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Three dimensional structure of human carbonic anhydrase II in complex with 5-[(4Chlorobenzyl)sulfanyl]thiophene-2-sulfonamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BF1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 294 1,54 M SODIUM CITRATE 60 MM TRIS- HCL, PH 9.0, PROTEIN 10 MG/ML 5-10 MM INHIBITOR (STOCK SOLUTION WAS 100 MM INHIBITOR DISSOLVED IN 100% DIMETHYL SULFOXIDE) VAPOR DIFFUSION, SITTING DROP,
TEMPERATURE 294K, TIME 2-5 DAYS
Crystal Properties Matthews coefficient Solvent content 2.1 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.36 α = 90 b = 41.32 β = 104.48 c = 72.25 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 MARRESEARCH MULTILAYER 2013-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 0.97671 MAX II I911-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.17 18 99.6 0.098 6.3 3.3 81743 2 6.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.17 1.23 98.3 0.452 2.3 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 4BF1 1.17 18 77608 3989 99.29 0.14152 0.13989 0.1431 0.17349 0.1749 RANDOM 16.697
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] 0.33 1.73 0.53 -1.55
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 40.548 r_dihedral_angle_2_deg 37.288 r_rigid_bond_restr 27.547 r_dihedral_angle_4_deg 23.855 r_sphericity_bonded 17.125 r_dihedral_angle_3_deg 11.238 r_scangle_other 9.123 r_long_range_B_refined 8.54 r_long_range_B_other 8.36 r_scbond_it 7.892
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 40.548 r_dihedral_angle_2_deg 37.288 r_rigid_bond_restr 27.547 r_dihedral_angle_4_deg 23.855 r_sphericity_bonded 17.125 r_dihedral_angle_3_deg 11.238 r_scangle_other 9.123 r_long_range_B_refined 8.54 r_long_range_B_other 8.36 r_scbond_it 7.892 r_scbond_other 7.889 r_dihedral_angle_1_deg 6.931 r_angle_other_deg 3.775 r_mcangle_other 2.808 r_mcangle_it 2.775 r_angle_refined_deg 2.755 r_mcbond_other 2.305 r_mcbond_it 2.248 r_chiral_restr 0.186 r_gen_planes_other 0.036 r_bond_refined_d 0.032 r_gen_planes_refined 0.016 r_bond_other_d 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 2040 Nucleic Acid Atoms Solvent Atoms 319 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling Coot model building