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Identification of an Immunodominant region on a Group A Streptococcus T-antigen Reveals Temperature-Dependent Motion in Pili
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6N0A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.12M 1,6-Hexanediol, 0.12M 1-Butanol, 0.12M 1,2-Propanediol, 0.12M 2-Propanol, 0.12M 1,4-Butanediol, 0.12M 1,3-Propanediol, 0.1M Sodium HEPES, 0.1M MOPS (acid), 20% v/v Ethylene glycol, 10 % w/v PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.45 49.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.294 α = 90 b = 46.976 β = 90.12 c = 380.633 γ = 90
Symmetry Space Group I 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 PIXEL DECTRIS EIGER X 16M 2018-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95374 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 2.29 47.58 99.4 0.154 0.17 0.071 0.993 7.2 5.3 27529
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.29 2.37 95 1.09 1.206 0.506 0.714 5.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 6N0A 2.29 47.58 26169 1357 99.36 0.19261 0.18945 0.25366 0.2455 RANDOM 36.739
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] 2.29 -0.24 1.2 -3.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.215 r_dihedral_angle_4_deg 14.337 r_dihedral_angle_3_deg 13.634 r_dihedral_angle_1_deg 7.554 r_long_range_B_refined 7.282 r_long_range_B_other 7.253 r_scangle_other 5.593 r_mcangle_other 4.363 r_mcangle_it 4.362 r_scbond_it 3.469
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.215 r_dihedral_angle_4_deg 14.337 r_dihedral_angle_3_deg 13.634 r_dihedral_angle_1_deg 7.554 r_long_range_B_refined 7.282 r_long_range_B_other 7.253 r_scangle_other 5.593 r_mcangle_other 4.363 r_mcangle_it 4.362 r_scbond_it 3.469 r_scbond_other 3.464 r_mcbond_it 2.821 r_mcbond_other 2.815 r_angle_refined_deg 1.489 r_angle_other_deg 1.22 r_chiral_restr 0.055 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4303 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 2
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing REFMAC refinement