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Ni- Carbonic Anhydrase II pH 7.8 7.0 atm CO2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6LV5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 293 1.3 M sodium citrate, 50 mM Tris-HCl
Crystal Properties Matthews coefficient Solvent content 2.1 41.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.443 α = 90 b = 41.343 β = 104.13 c = 72.161 γ = 90
Symmetry Space Group P 1 21 1
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 ADSC QUANTUM 270 2020-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.97934 PAL/PLS 7A (6B, 6C1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.2 30 95.1 0.077 0.083 0.03 0.997 18.9 7.6 72348
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 1.2 1.22 92 0.431 0.463 0.168 0.917 5.5 7.5
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 FREE R-VALUE 1.2 30 68764 3553 95.04 0.11817 0.11709 0.1246 0.13968 0.1456 RANDOM 13.289
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] -0.16 0.03 -0.15 0.26
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 41.371 r_dihedral_angle_2_deg 34.904 r_dihedral_angle_4_deg 24.188 r_sphericity_bonded 15.085 r_dihedral_angle_3_deg 11.176 r_dihedral_angle_1_deg 7.022 r_rigid_bond_restr 6.309 r_long_range_B_refined 5.452 r_long_range_B_other 4.575 r_scangle_other 3.559
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 41.371 r_dihedral_angle_2_deg 34.904 r_dihedral_angle_4_deg 24.188 r_sphericity_bonded 15.085 r_dihedral_angle_3_deg 11.176 r_dihedral_angle_1_deg 7.022 r_rigid_bond_restr 6.309 r_long_range_B_refined 5.452 r_long_range_B_other 4.575 r_scangle_other 3.559 r_scbond_it 3.19 r_scbond_other 3.188 r_mcangle_other 2.957 r_mcangle_it 2.929 r_angle_refined_deg 2.377 r_mcbond_it 2.24 r_mcbond_other 1.977 r_angle_other_deg 1.716 r_chiral_restr 0.179 r_bond_refined_d 0.03 r_gen_planes_other 0.021 r_gen_planes_refined 0.017 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2049 Nucleic Acid Atoms Solvent Atoms 347 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing