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Major Tropism Determinant I1 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 7.5 298 Isopropanol, Sodium Citrate, HEPES, pH 7.5, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.1 60.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.308 α = 90 b = 92.308 β = 90 c = 102.29 γ = 120
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 ROTATING ANODE RIGAKU 1.5479
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 2.52 50 99.9 16724 16724 -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 2.52 2.61 99.5
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 2.52 25.94 16724 16724 849 99.92 0.17254 0.17254 0.17042 0.1737 0.21304 0.2181 RANDOM 23.307
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] 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.846 r_dihedral_angle_4_deg 17.972 r_dihedral_angle_3_deg 13.567 r_dihedral_angle_1_deg 5.788 r_scangle_it 1.372 r_angle_refined_deg 1.013 r_scbond_it 0.858 r_mcangle_it 0.554 r_nbtor_refined 0.303 r_mcbond_it 0.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.846 r_dihedral_angle_4_deg 17.972 r_dihedral_angle_3_deg 13.567 r_dihedral_angle_1_deg 5.788 r_scangle_it 1.372 r_angle_refined_deg 1.013 r_scbond_it 0.858 r_mcangle_it 0.554 r_nbtor_refined 0.303 r_mcbond_it 0.296 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.179 r_xyhbond_nbd_refined 0.113 r_symmetry_hbond_refined 0.073 r_chiral_restr 0.07 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 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 2759 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing