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CO2 release in human carbonic anhydrase II crystals: reveal histidine 64 and solvent dynamics
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3D92
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 1.3M sodium citrate, 100mM TrisHCl pH 7.8
Crystal Properties Matthews coefficient Solvent content 2.09 41.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.281 α = 90 b = 41.45 β = 104.14 c = 72.105 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 210 2008-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F2 0.9795 CHESS F2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 50 96 0.056 30.4 6.7 69247
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.2 1.22 65.8 0.596 1.9 3.3
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 (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 THROUGHOUT 3D92 1.2 26.72 69247 3680 95.91 0.10614 0.10467 0.105 0.13395 0.1344 RANDOM 13.961
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] -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 54.482 r_dihedral_angle_2_deg 32.515 r_dihedral_angle_4_deg 24.637 r_sphericity_bonded 12.011 r_dihedral_angle_3_deg 11.181 r_dihedral_angle_1_deg 6.8 r_long_range_B_refined 6.097 r_rigid_bond_restr 5.994 r_long_range_B_other 4.348 r_scangle_other 3.256
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 54.482 r_dihedral_angle_2_deg 32.515 r_dihedral_angle_4_deg 24.637 r_sphericity_bonded 12.011 r_dihedral_angle_3_deg 11.181 r_dihedral_angle_1_deg 6.8 r_long_range_B_refined 6.097 r_rigid_bond_restr 5.994 r_long_range_B_other 4.348 r_scangle_other 3.256 r_scbond_it 2.813 r_scbond_other 2.813 r_mcangle_other 2.001 r_mcangle_it 1.988 r_angle_refined_deg 1.982 r_mcbond_it 1.529 r_mcbond_other 1.506 r_angle_other_deg 0.983 r_chiral_restr 0.15 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 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 392 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing