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Crystal structure of a glyoxalase/ bleomycin resistance protein/ dioxygenase from Nocardioides
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 25% PEG3350, 0.1M Bis-Tris, 0.2M NaCl, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.31 46.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.66 α = 90 b = 83.589 β = 90 c = 102.413 γ = 90
Symmetry Space Group C 2 2 21
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 315 2013-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.9792 NSLS X29A
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 1.9 50 99.9 0.092 11 13.8 14825 14825 20.012
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 1.9 1.96 99.9 0.455 12.6 1228
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 SAD THROUGHOUT 1.9 38.03 14762 14016 746 99.5 0.218 0.18798 0.18641 0.1954 0.21722 0.2163 RANDOM 25.849
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] -0.3 -2.15 2.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.122 r_dihedral_angle_4_deg 14.901 r_dihedral_angle_3_deg 12.447 r_dihedral_angle_1_deg 5.646 r_long_range_B_refined 4.411 r_long_range_B_other 4.405 r_scangle_other 2.985 r_mcangle_other 2.179 r_mcangle_it 2.175 r_scbond_it 1.882
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.122 r_dihedral_angle_4_deg 14.901 r_dihedral_angle_3_deg 12.447 r_dihedral_angle_1_deg 5.646 r_long_range_B_refined 4.411 r_long_range_B_other 4.405 r_scangle_other 2.985 r_mcangle_other 2.179 r_mcangle_it 2.175 r_scbond_it 1.882 r_scbond_other 1.881 r_mcbond_it 1.324 r_mcbond_other 1.308 r_angle_refined_deg 1.256 r_angle_other_deg 0.737 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1183 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 14
Software Software Software Name Purpose CBASS data collection SHELXS phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling