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Transaldolase B E96Q from E.coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ONR PDB entry 1ONR, monomer
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293.2 0.15M Li2SO4, 23% PEG 3350, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.2K
Crystal Properties Matthews coefficient Solvent content 2.65 53.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.76 α = 90 b = 90.24 β = 90 c = 131.89 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 CCD ADSC QUANTUM 315r 2013-11-14 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 1.8 46.92 99.5 0.11 5.3 4.4 74166 74166 18.4
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 1.84 99.7 0.46 1.8 4.5 4351
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 1ONR, monomer 1.8 46.92 70322 70322 3733 99.34 0.21079 0.21079 0.20801 0.2175 0.26216 0.2717 RANDOM 26.993
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] -1.52 2.69 -1.17
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 35.501 r_dihedral_angle_2_deg 35.046 r_sphericity_bonded 13.697 r_dihedral_angle_3_deg 12.988 r_dihedral_angle_4_deg 12.642 r_long_range_B_refined 6.177 r_long_range_B_other 6.047 r_scangle_other 5.815 r_dihedral_angle_1_deg 5.414 r_scbond_it 5.091
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 35.501 r_dihedral_angle_2_deg 35.046 r_sphericity_bonded 13.697 r_dihedral_angle_3_deg 12.988 r_dihedral_angle_4_deg 12.642 r_long_range_B_refined 6.177 r_long_range_B_other 6.047 r_scangle_other 5.815 r_dihedral_angle_1_deg 5.414 r_scbond_it 5.091 r_scbond_other 5.086 r_mcangle_it 4.807 r_mcangle_other 4.807 r_mcbond_it 4.129 r_mcbond_other 4.126 r_rigid_bond_restr 3.257 r_angle_refined_deg 1.295 r_angle_other_deg 0.889 r_chiral_restr 0.073 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.004 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4944 Nucleic Acid Atoms Solvent Atoms 369 Heterogen Atoms 20
Software Software Software Name Purpose MxCuBE data collection MOLREP phasing REFMAC refinement XDS data reduction Aimless data scaling