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Fructose-6-phosphate aldolase Q59E Y131F from E.coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L6W PDB entry 1L6W, pentamer
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 0.1M Tris pH 8.5, 0.2M NaCl, 21% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.52 51.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.44 α = 90 b = 133 β = 92.37 c = 102.27 γ = 90
Symmetry Space Group P 1 21 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 315r 2013-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9763 ESRF ID14-4
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 1.75 88.44 99.6 0.09 9.5 3.3 236188 236188
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 1.75 1.78 98.5 0.7 1.8 11527
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 1L6W, pentamer 1.75 88.44 224227 224227 11921 99.53 0.18003 0.18003 0.17919 0.1893 0.19585 0.2051 RANDOM 18.152
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] 1.35 0.48 -0.62 -0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.907 r_dihedral_angle_4_deg 13.562 r_dihedral_angle_3_deg 11.373 r_dihedral_angle_1_deg 5.346 r_long_range_B_refined 4.474 r_long_range_B_other 4.316 r_scangle_other 2.93 r_scbond_it 1.902 r_scbond_other 1.872 r_mcangle_it 1.758
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.907 r_dihedral_angle_4_deg 13.562 r_dihedral_angle_3_deg 11.373 r_dihedral_angle_1_deg 5.346 r_long_range_B_refined 4.474 r_long_range_B_other 4.316 r_scangle_other 2.93 r_scbond_it 1.902 r_scbond_other 1.872 r_mcangle_it 1.758 r_mcangle_other 1.758 r_angle_refined_deg 1.318 r_mcbond_it 1.146 r_mcbond_other 1.142 r_angle_other_deg 1.095 r_chiral_restr 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.004 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 16140 Nucleic Acid Atoms Solvent Atoms 1298 Heterogen Atoms 140
Software Software Software Name Purpose MxCuBE data collection PHASER phasing REFMAC refinement XDS data reduction Aimless data scaling