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Crystal structure of T. gondii adenosine kinase complexed with AMP-PCP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LIO PDB entry 1LIO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 295 PEG 4000, ammonium acetate, magnesium chloride, sodium citrate, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.1 41.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.051 α = 90 b = 67.923 β = 90 c = 83.192 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 CCD ADSC QUANTUM 315 2004-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 8-BM 0.9777 APS 8-BM
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 1.1 50 93.7 0.062 13.6 3.1 129879 129879
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 1.14 71.9 0.274 2.8 1.9 9849
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 FREE R PDB entry 1LIO 1.1 10 122947 122947 6466 89.1 0.1369 0.1369 0.1353 0.1413 0.1665 0.1688 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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 76 2258.7 2967.97
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.101 s_non_zero_chiral_vol 0.086 s_zero_chiral_vol 0.081 s_anti_bump_dis_restr 0.051 s_similar_adp_cmpnt 0.051 s_angle_d 0.032 s_from_restr_planes 0.0276 s_bond_d 0.014 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2876 Nucleic Acid Atoms Solvent Atoms 454 Heterogen Atoms 64
Software Software Software Name Purpose SHELXL-97 refinement SCALEPACK data scaling CNS refinement HKL-2000 data collection HKL-2000 data reduction CNS phasing