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Structure of E.Coli fructose 1,6-bisphosphate aldolase, Citrate bound form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DOS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 287 0.2M ammonium acetate, 5mM aldose, 0.1M citrate buffer pH 7.0, and 15% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.31 46.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.033 α = 90 b = 73.001 β = 104.09 c = 73.044 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 2013-12-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.979 PAL/PLS 5C (4A)
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 1.79 50 98.9 0.145 29.7 6 67229
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 1.8 1.85 99.7 0.626 2.3 5.3
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 1DOS 1.8 50 63809 3404 98.1 0.15907 0.1572 0.1718 0.19394 0.2045 RANDOM 29.038
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] -0.01 0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.09 r_dihedral_angle_3_deg 13.788 r_dihedral_angle_4_deg 9.817 r_long_range_B_refined 7.491 r_long_range_B_other 7.491 r_dihedral_angle_1_deg 6.236 r_scangle_other 6.104 r_scbond_it 4.27 r_scbond_other 4.269 r_mcangle_other 3.385
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.09 r_dihedral_angle_3_deg 13.788 r_dihedral_angle_4_deg 9.817 r_long_range_B_refined 7.491 r_long_range_B_other 7.491 r_dihedral_angle_1_deg 6.236 r_scangle_other 6.104 r_scbond_it 4.27 r_scbond_other 4.269 r_mcangle_other 3.385 r_mcangle_it 3.382 r_mcbond_it 2.741 r_mcbond_other 2.735 r_angle_refined_deg 1.993 r_angle_other_deg 1.161 r_chiral_restr 0.266 r_bond_refined_d 0.024 r_gen_planes_refined 0.012 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 5124 Nucleic Acid Atoms Solvent Atoms 443 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-3000 data scaling PHASER phasing