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Cocaine Esterase with mutation T172R, bound to DTT adduct
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JU3 PDB: 1JU3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 10mM Tris pH 7.5, 25 mM NaCl, 1.6 M Ammonium Sulfate, 10mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.82 56.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.282 α = 90 b = 106.282 β = 90 c = 219.031 γ = 120
Symmetry Space Group P 65 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 2006-04-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.9792 APS 23-ID-D
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 2.1 50 87.5 0.12 10.5 9.9 38215
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 2.1 2.18 35.3 0.504 6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION Difference fourier THROUGHOUT PDB: 1JU3 2.14 19.94 38098 1927 92.8 0.15899 0.15899 0.18 0.1583 RANDOM 32.598
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] -0.12 -0.06 -0.12 0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.112 r_dihedral_angle_4_deg 15.28 r_dihedral_angle_3_deg 13.026 r_dihedral_angle_1_deg 6.354 r_scangle_it 2.687 r_scbond_it 1.648 r_angle_refined_deg 1.279 r_mcangle_it 1.08 r_mcbond_it 0.634 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.112 r_dihedral_angle_4_deg 15.28 r_dihedral_angle_3_deg 13.026 r_dihedral_angle_1_deg 6.354 r_scangle_it 2.687 r_scbond_it 1.648 r_angle_refined_deg 1.279 r_mcangle_it 1.08 r_mcbond_it 0.634 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.218 r_nbd_refined 0.202 r_symmetry_hbond_refined 0.146 r_xyhbond_nbd_refined 0.138 r_chiral_restr 0.088 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4378 Nucleic Acid Atoms Solvent Atoms 504 Heterogen Atoms 40
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction