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Crystal structure of human Glutathione Transferase Pi Y108V mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CSI PDB ENTRY 3CSI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.4 298 270mM Calcium Acetate, 20% PEG8000, 100mM MES, pH5.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.53 51.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.002 α = 90 b = 90.393 β = 97.49 c = 75.981 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 RIGAKU RAXIS IV++ AXCO 2008-08-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.1 54.55 98.8 0.11 0.11 6.26 5.7 53439 21.99
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.21 92.1 0.41 0.41 1.8 4.8 7215
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 PDB ENTRY 3CSI 2.1 54.55 53417 2735 98.85 0.18 0.18 0.179 0.23 0.2312 RANDOM 21.361
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] -1.25 -1.16 -1.09 2.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.298 r_dihedral_angle_4_deg 16.094 r_dihedral_angle_3_deg 13.993 r_dihedral_angle_1_deg 5.78 r_scangle_it 3.101 r_scbond_it 2.033 r_angle_refined_deg 1.489 r_mcangle_it 1.236 r_mcbond_it 0.781 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.298 r_dihedral_angle_4_deg 16.094 r_dihedral_angle_3_deg 13.993 r_dihedral_angle_1_deg 5.78 r_scangle_it 3.101 r_scbond_it 2.033 r_angle_refined_deg 1.489 r_mcangle_it 1.236 r_mcbond_it 0.781 r_nbtor_refined 0.301 r_nbd_refined 0.197 r_symmetry_vdw_refined 0.171 r_xyhbond_nbd_refined 0.156 r_metal_ion_refined 0.117 r_symmetry_hbond_refined 0.116 r_chiral_restr 0.096 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6509 Nucleic Acid Atoms Solvent Atoms 621 Heterogen Atoms 69
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection PHASER phasing