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Transaldolase from Bacillus subtilis
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 9 293 20% PEG 4K, 0.2M of Li2SO4, 20% of glycerol, 100 mM Tris/HCl, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.11 60.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.299 α = 90 b = 127.28 β = 98.1 c = 158.448 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 IMAGE PLATE MAR scanner 345 mm plate 2004-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 MAX II I711
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 1.9 69 100 0.087 10.6 3.5 441576
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 1.9 2 99.9 0.525 2.4 3.4
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 1.9 58.93 419370 419370 22163 100 0.202 0.2 0.2121 0.229 0.241 RANDOM 27.3
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] -0.15 0.07 0.13 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.43 r_dihedral_angle_3_deg 14.589 r_dihedral_angle_4_deg 11.825 r_dihedral_angle_1_deg 5.429 r_scangle_it 2.494 r_scbond_it 1.458 r_angle_refined_deg 1.131 r_mcangle_it 0.954 r_angle_other_deg 0.887 r_mcbond_it 0.504
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.43 r_dihedral_angle_3_deg 14.589 r_dihedral_angle_4_deg 11.825 r_dihedral_angle_1_deg 5.429 r_scangle_it 2.494 r_scbond_it 1.458 r_angle_refined_deg 1.131 r_mcangle_it 0.954 r_angle_other_deg 0.887 r_mcbond_it 0.504 r_mcbond_other 0.134 r_chiral_restr 0.069 r_bond_refined_d 0.01 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 31905 Nucleic Acid Atoms Solvent Atoms 3397 Heterogen Atoms 160
Software Software Software Name Purpose MxCuBE data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling