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Three dimensional structure of human carbonic anhydrase XII in complex with benzenesulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JD0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 294 0.2M AMMONIUM ACETATE, 0.1M SODIUM CITRATE, PH 5.6, 31% PEG 4000, PROTEIN CONC. 10 MG/ML, 5-10 MM INHIBITOR (STOCK SOLUTION WAS DISSOLVED IN 100% DMSO)
Crystal Properties Matthews coefficient Solvent content 2.24 45.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.76 α = 90.02 b = 74.76 β = 74.32 c = 76.23 γ = 90
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 2017-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.918400 BESSY 14.1
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 1.89 74.76 83.2 0.094 4.6 1.8 64810 21.92
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 1.89 1.99 82.8 0.433 2 1.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1JD0 1.89 74.76 61577 3232 83.21 0.16778 0.16476 0.1734 0.22458 0.2338 RANDOM 22.388
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] -0.32 -0.18 0.64 1.82 0.3 -0.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.611 r_dihedral_angle_4_deg 17.656 r_dihedral_angle_3_deg 14.485 r_dihedral_angle_1_deg 7.975 r_long_range_B_refined 5.274 r_long_range_B_other 5.217 r_scangle_other 3.877 r_mcangle_it 2.694 r_mcangle_other 2.694 r_scbond_it 2.489
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.611 r_dihedral_angle_4_deg 17.656 r_dihedral_angle_3_deg 14.485 r_dihedral_angle_1_deg 7.975 r_long_range_B_refined 5.274 r_long_range_B_other 5.217 r_scangle_other 3.877 r_mcangle_it 2.694 r_mcangle_other 2.694 r_scbond_it 2.489 r_scbond_other 2.489 r_mcbond_it 1.827 r_mcbond_other 1.826 r_angle_refined_deg 1.664 r_angle_other_deg 1.379 r_chiral_restr 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8338 Nucleic Acid Atoms Solvent Atoms 726 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement SCALA data scaling