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Transketolase from E. coli in complex with substrate D-xylulose-5-phosphate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.9 281 PEG 6000, glycerol, pH 7.9, VAPOR DIFFUSION, HANGING DROP, temperature 281K
Crystal Properties Matthews coefficient Solvent content 2.09 41.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.138 α = 90 b = 101.951 β = 90 c = 133.258 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 IMAGE PLATE MAR scanner 345 mm plate 2006-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8423 EMBL/DESY, HAMBURG BW7B
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 1.47 27.4 99.8 0.067 11.6 11.3 208542 207914 2 9.7
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) 1.47 1.49 99.2 0.317 10.6 6843
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 1.47 27.14 2 208119 207809 2094 99.85 0.15 0.15 0.15 0.1491 0.164 0.163 RANDOM 9.044
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 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.166 r_dihedral_angle_4_deg 17.318 r_dihedral_angle_3_deg 11.153 r_dihedral_angle_1_deg 5.622 r_scangle_it 2.376 r_scbond_it 1.553 r_angle_refined_deg 1.28 r_mcangle_it 0.825 r_mcbond_it 0.534 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.166 r_dihedral_angle_4_deg 17.318 r_dihedral_angle_3_deg 11.153 r_dihedral_angle_1_deg 5.622 r_scangle_it 2.376 r_scbond_it 1.553 r_angle_refined_deg 1.28 r_mcangle_it 0.825 r_mcbond_it 0.534 r_nbtor_refined 0.304 r_nbd_refined 0.19 r_symmetry_vdw_refined 0.176 r_metal_ion_refined 0.139 r_symmetry_hbond_refined 0.122 r_xyhbond_nbd_refined 0.103 r_chiral_restr 0.082 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10254 Nucleic Acid Atoms Solvent Atoms 1202 Heterogen Atoms 126
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection