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Major Tropism Determinant M1 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 = 93.534 α = 90 b = 93.534 β = 90 c = 103.146 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 1.86 50 98.8 42618 42618 -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 1.86 1.92 85.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1YU0 1.86 42.64 42618 42618 2147 98.66 0.16384 0.16384 0.1631 0.17761 0.1876 RANDOM 19.552
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 5.946 r_scangle_it 1.437 r_angle_refined_deg 0.986 r_scbond_it 0.856 r_angle_other_deg 0.761 r_mcangle_it 0.608 r_mcbond_it 0.319 r_symmetry_vdw_other 0.257 r_nbd_other 0.236 r_nbd_refined 0.191
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.946 r_scangle_it 1.437 r_angle_refined_deg 0.986 r_scbond_it 0.856 r_angle_other_deg 0.761 r_mcangle_it 0.608 r_mcbond_it 0.319 r_symmetry_vdw_other 0.257 r_nbd_other 0.236 r_nbd_refined 0.191 r_symmetry_vdw_refined 0.165 r_xyhbond_nbd_refined 0.09 r_symmetry_hbond_refined 0.085 r_nbtor_other 0.08 r_chiral_restr 0.062 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 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 2770 Nucleic Acid Atoms Solvent Atoms 352 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing