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Solution structure of the respiratory syncytial virus (RSV)six-helix bundle complexed with TMC353121, a small-moleucule inhibitor of RSV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G2C PDB entry 1G2C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 30% (v/v) PEG-400 + 100 mM HEPES, pH 7.5 + 200 mM NaCl, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.13 42.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.248 α = 90 b = 63.248 β = 90 c = 63.248 γ = 90
Symmetry Space Group P 21 3
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 ADSC QUANTUM 210 2007-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 1.0 ALS 5.0.1
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 1.47 19.07 99.9 14912 14596 1 1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 1G2C 1.47 19.07 1 14612 13877 735 100 0.1892 0.16489 0.16329 0.1641 0.19638 0.1943 RANDOM 21.481
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_2_deg 37.242 r_dihedral_angle_3_deg 14.094 r_scangle_it 4.043 r_dihedral_angle_1_deg 3.953 r_dihedral_angle_4_deg 3.328 r_scbond_it 3.153 r_mcbond_it 1.782 r_mcangle_it 1.772 r_angle_refined_deg 1.736 r_angle_other_deg 0.773
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.242 r_dihedral_angle_3_deg 14.094 r_scangle_it 4.043 r_dihedral_angle_1_deg 3.953 r_dihedral_angle_4_deg 3.328 r_scbond_it 3.153 r_mcbond_it 1.782 r_mcangle_it 1.772 r_angle_refined_deg 1.736 r_angle_other_deg 0.773 r_xyhbond_nbd_refined 0.322 r_mcbond_other 0.304 r_nbd_refined 0.24 r_symmetry_hbond_refined 0.24 r_symmetry_vdw_other 0.203 r_nbtor_refined 0.186 r_symmetry_vdw_refined 0.167 r_nbd_other 0.162 r_nbtor_other 0.089 r_chiral_restr 0.071 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 643 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms 54
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction TRUNCATE data scaling