☰ Navigation Tabs
The Crystal Structure of a HK97 Family Phage Portal Protein from Corynebacterium diphtheriae to 2.9A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 10.5 277 1.2M Sodium phosphate dibasic/0.8M Potassium phosphate monobasic, CAPS pH 10.5, 0.2M Lithium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.16 70.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 340.068 α = 90 b = 340.068 β = 90 c = 340.068 γ = 90
Symmetry Space Group F 4 3 2
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 2008-06-30 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9794 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.9 40 98.5 0.149 5.6 9 37241
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.95 99.7 0.742 8.2
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 2.9 36.25 35341 1854 98.46 0.19993 0.19763 0.1983 0.24503 0.2431 RANDOM 12.901
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.988 r_dihedral_angle_4_deg 24.474 r_dihedral_angle_3_deg 21.863 r_dihedral_angle_1_deg 6.569 r_scangle_it 3.888 r_scbond_it 2.5 r_angle_refined_deg 1.776 r_mcangle_it 1.352 r_angle_other_deg 1.029 r_mcbond_it 0.698
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.988 r_dihedral_angle_4_deg 24.474 r_dihedral_angle_3_deg 21.863 r_dihedral_angle_1_deg 6.569 r_scangle_it 3.888 r_scbond_it 2.5 r_angle_refined_deg 1.776 r_mcangle_it 1.352 r_angle_other_deg 1.029 r_mcbond_it 0.698 r_mcbond_other 0.125 r_chiral_restr 0.097 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6278 Nucleic Acid Atoms Solvent Atoms 1 Heterogen Atoms 32
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling SHELX phasing DM phasing BUCCANEER phasing Coot model building