☰ Navigation Tabs
Magnesium substituted Terephthalate 1,2-cis-dihydrodioldehydrogenase/Decarboxylase in complex with CO2.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 295 4% v/v TacsimateTM pH 6.0
12% w/v Polyethylene glycol 3,350
Crystal Properties Matthews coefficient Solvent content 2.56 52.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.729 α = 90 b = 93.776 β = 90 c = 166.309 γ = 90
Symmetry Space Group P 2 21 21
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 RIGAKU HyPix-6000HE 2022-11-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
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 2.7 26.22 99.6 0.1 0.25 0.094 0.969 6.2 6.7 42297
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 2.7 9.73 100 0.64 0.685 0.241 0.785 2.6
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.7 20.001 37748 1855 99.217 0.285 0.2829 0.2844 0.3303 0.3324 31.117
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] -2.756 2.567 0.189
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.4 r_dihedral_angle_6_deg 13.105 r_dihedral_angle_2_deg 6.901 r_dihedral_angle_1_deg 6.666 r_angle_refined_deg 1.3 r_angle_other_deg 0.446 r_nbd_refined 0.224 r_symmetry_nbd_other 0.194 r_nbd_other 0.177 r_symmetry_xyhbond_nbd_refined 0.168
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.4 r_dihedral_angle_6_deg 13.105 r_dihedral_angle_2_deg 6.901 r_dihedral_angle_1_deg 6.666 r_angle_refined_deg 1.3 r_angle_other_deg 0.446 r_nbd_refined 0.224 r_symmetry_nbd_other 0.194 r_nbd_other 0.177 r_symmetry_xyhbond_nbd_refined 0.168 r_nbtor_refined 0.165 r_xyhbond_nbd_refined 0.162 r_symmetry_nbd_refined 0.153 r_ncsr_local_group_3 0.081 r_ncsr_local_group_4 0.081 r_ncsr_local_group_6 0.081 r_ncsr_local_group_1 0.078 r_ncsr_local_group_2 0.078 r_symmetry_nbtor_other 0.077 r_ncsr_local_group_5 0.076 r_chiral_restr 0.062 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9148 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction Aimless data scaling MOLREP phasing