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X-ray crystal structure of carbonic anhydrase XII complexed with a theranostic monoclonal antibody fragment
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WW8 4WW8, 3FO0 experimental model PDB 3FO0 4WW8, 3FO0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 1.5M AMMONIUM SULFATE
0.1M SODIUM ACETATE
0.02M CADMIUM CHLORIDE
Crystal Properties Matthews coefficient Solvent content 3.59 65.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.335 α = 90 b = 222.165 β = 90 c = 266.988 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RIGAKU SATURN 944 2017-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.79 50 98.1 0.091 0.102 0.044 8.6 4.8 56400
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.79 2.85 91.8 0.489 0.61 0.357 0.663 2.5
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 4WW8, 3FO0 2.79 49.65 52250 1051 92.4 0.2032 0.2026 0.2032 0.2308 0.2306 RANDOM 36.415
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] -1.45 1.71 -0.26
RMS Deviations Key Refinement Restraint Deviation r_mcangle_it 3.725 r_scbond_it 3.129 r_mcbond_it 2.298
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10790 Nucleic Acid Atoms Solvent Atoms 23 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling PDB_EXTRACT data extraction HKL-2000 data reduction AMoRE phasing