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Crystal structure of the Asp-bound guinea pig L-asparaginase 1 catalytic domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 0.1 M HEPES, 15% PEG 4000, 10 mM L-aspartic acid sodium salt monohydrate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.27 45.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.21 α = 90 b = 156 β = 90 c = 158.82 γ = 90
Symmetry Space Group I 2 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 100 CCD MARMOSAIC 300 mm CCD 2013-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G APS 21-ID-G
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 2.41 111.29 98.7 58821
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 2.41 2.55 96.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.41 29.961 55427 2943 97.96 0.20727 0.2057 0.2114 0.23612 0.2389 RANDOM 45.378
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] -0.4 -0.63 1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.826 r_dihedral_angle_4_deg 19.025 r_dihedral_angle_3_deg 13.807 r_long_range_B_refined 9.416 r_long_range_B_other 9.416 r_scangle_other 7.238 r_dihedral_angle_1_deg 5.867 r_mcangle_other 5.696 r_mcangle_it 5.317 r_scbond_other 4.925
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.826 r_dihedral_angle_4_deg 19.025 r_dihedral_angle_3_deg 13.807 r_long_range_B_refined 9.416 r_long_range_B_other 9.416 r_scangle_other 7.238 r_dihedral_angle_1_deg 5.867 r_mcangle_other 5.696 r_mcangle_it 5.317 r_scbond_other 4.925 r_scbond_it 3.421 r_mcbond_it 3.245 r_mcbond_other 3.245 r_angle_refined_deg 1.368 r_angle_other_deg 0.99 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.004 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 10854 Nucleic Acid Atoms Solvent Atoms 210 Heterogen Atoms 36
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement XDS data reduction XDS data scaling