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Crystal structure of carbonic anhydrase XIII with methyl 4-benzylsulfanyl-3-sulfamoyl-benzoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LLN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.1M sodium citrate pH5.5, 0.1M sodium acetate pH4.5 and 26% of PEG4000
Crystal Properties Matthews coefficient Solvent content 2.13 41.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.054 α = 90 b = 57.958 β = 90 c = 160.174 γ = 90
Symmetry Space Group P 21 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 DECTRIS PILATUS 6M 2017-12-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.976200 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.7 160.174 100 0.088 0.095 0.026 16.8 13.2 57402 57402
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.79 100 0.323 0.323 0.347 0.095 2.1 13.1
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.7 80.09 51466 5801 99.9 0.1611 0.1576 0.1577 0.1942 0.1943 RANDOM 21.614
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] 0.81 0.82 -1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.523 r_dihedral_angle_4_deg 19.974 r_dihedral_angle_3_deg 13.652 r_dihedral_angle_1_deg 6.807 r_angle_refined_deg 1.897 r_chiral_restr 0.133 r_gen_planes_refined 0.012 r_bond_refined_d 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4077 Nucleic Acid Atoms Solvent Atoms 419 Heterogen Atoms 46
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction Coot model building MOLREP phasing XDS data reduction