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YTFGQ segment from Human Immunoglobulin Light-Chain Variable Domain, Residues 96-100, assembled as an amyloid fibril
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.1 M Bis-Tris propane, 2.8 M Sodium Acetate
Crystal Properties Matthews coefficient Solvent content 1.31 6.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.78 α = 90 b = 4.81 β = 104.95 c = 18.91 γ = 90
Symmetry Space Group C 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 100 PIXEL DECTRIS PILATUS 6M-F 2015-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.885600 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 0.89 18.27 90.7 0.062 0.068 0.999 14.11 5.104 2477 7.31
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.89 0.92 49.8 0.218 0.258 0.942 3.15 3
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 AB INITIO PHASING THROUGHOUT NO Starting model, We used DIRECT METHODS 0.9 18.27 2228 248 90.83 0.0993 0.0971 0.0963 0.1198 0.1186 RANDOM 5.236
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] -0.23 0.01 -0.02 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 9.694 r_sphericity_bonded 7.013 r_dihedral_angle_3_deg 5.077 r_dihedral_angle_1_deg 4.457 r_angle_refined_deg 1.438 r_rigid_bond_restr 1.09 r_angle_other_deg 0.684 r_chiral_restr 0.161 r_bond_refined_d 0.013 r_gen_planes_refined 0.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 9.694 r_sphericity_bonded 7.013 r_dihedral_angle_3_deg 5.077 r_dihedral_angle_1_deg 4.457 r_angle_refined_deg 1.438 r_rigid_bond_restr 1.09 r_angle_other_deg 0.684 r_chiral_restr 0.161 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 44 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 13
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction SHELXD phasing