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Crystal structure of citrate synthase mutant A348G from homo sapiens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 0.2 M Ammonium Acetate, 0.1 NaCitrate tribasic dihydrate pH 5.6, 15% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.3 46.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.245 α = 90 b = 111.804 β = 99.31 c = 74.162 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 CCD MARMOSAIC 300 mm CCD 2015-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.2 50 99.59 0.129 0.129 0.176 0.091 10.8 3.7 40046 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.24 99.9 0.768 0.768 1.194 0.618 0.649 1.75 3.7
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 2.29 45.06 40046 1974 99.59 0.15824 0.15592 0.1634 0.20549 0.21 RANDOM 27.633
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] -1.5 -0.62 2.73 -0.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.095 r_dihedral_angle_4_deg 17.995 r_dihedral_angle_3_deg 13.779 r_long_range_B_refined 6.187 r_long_range_B_other 6.164 r_dihedral_angle_1_deg 5.786 r_scangle_other 4.679 r_mcangle_it 3.574 r_mcangle_other 3.574 r_scbond_it 2.953
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.095 r_dihedral_angle_4_deg 17.995 r_dihedral_angle_3_deg 13.779 r_long_range_B_refined 6.187 r_long_range_B_other 6.164 r_dihedral_angle_1_deg 5.786 r_scangle_other 4.679 r_mcangle_it 3.574 r_mcangle_other 3.574 r_scbond_it 2.953 r_scbond_other 2.947 r_mcbond_it 2.262 r_mcbond_other 2.262 r_angle_refined_deg 1.606 r_angle_other_deg 1.031 r_chiral_restr 0.097 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.002 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 6839 Nucleic Acid Atoms Solvent Atoms 576 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing HKL-3000 phasing