☰ Navigation Tabs
Crystal Structure of truncated aspartate transcarbamoylase from Plasmodium falciparum with bound inhibitor 1-(4-chlorophenyl)methanamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ILQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 200mM NaCl, 15%(w/v)PEG3350, 100mM bis-tris propane, 2%(v/v)DMSO
Crystal Properties Matthews coefficient Solvent content 2.99 58.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.659 α = 90 b = 103.628 β = 117.455 c = 86.864 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 291 PIXEL DECTRIS PILATUS 6M 2017-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.033200 PETRA III, DESY P11
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 2.45 45.04 99.1 0.045 0.062 0.043 0.999 12.2 3.4 49863
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 2.45 2.53 0.521 0.712 0.482 0.797 3.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT FREE R-VALUE 5ILQ 2.45 43.425 49842 2384 99.113 0.178 0.1757 0.1739 0.2177 0.218 60.676
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] -2.022 0.623 3.461 -1.354
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.735 r_dihedral_angle_4_deg 17.337 r_dihedral_angle_3_deg 16.956 r_dihedral_angle_1_deg 7.506 r_lrange_it 6.894 r_lrange_other 6.875 r_scangle_it 4.652 r_scangle_other 4.613 r_mcangle_it 4.386 r_mcangle_other 4.386
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.735 r_dihedral_angle_4_deg 17.337 r_dihedral_angle_3_deg 16.956 r_dihedral_angle_1_deg 7.506 r_lrange_it 6.894 r_lrange_other 6.875 r_scangle_it 4.652 r_scangle_other 4.613 r_mcangle_it 4.386 r_mcangle_other 4.386 r_scbond_it 3.144 r_scbond_other 3.023 r_mcbond_it 2.821 r_mcbond_other 2.821 r_angle_refined_deg 1.83 r_angle_other_deg 1.336 r_nbd_other 0.285 r_nbd_refined 0.221 r_symmetry_nbd_refined 0.216 r_symmetry_nbd_other 0.196 r_xyhbond_nbd_refined 0.195 r_nbtor_refined 0.172 r_symmetry_xyhbond_nbd_refined 0.154 r_ncsr_local_group_3 0.102 r_ncsr_local_group_1 0.098 r_ncsr_local_group_2 0.088 r_chiral_restr 0.086 r_symmetry_nbtor_other 0.083 r_symmetry_xyhbond_nbd_other 0.075 r_metal_ion_refined 0.063 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8161 Nucleic Acid Atoms Solvent Atoms 163 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing