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Plasmodium Falciparum Triosephosphate Isomerase (PfTIM)-Phosphoglycolate complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YDV Monomer of unbound PfTIM, PDB code 1YDV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 12% to 25% PEG 6000 or PEG 4000 or PEG 3350 or PEG 1450 in the
presence of EDTA, DTT and Sodium azide in 100mM MES. pH 6.5,
VAPOR DIFFUSION, HANGING DROP at 295K
Crystal Properties Matthews coefficient Solvent content 2.4 46.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.242 α = 90 b = 63.437 β = 117.74 c = 53.886 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 295 IMAGE PLATE MARRESEARCH Mirrors 2000-02-10 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 1.9 20 98.4 0.068 18.8 20508 20508
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 1.9 1.97 97.1 0.215 2008
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 Monomer of unbound PfTIM, PDB code 1YDV 1.9 20 0.1 20508 20037 1977 96.2 0.18 0.1866 0.21 0.2176 Random 23.74
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] 2.18 -4.32 2.14 4.14
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.3443 c_scangle_it 8.14 c_scbond_it 5.8 c_mcangle_it 3.8 c_mcbond_it 3.19 c_angle_deg 1.3524 c_improper_angle_d 0.7165 c_bond_d 0.0062
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1957 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 9
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement