data_8CEB # _entry.id 8CEB # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.369 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8CEB pdb_00008ceb 10.2210/pdb8ceb/pdb WWPDB D_1292128310 ? ? EMDB EMD-16603 ? ? # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Type2 alpha-synuclein filament assembled in vitro by wild-type and mutant (7 residues insertion) protein' _pdbx_database_related.db_id EMD-16603 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8CEB _pdbx_database_status.recvd_initial_deposition_date 2023-02-01 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Yang, Y.' 1 ? 'Garringer, J.H.' 2 ? 'Shi, Y.' 3 ? 'Lovestam, S.' 4 ? 'Sew, P.C.' 5 ? 'Zhang, X.J.' 6 ? 'Kotecha, A.' 7 ? 'Bacioglu, M.' 8 ? 'Koto, A.' 9 ? 'Takao, M.' 10 ? 'Spillantini, G.M.' 11 ? 'Ghetti, B.' 12 ? 'Vidal, R.' 13 ? 'Murzin, G.A.' 14 ? 'Scheres, H.W.S.' 15 ? 'Goedert, M.' 16 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country DE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Acta Neuropathol' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1432-0533 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 145 _citation.language ? _citation.page_first 561 _citation.page_last 572 _citation.title 'New SNCA mutation and structures of alpha-synuclein filaments from juvenile-onset synucleinopathy.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1007/s00401-023-02550-8 _citation.pdbx_database_id_PubMed 36847833 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yang, Y.' 1 ? primary 'Garringer, H.J.' 2 ? primary 'Shi, Y.' 3 ? primary 'Lovestam, S.' 4 ? primary 'Peak-Chew, S.' 5 ? primary 'Zhang, X.' 6 ? primary 'Kotecha, A.' 7 ? primary 'Bacioglu, M.' 8 ? primary 'Koto, A.' 9 ? primary 'Takao, M.' 10 ? primary 'Spillantini, M.G.' 11 ? primary 'Ghetti, B.' 12 ? primary 'Vidal, R.' 13 ? primary 'Murzin, A.G.' 14 ? primary 'Scheres, S.H.W.' 15 ? primary 'Goedert, M.' 16 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 8CEB _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.00 _cell.length_a_esd ? _cell.length_b 1.00 _cell.length_b_esd ? _cell.length_c 1.00 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB ? _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8CEB _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description Alpha-synuclein _entity.formula_weight 14476.108 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Non-A beta component of AD amyloid,Non-A4 component of amyloid precursor,NACP' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;MDVFMKGLSKAKEGVVAAAEKTKQGVAEAAGKTKEGVLYVGSKTKEGVVHGVATVAEKTKEQVTNVGGAVVTGVTAVAQK TVEGAGSIAAATGFVKKDQLGKNEEGAPQEGILEDMPVDPDNEAYEMPSEEGYQDYEPEA ; _entity_poly.pdbx_seq_one_letter_code_can ;MDVFMKGLSKAKEGVVAAAEKTKQGVAEAAGKTKEGVLYVGSKTKEGVVHGVATVAEKTKEQVTNVGGAVVTGVTAVAQK TVEGAGSIAAATGFVKKDQLGKNEEGAPQEGILEDMPVDPDNEAYEMPSEEGYQDYEPEA ; _entity_poly.pdbx_strand_id A,C _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 ASP n 1 3 VAL n 1 4 PHE n 1 5 MET n 1 6 LYS n 1 7 GLY n 1 8 LEU n 1 9 SER n 1 10 LYS n 1 11 ALA n 1 12 LYS n 1 13 GLU n 1 14 GLY n 1 15 VAL n 1 16 VAL n 1 17 ALA n 1 18 ALA n 1 19 ALA n 1 20 GLU n 1 21 LYS n 1 22 THR n 1 23 LYS n 1 24 GLN n 1 25 GLY n 1 26 VAL n 1 27 ALA n 1 28 GLU n 1 29 ALA n 1 30 ALA n 1 31 GLY n 1 32 LYS n 1 33 THR n 1 34 LYS n 1 35 GLU n 1 36 GLY n 1 37 VAL n 1 38 LEU n 1 39 TYR n 1 40 VAL n 1 41 GLY n 1 42 SER n 1 43 LYS n 1 44 THR n 1 45 LYS n 1 46 GLU n 1 47 GLY n 1 48 VAL n 1 49 VAL n 1 50 HIS n 1 51 GLY n 1 52 VAL n 1 53 ALA n 1 54 THR n 1 55 VAL n 1 56 ALA n 1 57 GLU n 1 58 LYS n 1 59 THR n 1 60 LYS n 1 61 GLU n 1 62 GLN n 1 63 VAL n 1 64 THR n 1 65 ASN n 1 66 VAL n 1 67 GLY n 1 68 GLY n 1 69 ALA n 1 70 VAL n 1 71 VAL n 1 72 THR n 1 73 GLY n 1 74 VAL n 1 75 THR n 1 76 ALA n 1 77 VAL n 1 78 ALA n 1 79 GLN n 1 80 LYS n 1 81 THR n 1 82 VAL n 1 83 GLU n 1 84 GLY n 1 85 ALA n 1 86 GLY n 1 87 SER n 1 88 ILE n 1 89 ALA n 1 90 ALA n 1 91 ALA n 1 92 THR n 1 93 GLY n 1 94 PHE n 1 95 VAL n 1 96 LYS n 1 97 LYS n 1 98 ASP n 1 99 GLN n 1 100 LEU n 1 101 GLY n 1 102 LYS n 1 103 ASN n 1 104 GLU n 1 105 GLU n 1 106 GLY n 1 107 ALA n 1 108 PRO n 1 109 GLN n 1 110 GLU n 1 111 GLY n 1 112 ILE n 1 113 LEU n 1 114 GLU n 1 115 ASP n 1 116 MET n 1 117 PRO n 1 118 VAL n 1 119 ASP n 1 120 PRO n 1 121 ASP n 1 122 ASN n 1 123 GLU n 1 124 ALA n 1 125 TYR n 1 126 GLU n 1 127 MET n 1 128 PRO n 1 129 SER n 1 130 GLU n 1 131 GLU n 1 132 GLY n 1 133 TYR n 1 134 GLN n 1 135 ASP n 1 136 TYR n 1 137 GLU n 1 138 PRO n 1 139 GLU n 1 140 ALA n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 140 _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'SNCA, NACP, PARK1' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code SYUA_HUMAN _struct_ref.pdbx_db_accession P37840 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MDVFMKGLSKAKEGVVAAAEKTKQGVAEAAGKTKEGVLYVGSKTKEGVVHGVATVAEKTKEQVTNVGGAVVTGVTAVAQK TVEGAGSIAAATGFVKKDQLGKNEEGAPQEGILEDMPVDPDNEAYEMPSEEGYQDYEPEA ; _struct_ref.pdbx_align_begin 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 8CEB A 1 ? 140 ? P37840 1 ? 140 ? 1 140 2 1 8CEB C 1 ? 140 ? P37840 1 ? 140 ? 1 140 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 8CEB _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 67.895 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.756 _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 8CEB _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.70 _refine.ls_d_res_low 108.77 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 49283 _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 100.00 _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.44417 _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.44417 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'PARAMETERS FOR MASK CACLULATION' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.157 _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id ? _refine.overall_SU_B 8.874 _refine.overall_SU_ML 0.178 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id 1 _refine_hist.details ? _refine_hist.d_res_high . _refine_hist.d_res_low . _refine_hist.number_atoms_solvent ? _refine_hist.number_atoms_total 788 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein ? _refine_hist.pdbx_number_atoms_nucleic_acid ? _refine_hist.pdbx_number_atoms_ligand ? _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.007 0.011 790 ? r_bond_refined_d ? ? 'ELECTRON MICROSCOPY' ? 0.001 0.016 808 ? r_bond_other_d ? ? 'ELECTRON MICROSCOPY' ? 1.538 1.641 1066 ? r_angle_refined_deg ? ? 'ELECTRON MICROSCOPY' ? 0.626 1.572 1868 ? r_angle_other_deg ? ? 'ELECTRON MICROSCOPY' ? 8.671 5.000 114 ? r_dihedral_angle_1_deg ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_dihedral_angle_2_deg ? ? 'ELECTRON MICROSCOPY' ? 12.615 10.000 136 ? r_dihedral_angle_3_deg ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_dihedral_angle_4_deg ? ? 'ELECTRON MICROSCOPY' ? 0.085 0.200 142 ? r_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.007 0.020 880 ? r_gen_planes_refined ? ? 'ELECTRON MICROSCOPY' ? 0.003 0.020 128 ? r_gen_planes_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbd_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbd_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbtor_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbtor_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_metal_ion_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_metal_ion_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_vdw_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_hbond_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'ELECTRON MICROSCOPY' ? 6.046 5.987 462 ? r_mcbond_it ? ? 'ELECTRON MICROSCOPY' ? 6.046 5.986 462 ? r_mcbond_other ? ? 'ELECTRON MICROSCOPY' ? 8.906 8.990 574 ? r_mcangle_it ? ? 'ELECTRON MICROSCOPY' ? 8.901 9.007 575 ? r_mcangle_other ? ? 'ELECTRON MICROSCOPY' ? 9.587 7.822 328 ? r_scbond_it ? ? 'ELECTRON MICROSCOPY' ? 9.573 7.836 329 ? r_scbond_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_scangle_it ? ? 'ELECTRON MICROSCOPY' ? 15.996 10.898 493 ? r_scangle_other ? ? 'ELECTRON MICROSCOPY' ? 19.450 78.301 760 ? r_long_range_B_refined ? ? 'ELECTRON MICROSCOPY' ? 19.452 78.491 760 ? r_long_range_B_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_rigid_bond_restr ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_sphericity_free ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_ls_shell.d_res_high 2.700 _refine_ls_shell.d_res_low 2.770 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 0 _refine_ls_shell.number_reflns_R_work 3613 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 1.042 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_R_complete ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? _refine_ls_shell.R_factor_R_free 0.000 # loop_ _struct_ncs_oper.id _struct_ncs_oper.code _struct_ncs_oper.details _struct_ncs_oper.matrix[1][1] _struct_ncs_oper.matrix[1][2] _struct_ncs_oper.matrix[1][3] _struct_ncs_oper.matrix[2][1] _struct_ncs_oper.matrix[2][2] _struct_ncs_oper.matrix[2][3] _struct_ncs_oper.matrix[3][1] _struct_ncs_oper.matrix[3][2] _struct_ncs_oper.matrix[3][3] _struct_ncs_oper.vector[1] _struct_ncs_oper.vector[2] _struct_ncs_oper.vector[3] 1 given ? 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 2 generate ? 0.999882 -0.015393 0.000000 0.015393 0.999882 0.000000 0.000000 0.000000 1.000000 1.63605 -1.61105 -4.76672 3 generate ? 0.999882 0.015393 0.000000 -0.015393 0.999882 0.000000 0.000000 0.000000 1.000000 -1.61105 1.63605 4.76672 # _struct.entry_id 8CEB _struct.title 'Type2 alpha-synuclein filament assembled in vitro by wild-type and mutant (7 residues insertion) protein' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 8CEB _struct_keywords.text 'alpha-synuclein, amyloid, fibril, insertion, mutation, in vitro, recombinant, synucleinopathy, PROTEIN FIBRIL' _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? # _atom_sites.entry_id 8CEB _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MET 1 1 ? ? ? A . n A 1 2 ASP 2 2 ? ? ? A . n A 1 3 VAL 3 3 ? ? ? A . n A 1 4 PHE 4 4 ? ? ? A . n A 1 5 MET 5 5 ? ? ? A . n A 1 6 LYS 6 6 ? ? ? A . n A 1 7 GLY 7 7 ? ? ? A . n A 1 8 LEU 8 8 ? ? ? A . n A 1 9 SER 9 9 ? ? ? A . n A 1 10 LYS 10 10 ? ? ? A . n A 1 11 ALA 11 11 ? ? ? A . n A 1 12 LYS 12 12 ? ? ? A . n A 1 13 GLU 13 13 ? ? ? A . n A 1 14 GLY 14 14 ? ? ? A . n A 1 15 VAL 15 15 ? ? ? A . n A 1 16 VAL 16 16 ? ? ? A . n A 1 17 ALA 17 17 ? ? ? A . n A 1 18 ALA 18 18 ? ? ? A . n A 1 19 ALA 19 19 ? ? ? A . n A 1 20 GLU 20 20 ? ? ? A . n A 1 21 LYS 21 21 ? ? ? A . n A 1 22 THR 22 22 ? ? ? A . n A 1 23 LYS 23 23 ? ? ? A . n A 1 24 GLN 24 24 ? ? ? A . n A 1 25 GLY 25 25 ? ? ? A . n A 1 26 VAL 26 26 ? ? ? A . n A 1 27 ALA 27 27 ? ? ? A . n A 1 28 GLU 28 28 ? ? ? A . n A 1 29 ALA 29 29 ? ? ? A . n A 1 30 ALA 30 30 ? ? ? A . n A 1 31 GLY 31 31 ? ? ? A . n A 1 32 LYS 32 32 ? ? ? A . n A 1 33 THR 33 33 ? ? ? A . n A 1 34 LYS 34 34 ? ? ? A . n A 1 35 GLU 35 35 ? ? ? A . n A 1 36 GLY 36 36 ? ? ? A . n A 1 37 VAL 37 37 ? ? ? A . n A 1 38 LEU 38 38 ? ? ? A . n A 1 39 TYR 39 39 ? ? ? A . n A 1 40 VAL 40 40 40 VAL VAL A . n A 1 41 GLY 41 41 41 GLY GLY A . n A 1 42 SER 42 42 42 SER SER A . n A 1 43 LYS 43 43 43 LYS LYS A . n A 1 44 THR 44 44 44 THR THR A . n A 1 45 LYS 45 45 45 LYS LYS A . n A 1 46 GLU 46 46 46 GLU GLU A . n A 1 47 GLY 47 47 47 GLY GLY A . n A 1 48 VAL 48 48 48 VAL VAL A . n A 1 49 VAL 49 49 49 VAL VAL A . n A 1 50 HIS 50 50 50 HIS HIS A . n A 1 51 GLY 51 51 51 GLY GLY A . n A 1 52 VAL 52 52 52 VAL VAL A . n A 1 53 ALA 53 53 53 ALA ALA A . n A 1 54 THR 54 54 54 THR THR A . n A 1 55 VAL 55 55 55 VAL VAL A . n A 1 56 ALA 56 56 56 ALA ALA A . n A 1 57 GLU 57 57 57 GLU GLU A . n A 1 58 LYS 58 58 58 LYS LYS A . n A 1 59 THR 59 59 59 THR THR A . n A 1 60 LYS 60 60 60 LYS LYS A . n A 1 61 GLU 61 61 61 GLU GLU A . n A 1 62 GLN 62 62 62 GLN GLN A . n A 1 63 VAL 63 63 63 VAL VAL A . n A 1 64 THR 64 64 64 THR THR A . n A 1 65 ASN 65 65 65 ASN ASN A . n A 1 66 VAL 66 66 66 VAL VAL A . n A 1 67 GLY 67 67 67 GLY GLY A . n A 1 68 GLY 68 68 68 GLY GLY A . n A 1 69 ALA 69 69 69 ALA ALA A . n A 1 70 VAL 70 70 70 VAL VAL A . n A 1 71 VAL 71 71 71 VAL VAL A . n A 1 72 THR 72 72 72 THR THR A . n A 1 73 GLY 73 73 73 GLY GLY A . n A 1 74 VAL 74 74 74 VAL VAL A . n A 1 75 THR 75 75 75 THR THR A . n A 1 76 ALA 76 76 76 ALA ALA A . n A 1 77 VAL 77 77 77 VAL VAL A . n A 1 78 ALA 78 78 78 ALA ALA A . n A 1 79 GLN 79 79 79 GLN GLN A . n A 1 80 LYS 80 80 80 LYS LYS A . n A 1 81 THR 81 81 81 THR THR A . n A 1 82 VAL 82 82 82 VAL VAL A . n A 1 83 GLU 83 83 83 GLU GLU A . n A 1 84 GLY 84 84 84 GLY GLY A . n A 1 85 ALA 85 85 85 ALA ALA A . n A 1 86 GLY 86 86 86 GLY GLY A . n A 1 87 SER 87 87 87 SER SER A . n A 1 88 ILE 88 88 88 ILE ILE A . n A 1 89 ALA 89 89 89 ALA ALA A . n A 1 90 ALA 90 90 90 ALA ALA A . n A 1 91 ALA 91 91 91 ALA ALA A . n A 1 92 THR 92 92 92 THR THR A . n A 1 93 GLY 93 93 93 GLY GLY A . n A 1 94 PHE 94 94 94 PHE PHE A . n A 1 95 VAL 95 95 95 VAL VAL A . n A 1 96 LYS 96 96 96 LYS LYS A . n A 1 97 LYS 97 97 97 LYS LYS A . n A 1 98 ASP 98 98 ? ? ? A . n A 1 99 GLN 99 99 ? ? ? A . n A 1 100 LEU 100 100 ? ? ? A . n A 1 101 GLY 101 101 ? ? ? A . n A 1 102 LYS 102 102 ? ? ? A . n A 1 103 ASN 103 103 ? ? ? A . n A 1 104 GLU 104 104 ? ? ? A . n A 1 105 GLU 105 105 ? ? ? A . n A 1 106 GLY 106 106 ? ? ? A . n A 1 107 ALA 107 107 ? ? ? A . n A 1 108 PRO 108 108 ? ? ? A . n A 1 109 GLN 109 109 ? ? ? A . n A 1 110 GLU 110 110 ? ? ? A . n A 1 111 GLY 111 111 ? ? ? A . n A 1 112 ILE 112 112 ? ? ? A . n A 1 113 LEU 113 113 ? ? ? A . n A 1 114 GLU 114 114 ? ? ? A . n A 1 115 ASP 115 115 ? ? ? A . n A 1 116 MET 116 116 ? ? ? A . n A 1 117 PRO 117 117 ? ? ? A . n A 1 118 VAL 118 118 ? ? ? A . n A 1 119 ASP 119 119 ? ? ? A . n A 1 120 PRO 120 120 ? ? ? A . n A 1 121 ASP 121 121 ? ? ? A . n A 1 122 ASN 122 122 ? ? ? A . n A 1 123 GLU 123 123 ? ? ? A . n A 1 124 ALA 124 124 ? ? ? A . n A 1 125 TYR 125 125 ? ? ? A . n A 1 126 GLU 126 126 ? ? ? A . n A 1 127 MET 127 127 ? ? ? A . n A 1 128 PRO 128 128 ? ? ? A . n A 1 129 SER 129 129 ? ? ? A . n A 1 130 GLU 130 130 ? ? ? A . n A 1 131 GLU 131 131 ? ? ? A . n A 1 132 GLY 132 132 ? ? ? A . n A 1 133 TYR 133 133 ? ? ? A . n A 1 134 GLN 134 134 ? ? ? A . n A 1 135 ASP 135 135 ? ? ? A . n A 1 136 TYR 136 136 ? ? ? A . n A 1 137 GLU 137 137 ? ? ? A . n A 1 138 PRO 138 138 ? ? ? A . n A 1 139 GLU 139 139 ? ? ? A . n A 1 140 ALA 140 140 ? ? ? A . n B 1 1 MET 1 1 ? ? ? C . n B 1 2 ASP 2 2 ? ? ? C . n B 1 3 VAL 3 3 ? ? ? C . n B 1 4 PHE 4 4 ? ? ? C . n B 1 5 MET 5 5 ? ? ? C . n B 1 6 LYS 6 6 ? ? ? C . n B 1 7 GLY 7 7 ? ? ? C . n B 1 8 LEU 8 8 ? ? ? C . n B 1 9 SER 9 9 ? ? ? C . n B 1 10 LYS 10 10 ? ? ? C . n B 1 11 ALA 11 11 ? ? ? C . n B 1 12 LYS 12 12 ? ? ? C . n B 1 13 GLU 13 13 ? ? ? C . n B 1 14 GLY 14 14 ? ? ? C . n B 1 15 VAL 15 15 ? ? ? C . n B 1 16 VAL 16 16 ? ? ? C . n B 1 17 ALA 17 17 ? ? ? C . n B 1 18 ALA 18 18 ? ? ? C . n B 1 19 ALA 19 19 ? ? ? C . n B 1 20 GLU 20 20 ? ? ? C . n B 1 21 LYS 21 21 ? ? ? C . n B 1 22 THR 22 22 ? ? ? C . n B 1 23 LYS 23 23 ? ? ? C . n B 1 24 GLN 24 24 ? ? ? C . n B 1 25 GLY 25 25 ? ? ? C . n B 1 26 VAL 26 26 ? ? ? C . n B 1 27 ALA 27 27 ? ? ? C . n B 1 28 GLU 28 28 ? ? ? C . n B 1 29 ALA 29 29 ? ? ? C . n B 1 30 ALA 30 30 ? ? ? C . n B 1 31 GLY 31 31 ? ? ? C . n B 1 32 LYS 32 32 ? ? ? C . n B 1 33 THR 33 33 ? ? ? C . n B 1 34 LYS 34 34 ? ? ? C . n B 1 35 GLU 35 35 ? ? ? C . n B 1 36 GLY 36 36 ? ? ? C . n B 1 37 VAL 37 37 ? ? ? C . n B 1 38 LEU 38 38 ? ? ? C . n B 1 39 TYR 39 39 ? ? ? C . n B 1 40 VAL 40 40 40 VAL VAL C . n B 1 41 GLY 41 41 41 GLY GLY C . n B 1 42 SER 42 42 42 SER SER C . n B 1 43 LYS 43 43 43 LYS LYS C . n B 1 44 THR 44 44 44 THR THR C . n B 1 45 LYS 45 45 45 LYS LYS C . n B 1 46 GLU 46 46 46 GLU GLU C . n B 1 47 GLY 47 47 47 GLY GLY C . n B 1 48 VAL 48 48 48 VAL VAL C . n B 1 49 VAL 49 49 49 VAL VAL C . n B 1 50 HIS 50 50 50 HIS HIS C . n B 1 51 GLY 51 51 51 GLY GLY C . n B 1 52 VAL 52 52 52 VAL VAL C . n B 1 53 ALA 53 53 53 ALA ALA C . n B 1 54 THR 54 54 54 THR THR C . n B 1 55 VAL 55 55 55 VAL VAL C . n B 1 56 ALA 56 56 56 ALA ALA C . n B 1 57 GLU 57 57 57 GLU GLU C . n B 1 58 LYS 58 58 58 LYS LYS C . n B 1 59 THR 59 59 59 THR THR C . n B 1 60 LYS 60 60 60 LYS LYS C . n B 1 61 GLU 61 61 61 GLU GLU C . n B 1 62 GLN 62 62 62 GLN GLN C . n B 1 63 VAL 63 63 63 VAL VAL C . n B 1 64 THR 64 64 64 THR THR C . n B 1 65 ASN 65 65 65 ASN ASN C . n B 1 66 VAL 66 66 66 VAL VAL C . n B 1 67 GLY 67 67 67 GLY GLY C . n B 1 68 GLY 68 68 68 GLY GLY C . n B 1 69 ALA 69 69 69 ALA ALA C . n B 1 70 VAL 70 70 70 VAL VAL C . n B 1 71 VAL 71 71 71 VAL VAL C . n B 1 72 THR 72 72 72 THR THR C . n B 1 73 GLY 73 73 73 GLY GLY C . n B 1 74 VAL 74 74 74 VAL VAL C . n B 1 75 THR 75 75 75 THR THR C . n B 1 76 ALA 76 76 76 ALA ALA C . n B 1 77 VAL 77 77 77 VAL VAL C . n B 1 78 ALA 78 78 78 ALA ALA C . n B 1 79 GLN 79 79 79 GLN GLN C . n B 1 80 LYS 80 80 80 LYS LYS C . n B 1 81 THR 81 81 81 THR THR C . n B 1 82 VAL 82 82 82 VAL VAL C . n B 1 83 GLU 83 83 83 GLU GLU C . n B 1 84 GLY 84 84 84 GLY GLY C . n B 1 85 ALA 85 85 85 ALA ALA C . n B 1 86 GLY 86 86 86 GLY GLY C . n B 1 87 SER 87 87 87 SER SER C . n B 1 88 ILE 88 88 88 ILE ILE C . n B 1 89 ALA 89 89 89 ALA ALA C . n B 1 90 ALA 90 90 90 ALA ALA C . n B 1 91 ALA 91 91 91 ALA ALA C . n B 1 92 THR 92 92 92 THR THR C . n B 1 93 GLY 93 93 93 GLY GLY C . n B 1 94 PHE 94 94 94 PHE PHE C . n B 1 95 VAL 95 95 95 VAL VAL C . n B 1 96 LYS 96 96 96 LYS LYS C . n B 1 97 LYS 97 97 97 LYS LYS C . n B 1 98 ASP 98 98 ? ? ? C . n B 1 99 GLN 99 99 ? ? ? C . n B 1 100 LEU 100 100 ? ? ? C . n B 1 101 GLY 101 101 ? ? ? C . n B 1 102 LYS 102 102 ? ? ? C . n B 1 103 ASN 103 103 ? ? ? C . n B 1 104 GLU 104 104 ? ? ? C . n B 1 105 GLU 105 105 ? ? ? C . n B 1 106 GLY 106 106 ? ? ? C . n B 1 107 ALA 107 107 ? ? ? C . n B 1 108 PRO 108 108 ? ? ? C . n B 1 109 GLN 109 109 ? ? ? C . n B 1 110 GLU 110 110 ? ? ? C . n B 1 111 GLY 111 111 ? ? ? C . n B 1 112 ILE 112 112 ? ? ? C . n B 1 113 LEU 113 113 ? ? ? C . n B 1 114 GLU 114 114 ? ? ? C . n B 1 115 ASP 115 115 ? ? ? C . n B 1 116 MET 116 116 ? ? ? C . n B 1 117 PRO 117 117 ? ? ? C . n B 1 118 VAL 118 118 ? ? ? C . n B 1 119 ASP 119 119 ? ? ? C . n B 1 120 PRO 120 120 ? ? ? C . n B 1 121 ASP 121 121 ? ? ? C . n B 1 122 ASN 122 122 ? ? ? C . n B 1 123 GLU 123 123 ? ? ? C . n B 1 124 ALA 124 124 ? ? ? C . n B 1 125 TYR 125 125 ? ? ? C . n B 1 126 GLU 126 126 ? ? ? C . n B 1 127 MET 127 127 ? ? ? C . n B 1 128 PRO 128 128 ? ? ? C . n B 1 129 SER 129 129 ? ? ? C . n B 1 130 GLU 130 130 ? ? ? C . n B 1 131 GLU 131 131 ? ? ? C . n B 1 132 GLY 132 132 ? ? ? C . n B 1 133 TYR 133 133 ? ? ? C . n B 1 134 GLN 134 134 ? ? ? C . n B 1 135 ASP 135 135 ? ? ? C . n B 1 136 TYR 136 136 ? ? ? C . n B 1 137 GLU 137 137 ? ? ? C . n B 1 138 PRO 138 138 ? ? ? C . n B 1 139 GLU 139 139 ? ? ? C . n B 1 140 ALA 140 140 ? ? ? C . n # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 2 mg@mrc-lmb.cam.ac.uk Michel Goedert ? 'principal investigator/group leader' 0000-0002-5214-7886 3 scheres@mrc-lmb.cam.ac.uk Sjors Scheres H.W. 'principal investigator/group leader' 0000-0002-0462-6540 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 ? 1.000000 0.000000 0.000000 0.00000 0.000000 1.000000 0.000000 0.00000 0.000000 0.000000 1.000000 0.00000 2 'point symmetry operation' ? ? 0.999882 -0.015393 0.000000 1.63605 0.015393 0.999882 0.000000 -1.61105 0.000000 0.000000 1.000000 -4.76672 3 'point symmetry operation' ? ? 0.999882 0.015393 0.000000 -1.61105 -0.015393 0.999882 0.000000 1.63605 0.000000 0.000000 1.000000 4.76672 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2023-03-08 2 'Structure model' 1 1 2023-03-15 3 'Structure model' 1 2 2023-05-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.pdbx_database_id_PubMed' 2 2 'Structure model' '_citation.title' 3 2 'Structure model' '_citation_author.name' 4 3 'Structure model' '_citation.journal_volume' 5 3 'Structure model' '_citation.page_first' 6 3 'Structure model' '_citation.page_last' # _software.citation_id ? _software.classification refinement _software.compiler_name ? _software.compiler_version ? _software.contact_author ? _software.contact_author_email ? _software.date ? _software.description ? _software.dependencies ? _software.hardware ? _software.language ? _software.location ? _software.mods ? _software.name REFMAC _software.os ? _software.os_version ? _software.type ? _software.version 5.8.0352 _software.pdbx_ordinal 1 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8CEB _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space ? _em_3d_fitting.ref_protocol 'RIGID BODY FIT' # _em_3d_reconstruction.entry_id 8CEB _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 2.8 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles 53703 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type HELICAL # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 7.5 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'Alpha-synuclein filament assembled in vitro by wild-type and mutant (7 residues insertion) protein' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 8CEB _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 1000 _em_imaging.nominal_defocus_max 2500 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.specimen_id 1 _em_imaging.cryogen ? # _em_vitrification.entry_id 8CEB _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity ? _em_vitrification.temp ? _em_vitrification.chamber_temperature ? _em_vitrification.instrument ? _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 8CEB _em_experiment.id 1 _em_experiment.reconstruction_method HELICAL _em_experiment.aggregation_state FILAMENT _em_experiment.entity_assembly_id 1 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 SER A 87 ? ? -179.51 129.10 2 1 THR A 92 ? ? -140.12 53.47 3 1 SER C 87 ? ? -179.89 128.41 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MET 1 ? A MET 1 2 1 Y 1 A ASP 2 ? A ASP 2 3 1 Y 1 A VAL 3 ? A VAL 3 4 1 Y 1 A PHE 4 ? A PHE 4 5 1 Y 1 A MET 5 ? A MET 5 6 1 Y 1 A LYS 6 ? A LYS 6 7 1 Y 1 A GLY 7 ? A GLY 7 8 1 Y 1 A LEU 8 ? A LEU 8 9 1 Y 1 A SER 9 ? A SER 9 10 1 Y 1 A LYS 10 ? A LYS 10 11 1 Y 1 A ALA 11 ? A ALA 11 12 1 Y 1 A LYS 12 ? A LYS 12 13 1 Y 1 A GLU 13 ? A GLU 13 14 1 Y 1 A GLY 14 ? A GLY 14 15 1 Y 1 A VAL 15 ? A VAL 15 16 1 Y 1 A VAL 16 ? A VAL 16 17 1 Y 1 A ALA 17 ? A ALA 17 18 1 Y 1 A ALA 18 ? A ALA 18 19 1 Y 1 A ALA 19 ? A ALA 19 20 1 Y 1 A GLU 20 ? A GLU 20 21 1 Y 1 A LYS 21 ? A LYS 21 22 1 Y 1 A THR 22 ? A THR 22 23 1 Y 1 A LYS 23 ? A LYS 23 24 1 Y 1 A GLN 24 ? A GLN 24 25 1 Y 1 A GLY 25 ? A GLY 25 26 1 Y 1 A VAL 26 ? A VAL 26 27 1 Y 1 A ALA 27 ? A ALA 27 28 1 Y 1 A GLU 28 ? A GLU 28 29 1 Y 1 A ALA 29 ? A ALA 29 30 1 Y 1 A ALA 30 ? A ALA 30 31 1 Y 1 A GLY 31 ? A GLY 31 32 1 Y 1 A LYS 32 ? A LYS 32 33 1 Y 1 A THR 33 ? A THR 33 34 1 Y 1 A LYS 34 ? A LYS 34 35 1 Y 1 A GLU 35 ? A GLU 35 36 1 Y 1 A GLY 36 ? A GLY 36 37 1 Y 1 A VAL 37 ? A VAL 37 38 1 Y 1 A LEU 38 ? A LEU 38 39 1 Y 1 A TYR 39 ? A TYR 39 40 1 Y 1 A ASP 98 ? A ASP 98 41 1 Y 1 A GLN 99 ? A GLN 99 42 1 Y 1 A LEU 100 ? A LEU 100 43 1 Y 1 A GLY 101 ? A GLY 101 44 1 Y 1 A LYS 102 ? A LYS 102 45 1 Y 1 A ASN 103 ? A ASN 103 46 1 Y 1 A GLU 104 ? A GLU 104 47 1 Y 1 A GLU 105 ? A GLU 105 48 1 Y 1 A GLY 106 ? A GLY 106 49 1 Y 1 A ALA 107 ? A ALA 107 50 1 Y 1 A PRO 108 ? A PRO 108 51 1 Y 1 A GLN 109 ? A GLN 109 52 1 Y 1 A GLU 110 ? A GLU 110 53 1 Y 1 A GLY 111 ? A GLY 111 54 1 Y 1 A ILE 112 ? A ILE 112 55 1 Y 1 A LEU 113 ? A LEU 113 56 1 Y 1 A GLU 114 ? A GLU 114 57 1 Y 1 A ASP 115 ? A ASP 115 58 1 Y 1 A MET 116 ? A MET 116 59 1 Y 1 A PRO 117 ? A PRO 117 60 1 Y 1 A VAL 118 ? A VAL 118 61 1 Y 1 A ASP 119 ? A ASP 119 62 1 Y 1 A PRO 120 ? A PRO 120 63 1 Y 1 A ASP 121 ? A ASP 121 64 1 Y 1 A ASN 122 ? A ASN 122 65 1 Y 1 A GLU 123 ? A GLU 123 66 1 Y 1 A ALA 124 ? A ALA 124 67 1 Y 1 A TYR 125 ? A TYR 125 68 1 Y 1 A GLU 126 ? A GLU 126 69 1 Y 1 A MET 127 ? A MET 127 70 1 Y 1 A PRO 128 ? A PRO 128 71 1 Y 1 A SER 129 ? A SER 129 72 1 Y 1 A GLU 130 ? A GLU 130 73 1 Y 1 A GLU 131 ? A GLU 131 74 1 Y 1 A GLY 132 ? A GLY 132 75 1 Y 1 A TYR 133 ? A TYR 133 76 1 Y 1 A GLN 134 ? A GLN 134 77 1 Y 1 A ASP 135 ? A ASP 135 78 1 Y 1 A TYR 136 ? A TYR 136 79 1 Y 1 A GLU 137 ? A GLU 137 80 1 Y 1 A PRO 138 ? A PRO 138 81 1 Y 1 A GLU 139 ? A GLU 139 82 1 Y 1 A ALA 140 ? A ALA 140 83 1 Y 1 C MET 1 ? B MET 1 84 1 Y 1 C ASP 2 ? B ASP 2 85 1 Y 1 C VAL 3 ? B VAL 3 86 1 Y 1 C PHE 4 ? B PHE 4 87 1 Y 1 C MET 5 ? B MET 5 88 1 Y 1 C LYS 6 ? B LYS 6 89 1 Y 1 C GLY 7 ? B GLY 7 90 1 Y 1 C LEU 8 ? B LEU 8 91 1 Y 1 C SER 9 ? B SER 9 92 1 Y 1 C LYS 10 ? B LYS 10 93 1 Y 1 C ALA 11 ? B ALA 11 94 1 Y 1 C LYS 12 ? B LYS 12 95 1 Y 1 C GLU 13 ? B GLU 13 96 1 Y 1 C GLY 14 ? B GLY 14 97 1 Y 1 C VAL 15 ? B VAL 15 98 1 Y 1 C VAL 16 ? B VAL 16 99 1 Y 1 C ALA 17 ? B ALA 17 100 1 Y 1 C ALA 18 ? B ALA 18 101 1 Y 1 C ALA 19 ? B ALA 19 102 1 Y 1 C GLU 20 ? B GLU 20 103 1 Y 1 C LYS 21 ? B LYS 21 104 1 Y 1 C THR 22 ? B THR 22 105 1 Y 1 C LYS 23 ? B LYS 23 106 1 Y 1 C GLN 24 ? B GLN 24 107 1 Y 1 C GLY 25 ? B GLY 25 108 1 Y 1 C VAL 26 ? B VAL 26 109 1 Y 1 C ALA 27 ? B ALA 27 110 1 Y 1 C GLU 28 ? B GLU 28 111 1 Y 1 C ALA 29 ? B ALA 29 112 1 Y 1 C ALA 30 ? B ALA 30 113 1 Y 1 C GLY 31 ? B GLY 31 114 1 Y 1 C LYS 32 ? B LYS 32 115 1 Y 1 C THR 33 ? B THR 33 116 1 Y 1 C LYS 34 ? B LYS 34 117 1 Y 1 C GLU 35 ? B GLU 35 118 1 Y 1 C GLY 36 ? B GLY 36 119 1 Y 1 C VAL 37 ? B VAL 37 120 1 Y 1 C LEU 38 ? B LEU 38 121 1 Y 1 C TYR 39 ? B TYR 39 122 1 Y 1 C ASP 98 ? B ASP 98 123 1 Y 1 C GLN 99 ? B GLN 99 124 1 Y 1 C LEU 100 ? B LEU 100 125 1 Y 1 C GLY 101 ? B GLY 101 126 1 Y 1 C LYS 102 ? B LYS 102 127 1 Y 1 C ASN 103 ? B ASN 103 128 1 Y 1 C GLU 104 ? B GLU 104 129 1 Y 1 C GLU 105 ? B GLU 105 130 1 Y 1 C GLY 106 ? B GLY 106 131 1 Y 1 C ALA 107 ? B ALA 107 132 1 Y 1 C PRO 108 ? B PRO 108 133 1 Y 1 C GLN 109 ? B GLN 109 134 1 Y 1 C GLU 110 ? B GLU 110 135 1 Y 1 C GLY 111 ? B GLY 111 136 1 Y 1 C ILE 112 ? B ILE 112 137 1 Y 1 C LEU 113 ? B LEU 113 138 1 Y 1 C GLU 114 ? B GLU 114 139 1 Y 1 C ASP 115 ? B ASP 115 140 1 Y 1 C MET 116 ? B MET 116 141 1 Y 1 C PRO 117 ? B PRO 117 142 1 Y 1 C VAL 118 ? B VAL 118 143 1 Y 1 C ASP 119 ? B ASP 119 144 1 Y 1 C PRO 120 ? B PRO 120 145 1 Y 1 C ASP 121 ? B ASP 121 146 1 Y 1 C ASN 122 ? B ASN 122 147 1 Y 1 C GLU 123 ? B GLU 123 148 1 Y 1 C ALA 124 ? B ALA 124 149 1 Y 1 C TYR 125 ? B TYR 125 150 1 Y 1 C GLU 126 ? B GLU 126 151 1 Y 1 C MET 127 ? B MET 127 152 1 Y 1 C PRO 128 ? B PRO 128 153 1 Y 1 C SER 129 ? B SER 129 154 1 Y 1 C GLU 130 ? B GLU 130 155 1 Y 1 C GLU 131 ? B GLU 131 156 1 Y 1 C GLY 132 ? B GLY 132 157 1 Y 1 C TYR 133 ? B TYR 133 158 1 Y 1 C GLN 134 ? B GLN 134 159 1 Y 1 C ASP 135 ? B ASP 135 160 1 Y 1 C TYR 136 ? B TYR 136 161 1 Y 1 C GLU 137 ? B GLU 137 162 1 Y 1 C PRO 138 ? B PRO 138 163 1 Y 1 C GLU 139 ? B GLU 139 164 1 Y 1 C ALA 140 ? B ALA 140 # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 9606 _em_entity_assembly_naturalsource.organism 'Homo sapiens' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 562 _em_entity_assembly_recombinant.organism 'Escherichia coli' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_helical_entity.id 1 _em_helical_entity.image_processing_id 1 _em_helical_entity.details ? _em_helical_entity.axial_symmetry C1 _em_helical_entity.angular_rotation_per_subunit -179.56 _em_helical_entity.axial_rise_per_subunit 2.38 # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 40 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'FEI FALCON IV (4k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version 'PARTICLE SELECTION' ? 1 1 ? ? RELION ? 'IMAGE ACQUISITION' ? 2 ? ? 1 EPU ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? RELION ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? Coot ? OTHER ? 8 ? ? ? ? ? 'MODEL REFINEMENT' servalcat 9 ? 1 ? REFMAC ? 'INITIAL EULER ASSIGNMENT' ? 10 1 ? ? RELION ? 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? ? ? CLASSIFICATION ? 12 1 ? ? ? ? RECONSTRUCTION ? 13 1 ? ? RELION ? 'VOLUME SELECTION' ? 14 1 1 1 ? ? 'SERIES ALIGNMENT' ? 15 1 1 1 ? ? 'MOLECULAR REPLACEMENT' ? 16 1 1 1 ? ? 'LATTICE DISTORTION CORRECTION' ? 17 1 1 1 ? ? 'SYMMETRY DETERMINATION' ? 18 1 1 1 ? ? 'CRYSTALLOGRAPHY MERGING' ? 19 1 1 1 ? ? # _em_specimen.concentration ? _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Medical Research Council (MRC, United Kingdom)' 'United Kingdom' MC_UP_A025-1013 1 'Medical Research Council (MRC, United Kingdom)' 'United Kingdom' MC_U105184291 2 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'electron microscopy' _pdbx_struct_assembly_auth_evidence.details ? #