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Crystal structure of adenovirus 8 protease with a nitrile inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 Reservoir: 20% w/v PEG3350, 0.2 M Na citrate
Crystallization Protein Solution = 20 mg/ml adenain in 20 mM Tris, 100 mM NaCl, pH 7.6, nominal 5 mM inhibitor (precipitate)
Crystal Properties Matthews coefficient Solvent content 1.89 34.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.793 α = 90 b = 40.793 β = 90 c = 191.752 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 PIXEL DECTRIS PILATUS 6M 2012-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.3 35.33 98.6 0.129 0.153 6.73 3.37 15648 -3 30.486
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.36 98 0.388 0.481 2.24
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 THROUGHOUT 2.4 35.33 13048 687 98.77 0.2435 0.2393 0.2395 0.3209 0.3212 RANDOM 23.436
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] 0.14 0.07 0.14 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.48 r_dihedral_angle_4_deg 22.92 r_dihedral_angle_3_deg 19.699 r_dihedral_angle_1_deg 6.815 r_mcangle_it 2.42 r_angle_refined_deg 1.771 r_scbond_it 1.721 r_mcbond_it 1.542 r_chiral_restr 0.114 r_bond_refined_d 0.014
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.48 r_dihedral_angle_4_deg 22.92 r_dihedral_angle_3_deg 19.699 r_dihedral_angle_1_deg 6.815 r_mcangle_it 2.42 r_angle_refined_deg 1.771 r_scbond_it 1.721 r_mcbond_it 1.542 r_chiral_restr 0.114 r_bond_refined_d 0.014 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3394 Nucleic Acid Atoms Solvent Atoms 16 Heterogen Atoms 62
Software Software Software Name Purpose XDS data reduction REFMAC refinement PDB_EXTRACT data extraction XSCALE data scaling PHASER phasing