☰ Navigation Tabs
Crystal Structure of OXA-163 complexed with iodide in the active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HBR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 298 0.1M Sodium Iodine 15% w/v PEG3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.39 48.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.63 α = 62.2 b = 68.41 β = 68 c = 70.223 γ = 71.58
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 200 IMAGE PLATE RIGAKU 2013-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.87 59.801 75 22060 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.87 2.99 91.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 3HBR 2.87 59.801 22060 20926 1134 95 0.204 0.201 0.2066 0.256 0.2557 RANDOM 55.21
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] 0.88 -0.73 0.14 0.58 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.219 r_dihedral_angle_3_deg 19.655 r_dihedral_angle_4_deg 18.163 r_dihedral_angle_1_deg 6.947 r_mcangle_it 4.144 r_mcbond_it 2.526 r_mcbond_other 2.525 r_scbond_it 2.457 r_angle_refined_deg 1.494 r_angle_other_deg 1.258
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.219 r_dihedral_angle_3_deg 19.655 r_dihedral_angle_4_deg 18.163 r_dihedral_angle_1_deg 6.947 r_mcangle_it 4.144 r_mcbond_it 2.526 r_mcbond_other 2.525 r_scbond_it 2.457 r_angle_refined_deg 1.494 r_angle_other_deg 1.258 r_chiral_restr 0.077 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.006 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7653 Nucleic Acid Atoms Solvent Atoms 69 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement PHASER phasing PHENIX refinement MOSFLM data reduction SCALA data scaling HKL-2000 data collection