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Crystal structure of the CBS and DRTGG domains of the regulatory region of Clostridium perfringens pyrophosphatase complexed with the inhibitor, AMP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 15% PEG 4000, 100mM Tris/HCl pH 8.5, 20mM MgCl2, 0.15mM AMP, vapor diffusion, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.43 49.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.96 α = 90 b = 79.61 β = 90 c = 116.36 γ = 90
Symmetry Space Group P 21 21 21
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 Q315r 2006-12-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.975501 ESRF ID14-4
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 2.3 20 99 0.089 0.089 16.41 7.3 24771 24771 -3 52.712
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) 2.3 2.45 98.7 0.289 0.289 5.3 5.4 4182
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.3 20 23426 1305 99.03 0.21895 0.21575 0.2153 0.27713 0.2703 RANDOM 42.617
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] 3.55 -1.02 -2.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.003 r_dihedral_angle_4_deg 22.31 r_dihedral_angle_3_deg 16.697 r_dihedral_angle_1_deg 6.318 r_scangle_it 3.771 r_scbond_it 2.351 r_mcangle_it 1.68 r_angle_refined_deg 1.54 r_angle_other_deg 1.259 r_mcbond_it 0.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.003 r_dihedral_angle_4_deg 22.31 r_dihedral_angle_3_deg 16.697 r_dihedral_angle_1_deg 6.318 r_scangle_it 3.771 r_scbond_it 2.351 r_mcangle_it 1.68 r_angle_refined_deg 1.54 r_angle_other_deg 1.259 r_mcbond_it 0.895 r_mcbond_other 0.182 r_chiral_restr 0.083 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3533 Nucleic Acid Atoms Solvent Atoms 97 Heterogen Atoms 46
Software Software Software Name Purpose XSCALE data scaling SHELX phasing REFMAC refinement PDB_EXTRACT data extraction XDS data scaling XDS data reduction SHELXD phasing