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Human dCK C4S-S74E mutant in complex with UDP and the inhibitor 10 {2-{[(1R/S)-1-{2-[3-(2-fluoroethoxy)-4-methoxyphenyl]-5-methyl-1,3-thiazol 4-yl}ethyl]sulfanyl}pyrimidine-4,6-diamine}
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JLN PDB entry 4JLN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 285 1.5 M trisodium citrate dehydrate and 25 mM HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.21 44.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.736 α = 90 b = 68.736 β = 90 c = 122.206 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 IMAGE PLATE RIGAKU RAXIS IV++ 2013-05-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 96.9 0.028 21.62 46762 46762
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.96 82.8 0.404 1.99 6415
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 4JLN 1.85 27.92 43747 43747 2273 95.37 0.17609 0.17609 0.17399 0.1816 0.21765 0.2282 RANDOM 38.281
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] -6.71 -6.71 13.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.675 r_dihedral_angle_4_deg 18.363 r_dihedral_angle_3_deg 16.7 r_dihedral_angle_1_deg 6.131 r_long_range_B_refined 5.4 r_long_range_B_other 5.352 r_scangle_other 3.54 r_mcangle_it 3.4 r_mcangle_other 3.4 r_mcbond_it 2.497
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.675 r_dihedral_angle_4_deg 18.363 r_dihedral_angle_3_deg 16.7 r_dihedral_angle_1_deg 6.131 r_long_range_B_refined 5.4 r_long_range_B_other 5.352 r_scangle_other 3.54 r_mcangle_it 3.4 r_mcangle_other 3.4 r_mcbond_it 2.497 r_mcbond_other 2.491 r_scbond_it 2.473 r_scbond_other 2.473 r_angle_refined_deg 1.673 r_angle_other_deg 0.961 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3785 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms 166
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement XDS data reduction XDS data scaling