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Crystal structure of glutaminase C in complex with compound 27
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 18% Polyethylene glycol 3350, 0.2 M magnesium chloride, 0.08 M 2-[4-(2-Hydroxyethyl)-1-piperazinyl]ethanesulfonicacid pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.6 47.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.479 α = 90 b = 138.71 β = 93.09 c = 178.425 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER2 S 9M 2023-06-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.979 SSRF BL02U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.01 89.24 91.18 0.07234 0.07993 0.03351 0.998 15.72 5.5 145402
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.01 2.082 0.6913 0.789 0.3733 0.708
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 MAD THROUGHOUT 2.01 89.24 138154 7239 91.21 0.19346 0.19226 0.1954 0.21713 0.2195 RANDOM 37.943
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] 0.69 0.29 -0.59 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.139 r_long_range_B_refined 8.564 r_dihedral_angle_2_deg 7.134 r_dihedral_angle_1_deg 6.294 r_scbond_it 4.506 r_mcangle_it 4.307 r_mcbond_it 3.062 r_angle_refined_deg 1.543 r_chiral_restr 0.105 r_bond_refined_d 0.008
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.139 r_long_range_B_refined 8.564 r_dihedral_angle_2_deg 7.134 r_dihedral_angle_1_deg 6.294 r_scbond_it 4.506 r_mcangle_it 4.307 r_mcbond_it 3.062 r_angle_refined_deg 1.543 r_chiral_restr 0.105 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_dihedral_angle_4_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other 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 12421 Nucleic Acid Atoms Solvent Atoms 387 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHENIX phasing