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TAILSPIKE PROTEIN OF E. COLI BACTERIOPHAGE HK620 IN COMPLEX WITH PENTASACCHARIDE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VJI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 0.1 M TRIS-HCL, 3.5 M SODIUMFORMIATE
Crystal Properties Matthews coefficient Solvent content 2.16 43.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.32 α = 90 b = 74.32 β = 90 c = 174.871 γ = 120
Symmetry Space Group P 3 2 1
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 RAYONIX MX-225 MIRRORS 2012-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 1.0 BESSY 14.1
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 1.41 43.21 98.6 0.07 17 5.6 107055
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 1.41 1.43 87.8 0.728 2 4.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 2vji 1.41 43.21 107054 5344 98.6 0.149 0.147 0.177 0.1661 RANDOM 13.87
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] 0.21 0.1 0.21 -0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.593 r_dihedral_angle_4_deg 16.652 r_dihedral_angle_3_deg 10.736 r_dihedral_angle_1_deg 7.486 r_angle_refined_deg 1.914 r_angle_other_deg 0.965 r_mcangle_it 0.844 r_mcbond_it 0.58 r_mcbond_other 0.58 r_chiral_restr 0.174
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.593 r_dihedral_angle_4_deg 16.652 r_dihedral_angle_3_deg 10.736 r_dihedral_angle_1_deg 7.486 r_angle_refined_deg 1.914 r_angle_other_deg 0.965 r_mcangle_it 0.844 r_mcbond_it 0.58 r_mcbond_other 0.58 r_chiral_restr 0.174 r_bond_refined_d 0.019 r_gen_planes_refined 0.012 r_gen_planes_other 0.002 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_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4547 Nucleic Acid Atoms Solvent Atoms 804 Heterogen Atoms 102
Software Software Software Name Purpose REFMAC refinement XSCALE data reduction Aimless data scaling PHASER phasing