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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 10 MG/ML, 5-10 MM INHIBITOR (STOCK SOLUTION WAS DISSOLVED IN 100% DMSO)
Crystal Properties Matthews coefficient Solvent content 2.21 44.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.93 α = 82.09 b = 66.05 β = 84.41 c = 80.95 γ = 86.17
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 1.67 65.33 80.5 0.168 5.6 3.3 89465 13.16
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 1.67 1.76 75.6 0.717 2 3.2
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 1.67 65.33 85012 4450 80.54 0.1952 0.19239 0.2067 0.24973 0.2602 RANDOM 17.337
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] -0.59 -0.8 0.47 0.95 1.28 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.64 r_dihedral_angle_4_deg 17.1 r_dihedral_angle_3_deg 13.949 r_dihedral_angle_1_deg 7.701 r_long_range_B_refined 5.007 r_long_range_B_other 4.9 r_scangle_other 3.195 r_mcangle_it 2.436 r_mcangle_other 2.436 r_scbond_it 2.027
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.64 r_dihedral_angle_4_deg 17.1 r_dihedral_angle_3_deg 13.949 r_dihedral_angle_1_deg 7.701 r_long_range_B_refined 5.007 r_long_range_B_other 4.9 r_scangle_other 3.195 r_mcangle_it 2.436 r_mcangle_other 2.436 r_scbond_it 2.027 r_scbond_other 2.027 r_angle_refined_deg 1.683 r_mcbond_it 1.55 r_mcbond_other 1.549 r_angle_other_deg 1.347 r_chiral_restr 0.091 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8340 Nucleic Acid Atoms Solvent Atoms 828 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement SCALA data scaling