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Carbonic anhydrase activators: Kinetic and X-ray crystallographic study for the interaction of d- and l-tryptophan with the mammalian isoforms I-XIV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CA2 PDB ENTRY 1CA2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 50mM Tris.HCl pH 7.7-7.8, 2mM sodium 4-(hydroxymercury)benzoate, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.07 40.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.07 α = 90 b = 41.32 β = 104.4 c = 72.05 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 OXFORD SAPPHIRE CCD 2008-04-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OXFORD DIFFRACTION ENHANCED ULTRA 1.5418
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 1.75 20 99 0.132 15.14 3.6 24484 2
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) 1.75 1.86 99 0.303 2.9 2.4 4080
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 1CA2 1.75 10.38 23118 1185 99.4 0.19063 0.18893 0.1905 0.22243 0.1877 RANDOM 12.767
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 0.16 -0.1 -0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.881 r_dihedral_angle_4_deg 17.756 r_dihedral_angle_3_deg 15.563 r_dihedral_angle_1_deg 6.634 r_scangle_it 3.873 r_scbond_it 2.566 r_angle_refined_deg 1.746 r_mcangle_it 1.66 r_mcbond_it 1.045 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.881 r_dihedral_angle_4_deg 17.756 r_dihedral_angle_3_deg 15.563 r_dihedral_angle_1_deg 6.634 r_scangle_it 3.873 r_scbond_it 2.566 r_angle_refined_deg 1.746 r_mcangle_it 1.66 r_mcbond_it 1.045 r_nbtor_refined 0.31 r_symmetry_vdw_refined 0.298 r_nbd_refined 0.222 r_symmetry_hbond_refined 0.166 r_xyhbond_nbd_refined 0.156 r_chiral_restr 0.132 r_metal_ion_refined 0.044 r_bond_refined_d 0.017 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2066 Nucleic Acid Atoms Solvent Atoms 218 Heterogen Atoms 26
Software Software Software Name Purpose CrysalisPro data collection AMoRE phasing REFMAC refinement CrysalisPro data reduction SCALA data scaling