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Three dimensional structure of human carbonic anhydrase IX in complex with sulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IAI
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), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K
Crystal Properties Matthews coefficient Solvent content 3.46 64.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 152.951 α = 90 b = 152.951 β = 90 c = 172.438 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 2.3 29.93 99.5 0.115 8.9 5.9 66667
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 2.3 2.36 94.1 0.834 1.5 5.5
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 2.3 29.93 63380 3427 99.94 0.16307 0.16044 0.169 0.21231 0.2154 RANDOM 41.648
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] 0.5 0.25 0.5 -1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.493 r_dihedral_angle_3_deg 15.193 r_long_range_B_other 7.952 r_long_range_B_refined 7.948 r_dihedral_angle_1_deg 6.891 r_scangle_other 6.191 r_mcangle_it 4.867 r_mcangle_other 4.867 r_scbond_it 4.192 r_scbond_other 4.191
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.493 r_dihedral_angle_3_deg 15.193 r_long_range_B_other 7.952 r_long_range_B_refined 7.948 r_dihedral_angle_1_deg 6.891 r_scangle_other 6.191 r_mcangle_it 4.867 r_mcangle_other 4.867 r_scbond_it 4.192 r_scbond_other 4.191 r_mcbond_it 3.369 r_mcbond_other 3.369 r_angle_refined_deg 1.715 r_angle_other_deg 0.48 r_chiral_restr 0.066 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7910 Nucleic Acid Atoms Solvent Atoms 583 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement