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Transaldolase B E96Q F178Y 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 (NH4)2SO4, 18% PEG 3350, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.2K
Crystal Properties Matthews coefficient Solvent content 2.64 53.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.844 α = 90 b = 89.513 β = 90 c = 130.512 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 2013-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.072 ESRF ID29
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 54.07 98.8 0.09 8.2 4.2 73150 73150
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 1.9 95.6 0.7 1.6 3.9 10225
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 1.802 54.07 69409 69409 3676 98.61 0.20322 0.20322 0.2008 0.2103 0.24907 0.2543 RANDOM 31.327
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] 0.52 2.21 -2.73
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 41.633 r_dihedral_angle_2_deg 32.172 r_dihedral_angle_3_deg 14.665 r_sphericity_bonded 12.598 r_dihedral_angle_4_deg 11.177 r_dihedral_angle_1_deg 5.081 r_long_range_B_refined 4.919 r_long_range_B_other 4.919 r_scangle_other 3.951 r_mcangle_it 3.933
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 41.633 r_dihedral_angle_2_deg 32.172 r_dihedral_angle_3_deg 14.665 r_sphericity_bonded 12.598 r_dihedral_angle_4_deg 11.177 r_dihedral_angle_1_deg 5.081 r_long_range_B_refined 4.919 r_long_range_B_other 4.919 r_scangle_other 3.951 r_mcangle_it 3.933 r_mcangle_other 3.933 r_scbond_it 3.233 r_scbond_other 3.233 r_mcbond_it 3.103 r_mcbond_other 3.094 r_rigid_bond_restr 2.1 r_angle_refined_deg 1.158 r_angle_other_deg 0.996 r_chiral_restr 0.059 r_bond_refined_d 0.009 r_bond_other_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 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 4946 Nucleic Acid Atoms Solvent Atoms 365 Heterogen Atoms 43
Software Software Software Name Purpose MxCuBE data collection MOLREP phasing REFMAC refinement XDS data reduction Aimless data scaling