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Cocaine Esterase, wild type, bound to a 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 56.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.513 α = 90 b = 105.513 β = 90 c = 222.377 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 2007-04-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.000 APS 21-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 1.51 40 100 0.076 9.5 8.1 114633
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 1.51 1.56 100 0.544 5.9
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 Difference fourier THROUGHOUT PDB: 1JU3 1.51 20 114339 5722 99.92 0.14568 0.14568 0.1555 0.152 0.1573 RANDOM 11.917
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] 0.01 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.661 r_dihedral_angle_4_deg 12.983 r_dihedral_angle_3_deg 11.206 r_dihedral_angle_1_deg 6.357 r_scangle_it 2.563 r_scbond_it 1.581 r_angle_refined_deg 1.21 r_mcangle_it 0.983 r_angle_other_deg 0.834 r_mcbond_it 0.532
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.661 r_dihedral_angle_4_deg 12.983 r_dihedral_angle_3_deg 11.206 r_dihedral_angle_1_deg 6.357 r_scangle_it 2.563 r_scbond_it 1.581 r_angle_refined_deg 1.21 r_mcangle_it 0.983 r_angle_other_deg 0.834 r_mcbond_it 0.532 r_symmetry_vdw_other 0.242 r_symmetry_vdw_refined 0.187 r_symmetry_hbond_refined 0.168 r_xyhbond_nbd_refined 0.166 r_mcbond_other 0.12 r_chiral_restr 0.072 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4383 Nucleic Acid Atoms Solvent Atoms 862 Heterogen Atoms 39
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction