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Structure of a putative epoxide hydrolase from Pseudomonas aeruginosa.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y37 PDB ENTRY 1Y37
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.1 M LISO4, 1.25 M (NH4)2SO4, 0.1M TRIS HCL, PH 8.5
Crystal Properties Matthews coefficient Solvent content 3.67 66.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.91 α = 90 b = 83.91 β = 90 c = 140.73 γ = 90
Symmetry Space Group P 41 21 2
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 ADSC QUANTUM 315r 2010-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 1.45 72.08 100 0.1 14 7.6 89489 2
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 1.45 1.53 99.8 0.8 2.3 6.7
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 1Y37 1.45 27.45 84909 4482 99.95 0.11199 0.11059 0.1314 0.13771 0.1542 RANDOM 15.725
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] 0.08 0.08 -0.16
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 51.279 r_dihedral_angle_2_deg 31.153 r_dihedral_angle_4_deg 16.047 r_mcangle_it 15.587 r_sphericity_bonded 13.645 r_mcbond_it 12.386 r_mcbond_other 11.727 r_dihedral_angle_3_deg 10.784 r_dihedral_angle_1_deg 5.324 r_rigid_bond_restr 3.841
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 51.279 r_dihedral_angle_2_deg 31.153 r_dihedral_angle_4_deg 16.047 r_mcangle_it 15.587 r_sphericity_bonded 13.645 r_mcbond_it 12.386 r_mcbond_other 11.727 r_dihedral_angle_3_deg 10.784 r_dihedral_angle_1_deg 5.324 r_rigid_bond_restr 3.841 r_angle_refined_deg 1.758 r_angle_other_deg 0.885 r_xyhbond_nbd_other 0.397 r_symmetry_vdw_refined 0.374 r_nbd_refined 0.29 r_symmetry_vdw_other 0.258 r_nbd_other 0.218 r_xyhbond_nbd_refined 0.204 r_nbtor_refined 0.189 r_symmetry_hbond_refined 0.127 r_chiral_restr 0.115 r_nbtor_other 0.107 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2353 Nucleic Acid Atoms Solvent Atoms 436 Heterogen Atoms 84
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing