data_8IY7 # _entry.id 8IY7 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 8IY7 pdb_00008iy7 10.2210/pdb8iy7/pdb WWPDB D_1300036750 ? ? EMDB EMD-35816 ? ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2024-04-10 # _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 ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8IY7 _pdbx_database_status.recvd_initial_deposition_date 2023-04-04 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _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 # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Cryo-EM structure of DIP-2I8I fibril polymorph1' _pdbx_database_related.db_id EMD-35816 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email dannielee@sjtu.edu.cn _pdbx_contact_author.name_first Cong _pdbx_contact_author.name_last Liu _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-3425-6672 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Li, D.N.' 1 ? 'Ma, Y.Y.' 2 ? 'Li, D.' 3 ? 'Dai, B.' 4 ? 'Liu, C.' 5 ? # _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 ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Cryo-EM structure of DIP-2I8I fibril polymorph1' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Li, D.N.' 1 ? primary 'Ma, Y.Y.' 2 ? primary 'Li, D.' 3 ? primary 'Dai, B.' 4 ? primary 'Liu, C.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description GLY-PHI-GLY-ASN-GLY-ASN-GLY-PHI-GLY _entity.formula_weight 1077.621 _entity.pdbx_number_of_molecules 24 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'G(PHI)GNGNG(PHI)G' _entity_poly.pdbx_seq_one_letter_code_can GFGNGNGFG _entity_poly.pdbx_strand_id A,B,C,D,E,F,G,J,M,P,S,V,H,K,N,Q,T,W,I,L,O,R,U,X _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 GLY n 1 2 PHI n 1 3 GLY n 1 4 ASN n 1 5 GLY n 1 6 ASN n 1 7 GLY n 1 8 PHI n 1 9 GLY n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 9 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # 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 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 PHI 'L-peptide linking' n IODO-PHENYLALANINE ? 'C9 H10 I N O2' 291.086 # 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 GLY 1 22 22 GLY GLY A . n A 1 2 PHI 2 23 23 PHI PHI A . n A 1 3 GLY 3 24 24 GLY GLY A . n A 1 4 ASN 4 25 25 ASN ASN A . n A 1 5 GLY 5 26 26 GLY GLY A . n A 1 6 ASN 6 27 27 ASN ASN A . n A 1 7 GLY 7 28 28 GLY GLY A . n A 1 8 PHI 8 29 29 PHI PHI A . n A 1 9 GLY 9 30 30 GLY GLY A . n B 1 1 GLY 1 22 22 GLY GLY B . n B 1 2 PHI 2 23 23 PHI PHI B . n B 1 3 GLY 3 24 24 GLY GLY B . n B 1 4 ASN 4 25 25 ASN ASN B . n B 1 5 GLY 5 26 26 GLY GLY B . n B 1 6 ASN 6 27 27 ASN ASN B . n B 1 7 GLY 7 28 28 GLY GLY B . n B 1 8 PHI 8 29 29 PHI PHI B . n B 1 9 GLY 9 30 30 GLY GLY B . n C 1 1 GLY 1 22 22 GLY GLY C . n C 1 2 PHI 2 23 23 PHI PHI C . n C 1 3 GLY 3 24 24 GLY GLY C . n C 1 4 ASN 4 25 25 ASN ASN C . n C 1 5 GLY 5 26 26 GLY GLY C . n C 1 6 ASN 6 27 27 ASN ASN C . n C 1 7 GLY 7 28 28 GLY GLY C . n C 1 8 PHI 8 29 29 PHI PHI C . n C 1 9 GLY 9 30 30 GLY GLY C . n D 1 1 GLY 1 22 22 GLY GLY D . n D 1 2 PHI 2 23 23 PHI PHI D . n D 1 3 GLY 3 24 24 GLY GLY D . n D 1 4 ASN 4 25 25 ASN ASN D . n D 1 5 GLY 5 26 26 GLY GLY D . n D 1 6 ASN 6 27 27 ASN ASN D . n D 1 7 GLY 7 28 28 GLY GLY D . n D 1 8 PHI 8 29 29 PHI PHI D . n D 1 9 GLY 9 30 30 GLY GLY D . n E 1 1 GLY 1 22 22 GLY GLY E . n E 1 2 PHI 2 23 23 PHI PHI E . n E 1 3 GLY 3 24 24 GLY GLY E . n E 1 4 ASN 4 25 25 ASN ASN E . n E 1 5 GLY 5 26 26 GLY GLY E . n E 1 6 ASN 6 27 27 ASN ASN E . n E 1 7 GLY 7 28 28 GLY GLY E . n E 1 8 PHI 8 29 29 PHI PHI E . n E 1 9 GLY 9 30 30 GLY GLY E . n F 1 1 GLY 1 22 22 GLY GLY F . n F 1 2 PHI 2 23 23 PHI PHI F . n F 1 3 GLY 3 24 24 GLY GLY F . n F 1 4 ASN 4 25 25 ASN ASN F . n F 1 5 GLY 5 26 26 GLY GLY F . n F 1 6 ASN 6 27 27 ASN ASN F . n F 1 7 GLY 7 28 28 GLY GLY F . n F 1 8 PHI 8 29 29 PHI PHI F . n F 1 9 GLY 9 30 30 GLY GLY F . n G 1 1 GLY 1 22 22 GLY GLY G . n G 1 2 PHI 2 23 23 PHI PHI G . n G 1 3 GLY 3 24 24 GLY GLY G . n G 1 4 ASN 4 25 25 ASN ASN G . n G 1 5 GLY 5 26 26 GLY GLY G . n G 1 6 ASN 6 27 27 ASN ASN G . n G 1 7 GLY 7 28 28 GLY GLY G . n G 1 8 PHI 8 29 29 PHI PHI G . n G 1 9 GLY 9 30 30 GLY GLY G . n H 1 1 GLY 1 22 22 GLY GLY J . n H 1 2 PHI 2 23 23 PHI PHI J . n H 1 3 GLY 3 24 24 GLY GLY J . n H 1 4 ASN 4 25 25 ASN ASN J . n H 1 5 GLY 5 26 26 GLY GLY J . n H 1 6 ASN 6 27 27 ASN ASN J . n H 1 7 GLY 7 28 28 GLY GLY J . n H 1 8 PHI 8 29 29 PHI PHI J . n H 1 9 GLY 9 30 30 GLY GLY J . n I 1 1 GLY 1 22 22 GLY GLY M . n I 1 2 PHI 2 23 23 PHI PHI M . n I 1 3 GLY 3 24 24 GLY GLY M . n I 1 4 ASN 4 25 25 ASN ASN M . n I 1 5 GLY 5 26 26 GLY GLY M . n I 1 6 ASN 6 27 27 ASN ASN M . n I 1 7 GLY 7 28 28 GLY GLY M . n I 1 8 PHI 8 29 29 PHI PHI M . n I 1 9 GLY 9 30 30 GLY GLY M . n J 1 1 GLY 1 22 22 GLY GLY P . n J 1 2 PHI 2 23 23 PHI PHI P . n J 1 3 GLY 3 24 24 GLY GLY P . n J 1 4 ASN 4 25 25 ASN ASN P . n J 1 5 GLY 5 26 26 GLY GLY P . n J 1 6 ASN 6 27 27 ASN ASN P . n J 1 7 GLY 7 28 28 GLY GLY P . n J 1 8 PHI 8 29 29 PHI PHI P . n J 1 9 GLY 9 30 30 GLY GLY P . n K 1 1 GLY 1 22 22 GLY GLY S . n K 1 2 PHI 2 23 23 PHI PHI S . n K 1 3 GLY 3 24 24 GLY GLY S . n K 1 4 ASN 4 25 25 ASN ASN S . n K 1 5 GLY 5 26 26 GLY GLY S . n K 1 6 ASN 6 27 27 ASN ASN S . n K 1 7 GLY 7 28 28 GLY GLY S . n K 1 8 PHI 8 29 29 PHI PHI S . n K 1 9 GLY 9 30 30 GLY GLY S . n L 1 1 GLY 1 22 22 GLY GLY V . n L 1 2 PHI 2 23 23 PHI PHI V . n L 1 3 GLY 3 24 24 GLY GLY V . n L 1 4 ASN 4 25 25 ASN ASN V . n L 1 5 GLY 5 26 26 GLY GLY V . n L 1 6 ASN 6 27 27 ASN ASN V . n L 1 7 GLY 7 28 28 GLY GLY V . n L 1 8 PHI 8 29 29 PHI PHI V . n L 1 9 GLY 9 30 30 GLY GLY V . n M 1 1 GLY 1 22 22 GLY GLY H . n M 1 2 PHI 2 23 23 PHI PHI H . n M 1 3 GLY 3 24 24 GLY GLY H . n M 1 4 ASN 4 25 25 ASN ASN H . n M 1 5 GLY 5 26 26 GLY GLY H . n M 1 6 ASN 6 27 27 ASN ASN H . n M 1 7 GLY 7 28 28 GLY GLY H . n M 1 8 PHI 8 29 29 PHI PHI H . n M 1 9 GLY 9 30 30 GLY GLY H . n N 1 1 GLY 1 22 22 GLY GLY K . n N 1 2 PHI 2 23 23 PHI PHI K . n N 1 3 GLY 3 24 24 GLY GLY K . n N 1 4 ASN 4 25 25 ASN ASN K . n N 1 5 GLY 5 26 26 GLY GLY K . n N 1 6 ASN 6 27 27 ASN ASN K . n N 1 7 GLY 7 28 28 GLY GLY K . n N 1 8 PHI 8 29 29 PHI PHI K . n N 1 9 GLY 9 30 30 GLY GLY K . n O 1 1 GLY 1 22 22 GLY GLY N . n O 1 2 PHI 2 23 23 PHI PHI N . n O 1 3 GLY 3 24 24 GLY GLY N . n O 1 4 ASN 4 25 25 ASN ASN N . n O 1 5 GLY 5 26 26 GLY GLY N . n O 1 6 ASN 6 27 27 ASN ASN N . n O 1 7 GLY 7 28 28 GLY GLY N . n O 1 8 PHI 8 29 29 PHI PHI N . n O 1 9 GLY 9 30 30 GLY GLY N . n P 1 1 GLY 1 22 22 GLY GLY Q . n P 1 2 PHI 2 23 23 PHI PHI Q . n P 1 3 GLY 3 24 24 GLY GLY Q . n P 1 4 ASN 4 25 25 ASN ASN Q . n P 1 5 GLY 5 26 26 GLY GLY Q . n P 1 6 ASN 6 27 27 ASN ASN Q . n P 1 7 GLY 7 28 28 GLY GLY Q . n P 1 8 PHI 8 29 29 PHI PHI Q . n P 1 9 GLY 9 30 30 GLY GLY Q . n Q 1 1 GLY 1 22 22 GLY GLY T . n Q 1 2 PHI 2 23 23 PHI PHI T . n Q 1 3 GLY 3 24 24 GLY GLY T . n Q 1 4 ASN 4 25 25 ASN ASN T . n Q 1 5 GLY 5 26 26 GLY GLY T . n Q 1 6 ASN 6 27 27 ASN ASN T . n Q 1 7 GLY 7 28 28 GLY GLY T . n Q 1 8 PHI 8 29 29 PHI PHI T . n Q 1 9 GLY 9 30 30 GLY GLY T . n R 1 1 GLY 1 22 22 GLY GLY W . n R 1 2 PHI 2 23 23 PHI PHI W . n R 1 3 GLY 3 24 24 GLY GLY W . n R 1 4 ASN 4 25 25 ASN ASN W . n R 1 5 GLY 5 26 26 GLY GLY W . n R 1 6 ASN 6 27 27 ASN ASN W . n R 1 7 GLY 7 28 28 GLY GLY W . n R 1 8 PHI 8 29 29 PHI PHI W . n R 1 9 GLY 9 30 30 GLY GLY W . n S 1 1 GLY 1 22 22 GLY GLY I . n S 1 2 PHI 2 23 23 PHI PHI I . n S 1 3 GLY 3 24 24 GLY GLY I . n S 1 4 ASN 4 25 25 ASN ASN I . n S 1 5 GLY 5 26 26 GLY GLY I . n S 1 6 ASN 6 27 27 ASN ASN I . n S 1 7 GLY 7 28 28 GLY GLY I . n S 1 8 PHI 8 29 29 PHI PHI I . n S 1 9 GLY 9 30 30 GLY GLY I . n T 1 1 GLY 1 22 22 GLY GLY L . n T 1 2 PHI 2 23 23 PHI PHI L . n T 1 3 GLY 3 24 24 GLY GLY L . n T 1 4 ASN 4 25 25 ASN ASN L . n T 1 5 GLY 5 26 26 GLY GLY L . n T 1 6 ASN 6 27 27 ASN ASN L . n T 1 7 GLY 7 28 28 GLY GLY L . n T 1 8 PHI 8 29 29 PHI PHI L . n T 1 9 GLY 9 30 30 GLY GLY L . n U 1 1 GLY 1 22 22 GLY GLY O . n U 1 2 PHI 2 23 23 PHI PHI O . n U 1 3 GLY 3 24 24 GLY GLY O . n U 1 4 ASN 4 25 25 ASN ASN O . n U 1 5 GLY 5 26 26 GLY GLY O . n U 1 6 ASN 6 27 27 ASN ASN O . n U 1 7 GLY 7 28 28 GLY GLY O . n U 1 8 PHI 8 29 29 PHI PHI O . n U 1 9 GLY 9 30 30 GLY GLY O . n V 1 1 GLY 1 22 22 GLY GLY R . n V 1 2 PHI 2 23 23 PHI PHI R . n V 1 3 GLY 3 24 24 GLY GLY R . n V 1 4 ASN 4 25 25 ASN ASN R . n V 1 5 GLY 5 26 26 GLY GLY R . n V 1 6 ASN 6 27 27 ASN ASN R . n V 1 7 GLY 7 28 28 GLY GLY R . n V 1 8 PHI 8 29 29 PHI PHI R . n V 1 9 GLY 9 30 30 GLY GLY R . n W 1 1 GLY 1 22 22 GLY GLY U . n W 1 2 PHI 2 23 23 PHI PHI U . n W 1 3 GLY 3 24 24 GLY GLY U . n W 1 4 ASN 4 25 25 ASN ASN U . n W 1 5 GLY 5 26 26 GLY GLY U . n W 1 6 ASN 6 27 27 ASN ASN U . n W 1 7 GLY 7 28 28 GLY GLY U . n W 1 8 PHI 8 29 29 PHI PHI U . n W 1 9 GLY 9 30 30 GLY GLY U . n X 1 1 GLY 1 22 22 GLY GLY X . n X 1 2 PHI 2 23 23 PHI PHI X . n X 1 3 GLY 3 24 24 GLY GLY X . n X 1 4 ASN 4 25 25 ASN ASN X . n X 1 5 GLY 5 26 26 GLY GLY X . n X 1 6 ASN 6 27 27 ASN ASN X . n X 1 7 GLY 7 28 28 GLY GLY X . n X 1 8 PHI 8 29 29 PHI PHI X . n X 1 9 GLY 9 30 30 GLY GLY X . n # _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 8IY7 _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 8IY7 _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 ? # _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 8IY7 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.entry_id 8IY7 _refine.pdbx_diffrn_id ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high . _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # 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' ? 0.010 ? 1488 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 2.595 ? 1968 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 15.554 ? 552 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.173 ? 96 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.005 ? 312 ? f_plane_restr ? ? # _struct.entry_id 8IY7 _struct.title 'Cryo-EM structure of DIP-2I8I fibril polymorph1' _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 8IY7 _struct_keywords.text 'Iodized peptide, 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 ? C N N 1 ? D N N 1 ? E N N 1 ? F N N 1 ? G N N 1 ? H N N 1 ? I N N 1 ? J N N 1 ? K N N 1 ? L N N 1 ? M N N 1 ? N N N 1 ? O N N 1 ? P N N 1 ? Q N N 1 ? R N N 1 ? S N N 1 ? T N N 1 ? U N N 1 ? V N N 1 ? W N N 1 ? X N N 1 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8IY7 _struct_ref.pdbx_db_accession 8IY7 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _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 8IY7 A 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 2 1 8IY7 B 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 3 1 8IY7 C 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 4 1 8IY7 D 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 5 1 8IY7 E 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 6 1 8IY7 F 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 7 1 8IY7 G 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 8 1 8IY7 J 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 9 1 8IY7 M 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 10 1 8IY7 P 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 11 1 8IY7 S 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 12 1 8IY7 V 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 13 1 8IY7 H 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 14 1 8IY7 K 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 15 1 8IY7 N 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 16 1 8IY7 Q 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 17 1 8IY7 T 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 18 1 8IY7 W 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 19 1 8IY7 I 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 20 1 8IY7 L 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 21 1 8IY7 O 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 22 1 8IY7 R 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 23 1 8IY7 U 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 24 1 8IY7 X 1 ? 9 ? 8IY7 22 ? 30 ? 22 30 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X # _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 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation ? _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A GLY 1 C ? ? ? 1_555 A PHI 2 N ? ? A GLY 22 A PHI 23 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale2 covale both ? A PHI 2 C ? ? ? 1_555 A GLY 3 N ? ? A PHI 23 A GLY 24 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale3 covale both ? A GLY 7 C ? ? ? 1_555 A PHI 8 N ? ? A GLY 28 A PHI 29 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale4 covale both ? A PHI 8 C ? ? ? 1_555 A GLY 9 N ? ? A PHI 29 A GLY 30 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale5 covale both ? B GLY 1 C ? ? ? 1_555 B PHI 2 N ? ? B GLY 22 B PHI 23 1_555 ? ? ? ? ? ? ? 1.318 ? ? covale6 covale both ? B PHI 2 C ? ? ? 1_555 B GLY 3 N ? ? B PHI 23 B GLY 24 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale7 covale both ? B GLY 7 C ? ? ? 1_555 B PHI 8 N ? ? B GLY 28 B PHI 29 1_555 ? ? ? ? ? ? ? 1.314 ? ? covale8 covale both ? B PHI 8 C ? ? ? 1_555 B GLY 9 N ? ? B PHI 29 B GLY 30 1_555 ? ? ? ? ? ? ? 1.321 ? ? covale9 covale both ? C GLY 1 C ? ? ? 1_555 C PHI 2 N ? ? C GLY 22 C PHI 23 1_555 ? ? ? ? ? ? ? 1.319 ? ? covale10 covale both ? C PHI 2 C ? ? ? 1_555 C GLY 3 N ? ? C PHI 23 C GLY 24 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale11 covale both ? C GLY 7 C ? ? ? 1_555 C PHI 8 N ? ? C GLY 28 C PHI 29 1_555 ? ? ? ? ? ? ? 1.320 ? ? covale12 covale both ? C PHI 8 C ? ? ? 1_555 C GLY 9 N ? ? C PHI 29 C GLY 30 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale13 covale both ? D GLY 1 C ? ? ? 1_555 D PHI 2 N ? ? D GLY 22 D PHI 23 1_555 ? ? ? ? ? ? ? 1.319 ? ? covale14 covale both ? D PHI 2 C ? ? ? 1_555 D GLY 3 N ? ? D PHI 23 D GLY 24 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale15 covale both ? D GLY 7 C ? ? ? 1_555 D PHI 8 N ? ? D GLY 28 D PHI 29 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale16 covale both ? D PHI 8 C ? ? ? 1_555 D GLY 9 N ? ? D PHI 29 D GLY 30 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale17 covale both ? E GLY 1 C ? ? ? 1_555 E PHI 2 N ? ? E GLY 22 E PHI 23 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale18 covale both ? E PHI 2 C ? ? ? 1_555 E GLY 3 N ? ? E PHI 23 E GLY 24 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale19 covale both ? E GLY 7 C ? ? ? 1_555 E PHI 8 N ? ? E GLY 28 E PHI 29 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale20 covale both ? E PHI 8 C ? ? ? 1_555 E GLY 9 N ? ? E PHI 29 E GLY 30 1_555 ? ? ? ? ? ? ? 1.318 ? ? covale21 covale both ? F GLY 1 C ? ? ? 1_555 F PHI 2 N ? ? F GLY 22 F PHI 23 1_555 ? ? ? ? ? ? ? 1.317 ? ? covale22 covale both ? F PHI 2 C ? ? ? 1_555 F GLY 3 N ? ? F PHI 23 F GLY 24 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale23 covale both ? F GLY 7 C ? ? ? 1_555 F PHI 8 N ? ? F GLY 28 F PHI 29 1_555 ? ? ? ? ? ? ? 1.319 ? ? covale24 covale both ? F PHI 8 C ? ? ? 1_555 F GLY 9 N ? ? F PHI 29 F GLY 30 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale25 covale both ? G GLY 1 C ? ? ? 1_555 G PHI 2 N ? ? G GLY 22 G PHI 23 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale26 covale both ? G PHI 2 C ? ? ? 