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Three dimensional structure of human carbonic anhydrase IX in complex with benzenesulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6FE2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 294 CRYSTALLIZATION CONDITIONS: 1.0 M DI-AMMONIUM HYDROGEN PHOSPHATE, 0.1 M SODIUM ACETATE PH 4.5, PROTEIN 10 MG/ML, 5-10 MM INHIBITOR (STOCK SOLUTION WAS 100 MM INHIBITOR DISSOLVED IN 100% DIMETHYL SULFOXIDE)
Crystal Properties Matthews coefficient Solvent content 3.43 64.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 152.192 α = 90 b = 152.192 β = 90 c = 172.327 γ = 120
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 16M 2018-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.97776 MAX IV BioMAX
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.144 104 100 0.125 8.2 5.9 81681
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.144 2.181 100 2.282 0.8 6
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6FE2 2.25 47.9 67165 3447 99.98 0.17316 0.17082 0.21718 0.214 RANDOM 48.769
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] 0.56 0.28 0.56 -1.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.946 r_dihedral_angle_4_deg 20.003 r_dihedral_angle_3_deg 15.189 r_long_range_B_other 9.14 r_long_range_B_refined 9.124 r_dihedral_angle_1_deg 7.483 r_scangle_other 7.435 r_mcangle_it 6.138 r_mcangle_other 6.138 r_scbond_it 5.242
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.946 r_dihedral_angle_4_deg 20.003 r_dihedral_angle_3_deg 15.189 r_long_range_B_other 9.14 r_long_range_B_refined 9.124 r_dihedral_angle_1_deg 7.483 r_scangle_other 7.435 r_mcangle_it 6.138 r_mcangle_other 6.138 r_scbond_it 5.242 r_scbond_other 5.241 r_mcbond_other 4.405 r_mcbond_it 4.404 r_angle_refined_deg 1.749 r_angle_other_deg 1.283 r_chiral_restr 0.075 r_bond_refined_d 0.01 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 7742 Nucleic Acid Atoms Solvent Atoms 458 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement