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Crystal structure of measles virus fusion inhibitor M1EK complexed with F protein HR1 (HR1-42) (P21 space group)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SVF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 200 mM MgCl2, 24% (w/v) PEG 3350, 100 mM BIS-TRIS (pH 5.5)
Crystal Properties Matthews coefficient Solvent content 2.2 44.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.843 α = 90 b = 35.58 β = 93.982 c = 237.649 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS3 6M 2019-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1.000000 SPring-8 BL45XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) CC (Half) 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 2.362 50 99.5 0.057 0.999 18.68 6.59 39067
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.362 2.5 97.9 0.528 0.965 2.82 6.46
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.362 49.105 39054 1953 99.518 0.22 0.2153 0.2229 0.3006 0.3014 65.125
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] 3.605 -0.173 4.568 -8.071
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.991 r_dihedral_angle_3_deg 19.315 r_dihedral_angle_4_deg 18.134 r_lrange_it 11.824 r_lrange_other 11.824 r_scangle_it 9.759 r_scangle_other 9.758 r_mcangle_it 7.691 r_mcangle_other 7.686 r_scbond_it 6.412
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.991 r_dihedral_angle_3_deg 19.315 r_dihedral_angle_4_deg 18.134 r_lrange_it 11.824 r_lrange_other 11.824 r_scangle_it 9.759 r_scangle_other 9.758 r_mcangle_it 7.691 r_mcangle_other 7.686 r_scbond_it 6.412 r_scbond_other 6.411 r_mcbond_it 5.492 r_mcbond_other 5.48 r_dihedral_angle_1_deg 5.175 r_angle_refined_deg 1.535 r_angle_other_deg 1.253 r_symmetry_nbd_refined 0.244 r_nbd_refined 0.222 r_symmetry_xyhbond_nbd_refined 0.211 r_nbd_other 0.2 r_symmetry_nbd_other 0.171 r_xyhbond_nbd_refined 0.158 r_nbtor_refined 0.145 r_symmetry_nbtor_other 0.1 r_chiral_restr 0.072 r_symmetry_xyhbond_nbd_other 0.02 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7500 Nucleic Acid Atoms Solvent Atoms 111 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing