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apo- Carbonic Anhydrase II pH 7.8 0 atm CO2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5DSR
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 40.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.132 α = 90 b = 41.302 β = 104.267 c = 72.209 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 2019-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.9793 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 95.5 0.058 0.062 0.023 0.999 28.8 7.5 72028
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 92.6 0.368 0.396 0.145 0.951 6.8 7.3
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5DSR 1.2 30 72011 3688 95.467 0.111 0.1099 0.1375 0.1407 13.342
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] 0.178 -0.115 -0.143 0.02
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 46.904 r_dihedral_angle_2_deg 35.171 r_dihedral_angle_4_deg 25.736 r_sphericity_bonded 13.973 r_dihedral_angle_3_deg 11.553 r_dihedral_angle_1_deg 6.922 r_rigid_bond_restr 6.421 r_lrange_it 6.04 r_lrange_other 5.444 r_scangle_it 4.073
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 46.904 r_dihedral_angle_2_deg 35.171 r_dihedral_angle_4_deg 25.736 r_sphericity_bonded 13.973 r_dihedral_angle_3_deg 11.553 r_dihedral_angle_1_deg 6.922 r_rigid_bond_restr 6.421 r_lrange_it 6.04 r_lrange_other 5.444 r_scangle_it 4.073 r_scangle_other 4.072 r_scbond_it 3.729 r_scbond_other 3.729 r_mcangle_other 2.589 r_mcangle_it 2.579 r_angle_refined_deg 2.515 r_mcbond_it 2.05 r_mcbond_other 2.029 r_angle_other_deg 1.288 r_symmetry_nbd_refined 0.326 r_nbd_refined 0.292 r_nbd_other 0.286 r_symmetry_xyhbond_nbd_refined 0.215 r_chiral_restr 0.213 r_nbtor_refined 0.188 r_symmetry_nbd_other 0.181 r_xyhbond_nbd_refined 0.138 r_symmetry_nbtor_other 0.089 r_symmetry_xyhbond_nbd_other 0.033 r_bond_refined_d 0.031 r_gen_planes_refined 0.014 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2049 Nucleic Acid Atoms Solvent Atoms 371 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing