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Structure of Phosphotriesterase mutant G60A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P6B PDB ENTRY 1p6b
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.2M Mg acetate, 0.1M Na-cacodylate, 20% PEG 8000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.33 47.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.295 α = 90.05 b = 68.299 β = 100.42 c = 90.03 γ = 89.96
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 MAR CCD 165 mm M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X3A 0.97904 NSLS X3A
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 1.95 31.64 96.3 0.076 0.072 7.7 3 91515 91515
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) 1 1.95 2.02 80.7 0.242 0.286 3.39 2.5 7663
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 1p6b 1.95 31.64 91514 4597 97.09 0.168 0.164 0.1656 0.226 0.2248 RANDOM 21.737
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] 1.94 0.03 0.25 -0.9 -0.6 -0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.183 r_dihedral_angle_4_deg 19.103 r_dihedral_angle_3_deg 15.812 r_dihedral_angle_1_deg 7.409 r_scangle_it 5.978 r_scbond_it 4.145 r_mcangle_it 2.503 r_mcbond_it 1.825 r_angle_refined_deg 1.424 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.183 r_dihedral_angle_4_deg 19.103 r_dihedral_angle_3_deg 15.812 r_dihedral_angle_1_deg 7.409 r_scangle_it 5.978 r_scbond_it 4.145 r_mcangle_it 2.503 r_mcbond_it 1.825 r_angle_refined_deg 1.424 r_nbtor_refined 0.316 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.208 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.153 r_chiral_restr 0.12 r_metal_ion_refined 0.047 r_gen_planes_refined 0.017 r_bond_refined_d 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10110 Nucleic Acid Atoms Solvent Atoms 1026 Heterogen Atoms 28
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction MOLREP phasing