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Structure of human MTHFD2 in complex with TH7299
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M Phosphate/Citrate pH 4.3, 42 % v/v PEG300
Crystal Properties Matthews coefficient Solvent content 2.01 38.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.559 α = 90 b = 74.559 β = 90 c = 99.248 γ = 90
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 2017-06-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.93 Diamond I04-1
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 1.9 26.4 99.9 9.4 7.5 21496
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 1.9 1.94
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.9 26.37 20271 1076 99.78 0.15827 0.15575 0.20546 0.2067 RANDOM 28.144
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] -0.26 -0.26 0.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.311 r_dihedral_angle_4_deg 18.684 r_dihedral_angle_3_deg 13.998 r_long_range_B_refined 7 r_long_range_B_other 6.999 r_dihedral_angle_1_deg 5.593 r_scangle_other 5.197 r_scbond_it 3.334 r_scbond_other 3.332 r_mcangle_other 2.641
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.311 r_dihedral_angle_4_deg 18.684 r_dihedral_angle_3_deg 13.998 r_long_range_B_refined 7 r_long_range_B_other 6.999 r_dihedral_angle_1_deg 5.593 r_scangle_other 5.197 r_scbond_it 3.334 r_scbond_other 3.332 r_mcangle_other 2.641 r_mcangle_it 2.64 r_mcbond_it 1.849 r_mcbond_other 1.848 r_angle_refined_deg 1.632 r_angle_other_deg 0.508 r_chiral_restr 0.073 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 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 2215 Nucleic Acid Atoms Solvent Atoms 154 Heterogen Atoms 95
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing