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H. influenzae beta-carbonic anhydrase, variant D44N in 100 mM sodium bicarbonate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2A8D PDB ENTRY 2A8D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.1 M MES, 0.8 M sodium acetate, 100 mM sodium bicarbonate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.66 53.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.45 α = 90 b = 78.45 β = 90 c = 182.104 γ = 90
Symmetry Space Group P 41 21 2
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 2007-04-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F2 0.950 CHESS F2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.6 72.257 99.3 0.108 0.108 23.5 9.7 176697 18278
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.74 96 0.538 0.538 1.4 6.4 2500
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 PDB ENTRY 2A8D 2.6 29.72 18161 929 99.51 0.216 0.215 0.2258 0.239 0.2465 RANDOM 63.128
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] 0.04 0.04 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.957 r_dihedral_angle_3_deg 19.161 r_dihedral_angle_4_deg 18.693 r_dihedral_angle_1_deg 7.28 r_scangle_it 1.856 r_angle_refined_deg 1.457 r_scbond_it 1.234 r_mcangle_it 1 r_angle_other_deg 0.866 r_mcbond_it 0.816
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.957 r_dihedral_angle_3_deg 19.161 r_dihedral_angle_4_deg 18.693 r_dihedral_angle_1_deg 7.28 r_scangle_it 1.856 r_angle_refined_deg 1.457 r_scbond_it 1.234 r_mcangle_it 1 r_angle_other_deg 0.866 r_mcbond_it 0.816 r_symmetry_vdw_other 0.3 r_nbd_refined 0.253 r_nbd_other 0.224 r_symmetry_vdw_refined 0.216 r_symmetry_hbond_refined 0.205 r_nbtor_refined 0.203 r_xyhbond_nbd_refined 0.161 r_mcbond_other 0.099 r_nbtor_other 0.096 r_chiral_restr 0.071 r_xyhbond_nbd_other 0.049 r_bond_refined_d 0.014 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2890 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 2
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction