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F96Y Mutant of Plasmodium Falciparum Triosephosphate Isomerase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VFH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 294 16% PEG 1450, HEPES, 10mM CaCl2, 0.5mM DTT, 0.5mM NaN3, 0.5mM EDTA
Crystal Properties Matthews coefficient Solvent content 3.6 63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37 α = 90 b = 70.32 β = 101.9 c = 72.58 γ = 90
Symmetry Space Group P 1 21 1
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 MAR scanner 345 mm plate 2009-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54179
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 36.2 99 15 3 28683
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 2 99 0.225 4.3 3
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 2VFH 1.9 35.51 27191 1454 99.49 0.18257 0.18033 0.1881 0.22432 0.2308 RANDOM 17.05
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] 0.01 -0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.411 r_dihedral_angle_4_deg 16.413 r_dihedral_angle_3_deg 13.046 r_dihedral_angle_1_deg 5.618 r_long_range_B_refined 2.244 r_long_range_B_other 2.244 r_angle_refined_deg 1.034 r_mcangle_it 1.024 r_mcangle_other 1.023 r_scangle_other 0.945
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.411 r_dihedral_angle_4_deg 16.413 r_dihedral_angle_3_deg 13.046 r_dihedral_angle_1_deg 5.618 r_long_range_B_refined 2.244 r_long_range_B_other 2.244 r_angle_refined_deg 1.034 r_mcangle_it 1.024 r_mcangle_other 1.023 r_scangle_other 0.945 r_angle_other_deg 0.736 r_mcbond_it 0.592 r_mcbond_other 0.592 r_scbond_it 0.567 r_scbond_other 0.567 r_chiral_restr 0.061 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3614 Nucleic Acid Atoms Solvent Atoms 170 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing