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Covalent complex of E. coli transaldolase TalB with tagatose-6-phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ONR PDB ENTRY 1ONR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293.2 0.15 M lithium sulfate, 18% PEG3350, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.2K
Crystal Properties Matthews coefficient Solvent content 2.7 54.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.308 α = 90 b = 91.699 β = 90 c = 130.987 γ = 90
Symmetry Space Group P 21 21 21
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-F 2013-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.97626 PETRA III, EMBL c/o DESY P13 (MX1)
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 1.46 75.12 99.9 0.079 10.6 7.8 140870 140870 16.8
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 1.46 1.48 100 0.95 2 7.9 6871
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 PDB ENTRY 1ONR 1.46 75.12 133697 7057 99.87 0.1536 0.1519 0.1516 0.1846 0.1846 RANDOM 24.094
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] 1.9 -0.73 -1.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.557 r_sphericity_free 28.02 r_sphericity_bonded 12.925 r_dihedral_angle_3_deg 12.162 r_dihedral_angle_4_deg 11.614 r_dihedral_angle_1_deg 5.417 r_rigid_bond_restr 3.35 r_mcangle_it 3.023 r_mcbond_it 2.468 r_mcbond_other 2.467
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.557 r_sphericity_free 28.02 r_sphericity_bonded 12.925 r_dihedral_angle_3_deg 12.162 r_dihedral_angle_4_deg 11.614 r_dihedral_angle_1_deg 5.417 r_rigid_bond_restr 3.35 r_mcangle_it 3.023 r_mcbond_it 2.468 r_mcbond_other 2.467 r_angle_refined_deg 1.359 r_angle_other_deg 0.849 r_chiral_restr 0.078 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4946 Nucleic Acid Atoms Solvent Atoms 576 Heterogen Atoms 40
Software Software Software Name Purpose ProDC data collection PHASER phasing REFMAC refinement XDS data reduction Aimless data scaling