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Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 20% PEG4000, 100mM Tris-HCl, 10% glycerol, 10mM NAG6, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.06 40.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.947 α = 90 b = 69.226 β = 90 c = 70.791 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 315 MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 1.37 49.5 98.9 0.05 5 33.5 32430
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) 1 1.37 1.42 96.1 0.196 19.6 8.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1.37 49.5 30824 1606 98.99 0.20151 0.20009 0.2016 0.22931 0.2284 RANDOM 28.961
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] -0.06 -0.47 0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.658 r_dihedral_angle_4_deg 17.717 r_dihedral_angle_3_deg 13.14 r_dihedral_angle_1_deg 6.347 r_scangle_it 2.65 r_scbond_it 2.055 r_angle_refined_deg 1.567 r_mcangle_it 1.149 r_mcbond_it 0.856 r_nbtor_refined 0.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.658 r_dihedral_angle_4_deg 17.717 r_dihedral_angle_3_deg 13.14 r_dihedral_angle_1_deg 6.347 r_scangle_it 2.65 r_scbond_it 2.055 r_angle_refined_deg 1.567 r_mcangle_it 1.149 r_mcbond_it 0.856 r_nbtor_refined 0.317 r_nbd_refined 0.245 r_symmetry_hbond_refined 0.188 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.157 r_chiral_restr 0.093 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1296 Nucleic Acid Atoms Solvent Atoms 126 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling