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Crystal structure of human aminoadipate semialdehyde synthase (AASS), lysine ketoglutarate reductase (LKR) domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Q99
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 20% PEG3350 -- 10% ethylene glycol -- 0.2M sodium malonate
Crystal Properties Matthews coefficient Solvent content 2.73 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.045 α = 77.16 b = 80.533 β = 67.635 c = 91.508 γ = 79.425
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 2016-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.92819 Diamond I02
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 2.4 78.04 90 0.069 0.098 0.069 0.553 9 2.4 71194 1.2
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 2.4 2.45 91.9 0.898 1.269 0.898 0.553 1.2 2.4
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 THROUGHOUT 2Q99 2.4 78.04 70873 3439 89.614 0.22 0.2184 0.2222 0.258 0.2601 61.811
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] -0.209 -0.317 -0.745 -0.959 0.253 0.429
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.705 r_dihedral_angle_4_deg 17.613 r_dihedral_angle_3_deg 16.201 r_dihedral_angle_1_deg 6.752 r_lrange_it 5.656 r_lrange_other 5.644 r_mcangle_it 3.546 r_mcangle_other 3.546 r_scangle_it 2.989 r_scangle_other 2.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.705 r_dihedral_angle_4_deg 17.613 r_dihedral_angle_3_deg 16.201 r_dihedral_angle_1_deg 6.752 r_lrange_it 5.656 r_lrange_other 5.644 r_mcangle_it 3.546 r_mcangle_other 3.546 r_scangle_it 2.989 r_scangle_other 2.98 r_mcbond_it 2.105 r_mcbond_other 2.105 r_scbond_it 1.815 r_scbond_other 1.752 r_angle_refined_deg 1.429 r_angle_other_deg 1.17 r_symmetry_xyhbond_nbd_refined 0.217 r_nbd_refined 0.191 r_symmetry_nbd_other 0.184 r_symmetry_nbd_refined 0.18 r_xyhbond_nbd_refined 0.161 r_nbtor_refined 0.15 r_nbd_other 0.135 r_ncsr_local_group_4 0.1 r_ncsr_local_group_6 0.094 r_ncsr_local_group_1 0.091 r_ncsr_local_group_2 0.091 r_ncsr_local_group_3 0.086 r_ncsr_local_group_5 0.085 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.062 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12484 Nucleic Acid Atoms Solvent Atoms 265 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing