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Crystal structure of purine nucleoside phosphorylase from toxoplasma gondii in complex with immucillin-H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 291 100mM Tris, 0.2M Trimethylamine N-oxide dihydrate, 25% PEG 2000MME, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.22 61.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 159.622 α = 90 b = 159.622 β = 90 c = 53.606 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 CCD ADSC QUANTUM 315r 2009-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0809 NSLS X29A
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 1.9 138.68 99.4 0.136 7.5 11.4 61484
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 1.9 1.97 94.4 0.541 7 5786
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.9 20 61465 3112 99.08 0.222 0.221 0.2181 0.243 0.2392 RANDOM 19.432
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] -0.64 -0.32 -0.64 0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.062 r_dihedral_angle_4_deg 17.421 r_dihedral_angle_3_deg 13.641 r_dihedral_angle_1_deg 5.898 r_scangle_it 3.465 r_scbond_it 2.041 r_angle_refined_deg 1.457 r_mcangle_it 1.262 r_mcbond_it 0.674 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.062 r_dihedral_angle_4_deg 17.421 r_dihedral_angle_3_deg 13.641 r_dihedral_angle_1_deg 5.898 r_scangle_it 3.465 r_scbond_it 2.041 r_angle_refined_deg 1.457 r_mcangle_it 1.262 r_mcbond_it 0.674 r_chiral_restr 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3748 Nucleic Acid Atoms Solvent Atoms 340 Heterogen Atoms 72
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction