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Crystal Structure of human ketohexokinase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 291 17% PEG8000, 5mM Cobalt Chloride, 200mM ammonium sulfate, 100mM NaCitrate, pH 4.2, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.8 55.8 2.8 55.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.933 α = 105.06 b = 71.672 β = 107.33 c = 82.694 γ = 93.09
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 210 2006-06-18 M SINGLE WAVELENGTH 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 0.97625 APS 17-ID
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 1.85 30 95.2 0.077 10 3.8 113793
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) 1.85 1.92 77 0.438 3.2
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAS 1.85 29.656 113173 4258 94.572 0.216 0.2143 0.249 0.2421 thin shells 15.727
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] 0.733 1.125 -0.201 0.371 -0.035 -1.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.512 r_dihedral_angle_4_deg 16.703 r_dihedral_angle_3_deg 12.883 r_dihedral_angle_1_deg 6.069 r_scangle_it 3.604 r_mcangle_it 3.135 r_scbond_it 2.745 r_mcbond_it 2.578 r_angle_refined_deg 1.382 r_angle_other_deg 0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.512 r_dihedral_angle_4_deg 16.703 r_dihedral_angle_3_deg 12.883 r_dihedral_angle_1_deg 6.069 r_scangle_it 3.604 r_mcangle_it 3.135 r_scbond_it 2.745 r_mcbond_it 2.578 r_angle_refined_deg 1.382 r_angle_other_deg 0.95 r_mcbond_other 0.788 r_symmetry_vdw_other 0.267 r_nbd_refined 0.203 r_nbd_other 0.198 r_symmetry_vdw_refined 0.185 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.137 r_symmetry_hbond_refined 0.1 r_nbtor_other 0.083 r_chiral_restr 0.082 r_bond_refined_d 0.016 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9045 Nucleic Acid Atoms Solvent Atoms 372 Heterogen Atoms 32
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction ARP/wARP model building MolProbity model building