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A heptameric barrel state of a de novo coiled-coil assembly: CC-Type2-(MaId)4.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other model helices
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 292 After 1:1 dilution with the peptide solution, the resulting conditions were 250 mM ammonium sulfate and 50 mM 2-morpholinoethanesulfonic acid (MES).
Crystal Properties Matthews coefficient Solvent content 3.79 67.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.92 α = 90 b = 77.92 β = 90 c = 100.02 γ = 120
Symmetry Space Group P 31 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 100 PIXEL DECTRIS PILATUS 6M-F 2017-02-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9282 Diamond I04-1
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 1.62 55.94 99.7 0.106 0.109 0.025 1 16.4 19.4 45086 25.77
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 1.62 1.66 99.1 4.135 4.263 1.028 0.489 1 17.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT model helices 1.62 55.94 42856 2188 99.68 0.1907 0.1877 0.2017 0.2517 0.2551 RANDOM 33.413
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] -2.71 -1.36 -2.71 8.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.781 r_dihedral_angle_3_deg 13.665 r_rigid_bond_restr 4.757 r_dihedral_angle_1_deg 4.462 r_angle_refined_deg 1.627 r_angle_other_deg 1.51 r_chiral_restr 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.781 r_dihedral_angle_3_deg 13.665 r_rigid_bond_restr 4.757 r_dihedral_angle_1_deg 4.462 r_angle_refined_deg 1.627 r_angle_other_deg 1.51 r_chiral_restr 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1552 Nucleic Acid Atoms Solvent Atoms 94 Heterogen Atoms 144
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling xia2 data scaling PHASER phasing