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TRIOSEPHOSPHATE ISOMERASE (TIM)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5TIM TRYPANOSOMAL TIM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 10 MG/ML PROTEIN IN 12% PEG 6000 IN HEPES BUFFER PH 7.5, 1MM DTT EQUILIBRATED AGAINST 24% PEG 6000 IN HEPES BUFFER PH 7.5, 1MM DTT
Crystal Properties Matthews coefficient Solvent content 2.55 48.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.91 α = 90 b = 47.64 β = 108.26 c = 118.43 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 300 IMAGE PLATE MARRESEARCH FRANCS M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH2R
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 2.2 15 92 0.089 4 25936 2 19.6
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) 2.2 2.3 83.9 0.252
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT TRYPANOSOMAL TIM 2.2 10 2 24508 2497 92 0.198 0.198 0.1871 0.255 RANDOM 14
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]
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 23.6 x_scangle_it 6.6 x_scbond_it 4.48 x_mcangle_it 3.36 x_mcbond_it 2.35 x_angle_deg 1.4 x_improper_angle_d 1.28 x_bond_d 0.007 x_bond_d_na x_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 23.6 x_scangle_it 6.6 x_scbond_it 4.48 x_mcangle_it 3.36 x_mcbond_it 2.35 x_angle_deg 1.4 x_improper_angle_d 1.28 x_bond_d 0.007 x_bond_d_na x_bond_d_prot x_angle_d x_angle_d_na x_angle_d_prot x_angle_deg_na x_angle_deg_prot x_dihedral_angle_d_na x_dihedral_angle_d_prot x_improper_angle_d_na x_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3914 Nucleic Acid Atoms Solvent Atoms 171 Heterogen Atoms
Software Software Software Name Purpose X-PLOR model building X-PLOR refinement DENZO data reduction SCALEPACK data scaling X-PLOR phasing