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Fructose-6-phosphate aldolase Y131F from E.coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L6W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293.2 19% PEG3350, 0.1M HEPES pH 8, 0.2M LiCl, VAPOR DIFFUSION, HANGING DROP, temperature 293.2K
Crystal Properties Matthews coefficient Solvent content 2.52 51.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.4 α = 90 b = 133.602 β = 92.5 c = 101.59 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 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 0.91844 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 2.4 101.49 99.5 0.105 12.7 5.8 91562 91562
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 2.4 2.44 98.7 0.465 3.7 6
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 (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 1L6W 2.4 101.49 86941 86941 4612 99.48 0.19595 0.19392 0.2014 0.2347 0.2402 RANDOM 27.08
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] 1.84 0.44 -1.54 -0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.439 r_dihedral_angle_3_deg 14.033 r_dihedral_angle_4_deg 11.605 r_dihedral_angle_1_deg 5.476 r_long_range_B_refined 3.767 r_long_range_B_other 3.767 r_scangle_other 2.438 r_mcangle_other 1.886 r_mcangle_it 1.867 r_scbond_other 1.459
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.439 r_dihedral_angle_3_deg 14.033 r_dihedral_angle_4_deg 11.605 r_dihedral_angle_1_deg 5.476 r_long_range_B_refined 3.767 r_long_range_B_other 3.767 r_scangle_other 2.438 r_mcangle_other 1.886 r_mcangle_it 1.867 r_scbond_other 1.459 r_scbond_it 1.443 r_angle_refined_deg 1.224 r_mcbond_it 1.138 r_mcbond_other 1.137 r_angle_other_deg 0.761 r_chiral_restr 0.065 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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 16140 Nucleic Acid Atoms Solvent Atoms 214 Heterogen Atoms 50
Software Software Software Name Purpose ProDC data collection PHASER phasing REFMAC refinement XDS data reduction Aimless data scaling