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Huma Carbonic anhydrase II in complex with trans-2-phenylvinylboronic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CA2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 1.3 M SODIUM CITRATE, 0.1 M TRIS-HCL
Crystal Properties Matthews coefficient Solvent content 2.12 41.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.476 α = 90 b = 41.524 β = 104.39 c = 72.565 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 PIXEL DECTRIS PILATUS 6M 2022-02-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1 ELETTRA 11.2C
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 1.35 50 100 0.104 0.114 0.044 0.996 14.8 6.2 54273
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 1.35 1.37 100 0.605 0.661 0.262 0.803 3.1 6
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 FOURIER SYNTHESIS THROUGHOUT 1.35 41.18 52447 1587 99.96 0.12648 0.12585 0.1322 0.14802 0.1505 RANDOM 12.853
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] 0.4 -0.06 0.1 -0.42
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 11.962 r_long_range_B_other 11.542 r_dihedral_angle_3_deg 10.865 r_scangle_other 9.749 r_dihedral_angle_1_deg 6.89 r_scbond_it 6.801 r_scbond_other 6.799 r_mcangle_other 6.311 r_mcangle_it 6.295 r_dihedral_angle_2_deg 6.27
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 11.962 r_long_range_B_other 11.542 r_dihedral_angle_3_deg 10.865 r_scangle_other 9.749 r_dihedral_angle_1_deg 6.89 r_scbond_it 6.801 r_scbond_other 6.799 r_mcangle_other 6.311 r_mcangle_it 6.295 r_dihedral_angle_2_deg 6.27 r_rigid_bond_restr 4.42 r_mcbond_it 4.414 r_mcbond_other 4.365 r_angle_refined_deg 2.01 r_angle_other_deg 0.727 r_chiral_restr 0.126 r_bond_refined_d 0.013 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2048 Nucleic Acid Atoms Solvent Atoms 190 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling O model building REFMAC phasing