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Crystal Structure of the mutant C2A conjugated bile acid hydrolase from Clostridium perfringens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BJG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 291 10 mM BisTris pH 5.5, 20 mM ammonium sulfate, 25% PEG 3350, vapor diffusion, sitting drop, temperature 291K, Vapor diffusion, sitting drop
Crystal Properties Matthews coefficient Solvent content 2.38 48.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.64 α = 90 b = 64.64 β = 90 c = 338.833 γ = 90
Symmetry Space Group P 41 2 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 MAR CCD 165 mm toroidal mirrors 2005-05-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 2.8 30 90.7 0.142 12.6 8.3 17112 41
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 2.8 2.9 90.3 0.462 3.3 8.5 1631
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 2bjg 2.9 30 15424 763 90.78 0.209 0.206 0.1976 0.275 0.2644 RANDOM 24.891
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] 1.31 1.31 -2.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.712 r_dihedral_angle_3_deg 14.353 r_dihedral_angle_4_deg 8.597 r_dihedral_angle_1_deg 4.979 r_angle_refined_deg 0.886 r_scangle_it 0.394 r_mcangle_it 0.375 r_nbtor_refined 0.296 r_scbond_it 0.241 r_mcbond_it 0.216
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.712 r_dihedral_angle_3_deg 14.353 r_dihedral_angle_4_deg 8.597 r_dihedral_angle_1_deg 4.979 r_angle_refined_deg 0.886 r_scangle_it 0.394 r_mcangle_it 0.375 r_nbtor_refined 0.296 r_scbond_it 0.241 r_mcbond_it 0.216 r_nbd_refined 0.164 r_symmetry_vdw_refined 0.121 r_xyhbond_nbd_refined 0.106 r_symmetry_hbond_refined 0.084 r_chiral_restr 0.061 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5222 Nucleic Acid Atoms Solvent Atoms 214 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing