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Crystal structure of a mutant (C202A) of Triosephosphate isomerase from Giardia lamblia derivatized with MMTS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2DP3 PDB entry 2DP3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 291 5MICROL OF C202A (13MG/ML) DISSOLVED IN 100MM TRIETHANOLAMINE, 10MM EDTA, MIXED WITH 5MICROL OF 2M AMMONIUM SULFATE,5% ISOPROPANOL, pH 7.4. Crystals were soaked with S-methyl methanethiosulfonate (MMTS), VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.07 59.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.373 α = 90 b = 102.881 β = 90 c = 118.908 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 103 IMAGE PLATE RIGAKU RAXIS IIC 2008-09-27 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 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 2.098 38.9 98.9 0.068 8.5 3 20618 20391 29.8
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2DP3 2.098 38.901 1.34 20391 1045 98.67 0.1816 0.1802 0.1829 0.2075 0.2126 random
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] -1.2092 -0.7397 1.9489
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.199 f_angle_d 1.167 f_chiral_restr 0.081 f_bond_d 0.011 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1951 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 41
Software Software Software Name Purpose CrystalClear data collection PHASER phasing PHENIX refinement XDS data reduction SCALA data scaling