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Major Tropism Determinant U1 Variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YU0 PDB entry 1YU0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 298 PEG 4K, MOPS, Magnesium Chloride, pH 6.5, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.65 66.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.684 α = 90 b = 129.438 β = 90 c = 312.649 γ = 90
Symmetry Space Group I 2 2 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.87 50 99.7 144743 144743 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.87 1.94 99
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1YU0 1.87 22.4 144743 144743 7259 99.65 0.18586 0.18586 0.18457 0.1937 0.21024 0.2168 RANDOM 20.703
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_1_deg 6.036 r_scangle_it 1.658 r_scbond_it 1.007 r_angle_refined_deg 0.989 r_angle_other_deg 0.748 r_mcangle_it 0.704 r_mcbond_it 0.376 r_symmetry_vdw_other 0.301 r_nbd_other 0.232 r_nbd_refined 0.183
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.036 r_scangle_it 1.658 r_scbond_it 1.007 r_angle_refined_deg 0.989 r_angle_other_deg 0.748 r_mcangle_it 0.704 r_mcbond_it 0.376 r_symmetry_vdw_other 0.301 r_nbd_other 0.232 r_nbd_refined 0.183 r_xyhbond_nbd_refined 0.116 r_symmetry_hbond_refined 0.113 r_nbtor_other 0.08 r_symmetry_vdw_refined 0.075 r_chiral_restr 0.061 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 8238 Nucleic Acid Atoms Solvent Atoms 1167 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing