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Crystal structure of Rhizobium etli inducible L-asparaginase ReAV solved by S-SAD (orthorhombic form START)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 25% PEG3350, 0.2 M Li2SO4, 0.01% (w/v) heptane-1,2,3-triol, 0.1 M Tris pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.47 50.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.15 α = 90 b = 91.05 β = 90 c = 105.84 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M 2019-04-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 2.0664 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.177 69.024 98.3 0.088 0.99 21.74 17.8 75182
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.18 2.23 79.4 0.694 0.85 2.07 4.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.177 69.024 39687 1000 98.611 0.169 0.1677 0.1774 0.2238 0.2336 34.053
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] -3.307 -2.432 5.738
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.586 r_dihedral_angle_4_deg 22.47 r_dihedral_angle_3_deg 16.661 r_lrange_it 8.391 r_lrange_other 8.344 r_dihedral_angle_1_deg 8.004 r_scangle_it 6.304 r_scangle_other 6.304 r_scbond_it 4.27 r_scbond_other 4.269
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.586 r_dihedral_angle_4_deg 22.47 r_dihedral_angle_3_deg 16.661 r_lrange_it 8.391 r_lrange_other 8.344 r_dihedral_angle_1_deg 8.004 r_scangle_it 6.304 r_scangle_other 6.304 r_scbond_it 4.27 r_scbond_other 4.269 r_mcangle_it 3.828 r_mcangle_other 3.825 r_mcbond_it 2.716 r_mcbond_other 2.712 r_angle_refined_deg 1.443 r_angle_other_deg 1.318 r_symmetry_xyhbond_nbd_refined 0.246 r_symmetry_nbd_other 0.213 r_nbd_refined 0.212 r_symmetry_nbd_refined 0.209 r_nbd_other 0.202 r_xyhbond_nbd_refined 0.189 r_nbtor_refined 0.158 r_symmetry_nbtor_other 0.085 r_symmetry_xyhbond_nbd_other 0.053 r_chiral_restr 0.052 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5321 Nucleic Acid Atoms Solvent Atoms 314 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling HKL2Map phasing