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apo-Carbonic Anhydrase II soaked in 3NPA after UV at 180 K
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6LUU 6LUU
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 2.09 41.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.188 α = 90 b = 41.448 β = 104.43 c = 72.446 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 180 CCD RAYONIX MX225-HS 2020-10-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 6D 0.97934 PAL/PLS 6D
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 94.9 0.038 0.044 0.023 0.998 31.7 3.9 63819
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 91 0.294 0.346 0.182 0.921 3.9 3.5
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 FREE R-VALUE 6LUU 1.25 29.1 60645 3158 94.91 0.12039 0.11836 0.1183 0.16014 0.1603 RANDOM 16.383
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] 0.02 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 45.911 r_dihedral_angle_2_deg 34.577 r_dihedral_angle_4_deg 23.617 r_sphericity_bonded 15.108 r_dihedral_angle_3_deg 12.881 r_dihedral_angle_1_deg 6.776 r_long_range_B_refined 6.713 r_rigid_bond_restr 5.73 r_long_range_B_other 5.572 r_scangle_other 4.546
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 45.911 r_dihedral_angle_2_deg 34.577 r_dihedral_angle_4_deg 23.617 r_sphericity_bonded 15.108 r_dihedral_angle_3_deg 12.881 r_dihedral_angle_1_deg 6.776 r_long_range_B_refined 6.713 r_rigid_bond_restr 5.73 r_long_range_B_other 5.572 r_scangle_other 4.546 r_scbond_it 4.311 r_scbond_other 4.085 r_mcangle_other 2.727 r_mcangle_it 2.705 r_angle_refined_deg 2.536 r_mcbond_other 2.213 r_mcbond_it 2.207 r_angle_other_deg 1.29 r_chiral_restr 0.179 r_bond_refined_d 0.029 r_gen_planes_refined 0.014 r_gen_planes_other 0.005 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 349 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing