☰ Navigation Tabs
R273S Human Aconitate Decarboxylase 1 mutant, apo
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 12UX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.8 295 100 mM Tris pH 8.8, 35% PEG 4000, 200 mM CaOAc, 200 nL drop, 2:1 protein:reservoir
Crystal Properties Matthews coefficient Solvent content 2.1 41.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.871 α = 90 b = 110.186 β = 90 c = 75.733 γ = 90
Symmetry Space Group P 21 21 2
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 EIGER X 9M 2025-12-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 0.92 NSLS-II 17-ID-1
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 1.46 44.55 96.2 0.136 0.154 0.05 0.997 8.4 8.7 129053 17.5
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 1.46 1.54 64.3 1.48 1.65 0.537 0.621 1.5 9.6
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 (All) 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 1.46 44.55 129053 6449 87.05 0.155 0.1539 0.1539 0.1844 0.1842 RANDOM 19.333
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] 0.109 0.222 -0.331
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.105 r_dihedral_angle_3_deg 13.67 r_dihedral_angle_2_deg 8.984 r_dihedral_angle_1_deg 6.164 r_lrange_it 5.659 r_lrange_other 5.476 r_scangle_it 3.193 r_scangle_other 3.192 r_scbond_it 2.046 r_scbond_other 2.042
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.105 r_dihedral_angle_3_deg 13.67 r_dihedral_angle_2_deg 8.984 r_dihedral_angle_1_deg 6.164 r_lrange_it 5.659 r_lrange_other 5.476 r_scangle_it 3.193 r_scangle_other 3.192 r_scbond_it 2.046 r_scbond_other 2.042 r_mcangle_it 1.931 r_mcangle_other 1.931 r_angle_refined_deg 1.729 r_mcbond_it 1.206 r_mcbond_other 1.206 r_angle_other_deg 0.605 r_metal_ion_refined 0.379 r_symmetry_nbd_refined 0.317 r_symmetry_xyhbond_nbd_refined 0.293 r_nbd_refined 0.228 r_nbd_other 0.225 r_xyhbond_nbd_refined 0.196 r_symmetry_nbd_other 0.191 r_nbtor_refined 0.185 r_chiral_restr 0.089 r_symmetry_nbtor_other 0.077 r_symmetry_metal_ion_refined 0.062 r_symmetry_xyhbond_nbd_other 0.015 r_bond_refined_d 0.009 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7084 Nucleic Acid Atoms Solvent Atoms 973 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction STARANISO data scaling MOLREP phasing