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Ni- Carbonic Anhydrase II pH 7.8 1.5 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 2.08 40.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.334 α = 90 b = 41.305 β = 104.01 c = 71.881 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 97.1 0.073 0.079 0.029 0.996 26.6 7.5 73226
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 94.4 0.438 0.472 0.173 0.915 5.9 7.3
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 69601 3609 97 0.1225 0.12146 0.1302 0.14329 0.1521 RANDOM 12.549
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] -0.06 -0.06 -0.04 0.12
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 47.501 r_dihedral_angle_2_deg 34.676 r_dihedral_angle_4_deg 26.869 r_sphericity_bonded 13.808 r_dihedral_angle_3_deg 12.671 r_rigid_bond_restr 6.637 r_dihedral_angle_1_deg 6.626 r_long_range_B_refined 5.851 r_long_range_B_other 5.424 r_scangle_other 3.964
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 47.501 r_dihedral_angle_2_deg 34.676 r_dihedral_angle_4_deg 26.869 r_sphericity_bonded 13.808 r_dihedral_angle_3_deg 12.671 r_rigid_bond_restr 6.637 r_dihedral_angle_1_deg 6.626 r_long_range_B_refined 5.851 r_long_range_B_other 5.424 r_scangle_other 3.964 r_scbond_it 3.36 r_scbond_other 3.359 r_angle_refined_deg 2.603 r_mcangle_other 2.451 r_mcangle_it 2.408 r_mcbond_it 2.155 r_angle_other_deg 2.052 r_mcbond_other 2.016 r_chiral_restr 0.203 r_bond_refined_d 0.031 r_gen_planes_other 0.021 r_gen_planes_refined 0.015 r_bond_other_d 0.003 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 279 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing