 γ = 90
Symmetry Space Group I 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 PIXEL DECTRIS PILATUS 6M 2014-02-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 2.242 48.4 94.8 0.08 16.8 3.2 232071 232071
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 2.242 2.29 95.6 0.603 2.6 10244
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 4RXF 2.242 48.39 205760 205760 10991 98.74 0.23324 0.23324 0.23229 0.2774 0.25101 0.303 RANDOM 43.374
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] 10.37 3.89 9.36 -19.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.922 r_dihedral_angle_3_deg 14.006 r_dihedral_angle_4_deg 8.472 r_long_range_B_refined 6.848 r_long_range_B_other 6.824 r_dihedral_angle_1_deg 5.335 r_mcangle_it 4.65 r_mcangle_other 4.65 r_scangle_other 4.48 r_mcbond_it 3.196
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.922 r_dihedral_angle_3_deg 14.006 r_dihedral_angle_4_deg 8.472 r_long_range_B_refined 6.848 r_long_range_B_other 6.824 r_dihedral_angle_1_deg 5.335 r_mcangle_it 4.65 r_mcangle_other 4.65 r_scangle_other 4.48 r_mcbond_it 3.196 r_mcbond_other 3.196 r_scbond_it 2.978 r_scbond_other 2.978 r_angle_refined_deg 1.142 r_angle_other_deg 1.062 r_chiral_restr 0.062 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.006 r_gen_planes_other 0.006 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 32300 Nucleic Acid Atoms Solvent Atoms 745 Heterogen Atoms 30
Software Software Software Name Purpose ProDC data collection PHASER phasing REFMAC refinement XDS data reduction Aimless data scaling