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Crystal structure of T75N mutant of Triosephosphate isomerase from Plasmodium falciparum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1O5X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 296 28% PEG 1450, 100mM Tris-HCl, 10mM Lithium sulphate, 0.5mM EDTA, 0.5mM DTT, 0.5mM sodium azide
Crystal Properties Matthews coefficient Solvent content 2.18 43.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.64 α = 90 b = 106.72 β = 90 c = 179.62 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 MARMOSAIC 225 mm CCD 2014-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.95372 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 91.748 97.2 0.116 0.124 0.044 11.3 7.5 88535 88535
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 94.6 0.297 0.297 0.119 2.5 6.5 12379
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 1O5X 1.8 91.75 84034 4421 97 0.1694 0.167 0.167 0.2156 0.2158 RANDOM 15.687
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] -0.33 0.26 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.376 r_dihedral_angle_4_deg 13.984 r_dihedral_angle_3_deg 12.635 r_dihedral_angle_1_deg 6.192 r_scbond_it 2.469 r_angle_refined_deg 2.012 r_mcangle_it 1.954 r_mcbond_it 1.388 r_chiral_restr 0.154 r_bond_refined_d 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.376 r_dihedral_angle_4_deg 13.984 r_dihedral_angle_3_deg 12.635 r_dihedral_angle_1_deg 6.192 r_scbond_it 2.469 r_angle_refined_deg 2.012 r_mcangle_it 1.954 r_mcbond_it 1.388 r_chiral_restr 0.154 r_bond_refined_d 0.02 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7636 Nucleic Acid Atoms Solvent Atoms 931 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction iMOSFLM data reduction PHASER phasing