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Zn-Carbonic Anhydrase II complexed with 3NPA at RT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7Y2A
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 2.16 42.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.889 α = 90 b = 41.795 β = 104.633 c = 72.869 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 293 CCD ADSC QUANTUM 315r 2018-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.9794 PAL/PLS 5C (4A)
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 1.25 30 99.7 0.097 0.112 0.055 0.98 13.8 4.2 69133
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 1.25 1.27 100 0.48 0.553 0.27 0.81 2.2 4.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.25 21.434 69101 3500 99.713 0.124 0.1225 0.1225 0.1442 0.1443 14.422
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] 0.113 -0.072 0.116 -0.169
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 16.36 r_dihedral_angle_6_deg 15.999 r_lrange_other 15.813 r_dihedral_angle_3_deg 11.247 r_scangle_it 9.857 r_scangle_other 9.855 r_dihedral_angle_2_deg 8.668 r_scbond_it 6.931 r_scbond_other 6.928 r_dihedral_angle_1_deg 6.773
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 16.36 r_dihedral_angle_6_deg 15.999 r_lrange_other 15.813 r_dihedral_angle_3_deg 11.247 r_scangle_it 9.857 r_scangle_other 9.855 r_dihedral_angle_2_deg 8.668 r_scbond_it 6.931 r_scbond_other 6.928 r_dihedral_angle_1_deg 6.773 r_mcangle_other 6.463 r_mcangle_it 6.455 r_rigid_bond_restr 5.065 r_mcbond_it 4.701 r_mcbond_other 4.675 r_angle_refined_deg 1.934 r_angle_other_deg 0.732 r_symmetry_nbd_refined 0.244 r_nbd_other 0.202 r_symmetry_nbd_other 0.194 r_nbd_refined 0.193 r_nbtor_refined 0.182 r_xyhbond_nbd_refined 0.173 r_symmetry_xyhbond_nbd_refined 0.143 r_chiral_restr 0.133 r_symmetry_nbtor_other 0.086 r_metal_ion_refined 0.06 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2049 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing