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2.55 Angstrom Resolution Crystal Structure of Peptidylprolyl Isomerase (PrsA) from Bacillus cereus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 292 Protein: 8.3 mg/ml, 0.01M Tris pH 8.3;
Reservior (Screen JCSG+, G1): 0.1M HEPES pH 7.0, 30% v/v Jeffamine ED-2001 pH 7.0
Crystal Properties Matthews coefficient Solvent content 3.6 66.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 151.425 α = 90 b = 70.358 β = 91.749 c = 79.357 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 300 mm CCD C(111) 2019-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.55 30 99.9 0.084 0.084 0.095 0.044 18.1 5 27237 -3 56.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.55 2.59 100 0.787 0.787 0.883 0.394 0.831 2.3 5.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.553 29.73 27229 1382 99.645 0.219 0.2174 0.2202 0.2474 0.248 77.617
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] -5.799 -1.495 -7.05 12.917
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.598 r_lrange_it 10.751 r_lrange_other 10.748 r_dihedral_angle_3_deg 8.763 r_dihedral_angle_4_deg 8.272 r_scangle_it 7.583 r_scangle_other 7.582 r_mcangle_it 6.322 r_mcangle_other 6.321 r_scbond_it 4.761
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.598 r_lrange_it 10.751 r_lrange_other 10.748 r_dihedral_angle_3_deg 8.763 r_dihedral_angle_4_deg 8.272 r_scangle_it 7.583 r_scangle_other 7.582 r_mcangle_it 6.322 r_mcangle_other 6.321 r_scbond_it 4.761 r_scbond_other 4.76 r_mcbond_it 4.163 r_mcbond_other 4.163 r_dihedral_angle_1_deg 1.828 r_angle_refined_deg 1.452 r_angle_other_deg 0.384 r_nbd_refined 0.219 r_symmetry_xyhbond_nbd_refined 0.204 r_nbd_other 0.185 r_symmetry_nbd_other 0.174 r_nbtor_refined 0.169 r_xyhbond_nbd_refined 0.163 r_symmetry_nbd_refined 0.151 r_ncsr_local_group_1 0.123 r_symmetry_nbtor_other 0.092 r_chiral_restr 0.07 r_gen_planes_refined 0.054 r_gen_planes_other 0.054 r_bond_refined_d 0.005 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4180 Nucleic Acid Atoms Solvent Atoms 157 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing