☰ Navigation Tabs
1.45 Angstrom Resolution Crystal Structure of PDZ domain of Carboxy-Terminal Protease from Vibrio cholerae in Complex with Peptide.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 292 Protein: 9.7 mg/ml, 0.5M Sodium chloride, 0.01M Tris pH 8.3;
Screen: PACT (E3) 0.2M Sodium iodide, 20% (w/v) PEG 3350..
Crystal Properties Matthews coefficient Solvent content 1.85 33.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.579 α = 90 b = 35.579 β = 90 c = 118.394 γ = 120
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) 2017-08-08 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 1.45 30 99.9 0.054 0.054 0.058 0.021 51.2 7.4 15127 -3 19.6
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 1.45 1.48 100 0.759 0.759 0.817 0.3 0.893 2.9 7.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.45 29.82 14288 708 99.94 0.1346 0.1324 0.17758 0.1951 RANDOM 25.91
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 28.8 r_dihedral_angle_2_deg 28.59 r_dihedral_angle_4_deg 19.569 r_sphericity_bonded 16.515 r_rigid_bond_restr 11.997 r_dihedral_angle_3_deg 9.647 r_long_range_B_refined 3.902 r_long_range_B_other 3.779 r_dihedral_angle_1_deg 3.325 r_scangle_other 2.595
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 28.8 r_dihedral_angle_2_deg 28.59 r_dihedral_angle_4_deg 19.569 r_sphericity_bonded 16.515 r_rigid_bond_restr 11.997 r_dihedral_angle_3_deg 9.647 r_long_range_B_refined 3.902 r_long_range_B_other 3.779 r_dihedral_angle_1_deg 3.325 r_scangle_other 2.595 r_scbond_other 2.071 r_scbond_it 2.07 r_mcangle_it 2.05 r_mcangle_other 2.049 r_mcbond_it 1.612 r_mcbond_other 1.612 r_angle_refined_deg 1.414 r_angle_other_deg 0.806 r_chiral_restr 0.08 r_gen_planes_refined 0.019 r_gen_planes_other 0.018 r_bond_refined_d 0.008 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_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 754 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing