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PCY1 G696Insertion Variant in Complex with Follower Peptide and the Covalent Inhibitor ZPP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 282 18% PEG 8,000, 0.2 M calcium acetate, 0.1 M sodium cacodylate pH 6.5, 12 mg/mL Protein, Protein was preincubated with 1 mM ZPP and 1 mM PSA1 [27-32]
Crystal Properties Matthews coefficient Solvent content 2.17 43.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.001 α = 87.74 b = 85.325 β = 78.53 c = 137.871 γ = 89.64
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 2015-03-14 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 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 2.82 45.7 98.3 0.126 11.1 4.3 68702
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 2.82 2.829 98.1 0.426 3.3 4.4
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 THROUGHOUT 2.82 45.7 65404 3296 98.28 0.22881 0.22669 0.26965 0.2512 RANDOM 29.348
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] 2.42 0.79 0.1 -2.06 -1.23 -0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.959 r_dihedral_angle_4_deg 17.601 r_dihedral_angle_3_deg 16.168 r_dihedral_angle_1_deg 6.266 r_long_range_B_refined 4.989 r_long_range_B_other 4.989 r_mcangle_it 3.156 r_mcangle_other 3.156 r_scangle_other 2.964 r_mcbond_it 1.876
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.959 r_dihedral_angle_4_deg 17.601 r_dihedral_angle_3_deg 16.168 r_dihedral_angle_1_deg 6.266 r_long_range_B_refined 4.989 r_long_range_B_other 4.989 r_mcangle_it 3.156 r_mcangle_other 3.156 r_scangle_other 2.964 r_mcbond_it 1.876 r_mcbond_other 1.876 r_scbond_it 1.739 r_scbond_other 1.739 r_angle_refined_deg 1.445 r_angle_other_deg 1.153 r_chiral_restr 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.005 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22403 Nucleic Acid Atoms Solvent Atoms 61 Heterogen Atoms 99
Software Software Software Name Purpose REFMAC refinement XDS data reduction autoPROC data scaling PHASER phasing