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X-ray structure of the dihydroxyacetone kinase from Escherichia coli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 pH 5.00
Crystal Properties Matthews coefficient Solvent content 2.56 51.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.465 α = 90 b = 97.364 β = 90 c = 86.213 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 OSMIC MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 2 25 93.1 0.046 23.7 2.9 51496 2
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 2 2.04 60.6 0.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION OTHER THROUGHOUT 2 19.73 50052 1443 100 0.189 0.189 0.2013 0.239 RANDOM
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] -1.6 1.82 -0.22
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.589 r_scbond_it 4.835 r_mcangle_it 3.945 r_dihedral_angle_1_deg 3.891 r_mcbond_it 2.928 r_angle_refined_deg 1.78 r_symmetry_hbond_refined 0.319 r_symmetry_vdw_refined 0.29 r_nbd_refined 0.238 r_xyhbond_nbd_refined 0.201
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.589 r_scbond_it 4.835 r_mcangle_it 3.945 r_dihedral_angle_1_deg 3.891 r_mcbond_it 2.928 r_angle_refined_deg 1.78 r_symmetry_hbond_refined 0.319 r_symmetry_vdw_refined 0.29 r_nbd_refined 0.238 r_xyhbond_nbd_refined 0.201 r_chiral_restr 0.161 r_bond_refined_d 0.018 r_gen_planes_refined 0.001 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5040 Nucleic Acid Atoms Solvent Atoms 481 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing