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Tailspike protein mutant E372Q of E. coli bacteriophage HK620
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VJI PDB ENTRY 2VJI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 PROTEIN WAS CRYSTALLISED FROM 3.5 M SODIUMFORMATE, 0.1 M TRIS-HCL, PH 8.5.
Crystal Properties Matthews coefficient Solvent content 2.17 43.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.271 α = 90 b = 74.271 β = 90 c = 174.665 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 MARMOSAIC 225 mm CCD MIRRORS 2012-02-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 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 1.82 50 99.7 0.06 19.9 3.9 50917 -3 16.3
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 1.82 1.93 99.2 0.37 4.5 5.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2VJI 1.82 36.128 50915 2546 99.734 0.169 0.1672 0.1673 0.1951 0.1967 RANDOM 14.18
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] 0.923 0.462 0.923 -1.385
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.444 r_dihedral_angle_4_deg 17.614 r_dihedral_angle_3_deg 11.775 r_dihedral_angle_1_deg 7.579 r_scangle_it 3.697 r_scbond_it 2.344 r_angle_refined_deg 1.8 r_mcangle_it 1.341 r_angle_other_deg 1.006 r_mcbond_it 0.879
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.444 r_dihedral_angle_4_deg 17.614 r_dihedral_angle_3_deg 11.775 r_dihedral_angle_1_deg 7.579 r_scangle_it 3.697 r_scbond_it 2.344 r_angle_refined_deg 1.8 r_mcangle_it 1.341 r_angle_other_deg 1.006 r_mcbond_it 0.879 r_nbd_refined 0.242 r_mcbond_other 0.193 r_nbd_other 0.186 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.118 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbtor_other 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_other 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 4539 Nucleic Acid Atoms Solvent Atoms 337 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing