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Crystal Structure of glucose-1-phosphate thymidylyltransferase from Sulfolobus tokodaii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 10% PEG 3350, 0.5M CsCl, 20mM TRIS-HCL, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.1 60.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.999 α = 90 b = 122.999 β = 90 c = 94.884 γ = 120
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 RIGAKU RAXIS 2005-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 1.8 50 96.6 0.074 5.3 49579 48014
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.86 90.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIRAS THROUGHOUT 1.8 19 48014 45470 2438 96.63 0.2441 0.2242 0.22189 0.26749 0.2422 RANDOM 44.952
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] -0.02 -0.01 -0.02 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.038 r_dihedral_angle_3_deg 20.223 r_dihedral_angle_4_deg 17.356 r_dihedral_angle_1_deg 8.026 r_scangle_it 4.561 r_scbond_it 2.949 r_mcangle_it 2.259 r_angle_refined_deg 2.052 r_mcbond_it 1.38 r_nbtor_refined 0.325
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.038 r_dihedral_angle_3_deg 20.223 r_dihedral_angle_4_deg 17.356 r_dihedral_angle_1_deg 8.026 r_scangle_it 4.561 r_scbond_it 2.949 r_mcangle_it 2.259 r_angle_refined_deg 2.052 r_mcbond_it 1.38 r_nbtor_refined 0.325 r_symmetry_vdw_refined 0.255 r_nbd_refined 0.245 r_symmetry_hbond_refined 0.244 r_xyhbond_nbd_refined 0.19 r_chiral_restr 0.151 r_bond_refined_d 0.021 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3141 Nucleic Acid Atoms Solvent Atoms 191 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction SCALEPACK data scaling SHELXD phasing