1_555 G GLY 3 N ? ? G PHI 23 G GLY 24 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale27 covale both ? G GLY 7 C ? ? ? 1_555 G PHI 8 N ? ? G GLY 28 G PHI 29 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale28 covale both ? G PHI 8 C ? ? ? 1_555 G GLY 9 N ? ? G PHI 29 G GLY 30 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale29 covale both ? H GLY 1 C ? ? ? 1_555 H PHI 2 N ? ? J GLY 22 J PHI 23 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale30 covale both ? H PHI 2 C ? ? ? 1_555 H GLY 3 N ? ? J PHI 23 J GLY 24 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale31 covale both ? H GLY 7 C ? ? ? 1_555 H PHI 8 N ? ? J GLY 28 J PHI 29 1_555 ? ? ? ? ? ? ? 1.335 ? ? covale32 covale both ? H PHI 8 C ? ? ? 1_555 H GLY 9 N ? ? J PHI 29 J GLY 30 1_555 ? ? ? ? ? ? ? 1.320 ? ? covale33 covale both ? I GLY 1 C ? ? ? 1_555 I PHI 2 N ? ? M GLY 22 M PHI 23 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale34 covale both ? I PHI 2 C ? ? ? 1_555 I GLY 3 N ? ? M PHI 23 M GLY 24 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale35 covale both ? I GLY 7 C ? ? ? 1_555 I PHI 8 N ? ? M GLY 28 M PHI 29 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale36 covale both ? I PHI 8 C ? ? ? 1_555 I GLY 9 N ? ? M PHI 29 M GLY 30 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale37 covale both ? J GLY 1 C ? ? ? 1_555 J PHI 2 N ? ? P GLY 22 P PHI 23 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale38 covale both ? J PHI 2 C ? ? ? 1_555 J GLY 3 N ? ? P PHI 23 P GLY 24 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale39 covale both ? J GLY 7 C ? ? ? 1_555 J PHI 8 N ? ? P GLY 28 P PHI 29 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale40 covale both ? J PHI 8 C ? ? ? 1_555 J GLY 9 N ? ? P PHI 29 P GLY 30 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale41 covale both ? K GLY 1 C ? ? ? 1_555 K PHI 2 N ? ? S GLY 22 S PHI 23 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale42 covale both ? K PHI 2 C ? ? ? 1_555 K GLY 3 N ? ? S PHI 23 S GLY 24 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale43 covale both ? K GLY 7 C ? ? ? 1_555 K PHI 8 N ? ? S GLY 28 S PHI 29 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale44 covale both ? K PHI 8 C ? ? ? 1_555 K GLY 9 N ? ? S PHI 29 S GLY 30 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale45 covale both ? L GLY 1 C ? ? ? 1_555 L PHI 2 N ? ? V GLY 22 V PHI 23 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale46 covale both ? L PHI 2 C ? ? ? 1_555 L GLY 3 N ? ? V PHI 23 V GLY 24 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale47 covale both ? L GLY 7 C ? ? ? 1_555 L PHI 8 N ? ? V GLY 28 V PHI 29 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale48 covale both ? L PHI 8 C ? ? ? 1_555 L GLY 9 N ? ? V PHI 29 V GLY 30 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale49 covale both ? M GLY 1 C ? ? ? 1_555 M PHI 2 N ? ? H GLY 22 H PHI 23 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale50 covale both ? M PHI 2 C ? ? ? 1_555 M GLY 3 N ? ? H PHI 23 H GLY 24 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale51 covale none ? M PHI 2 I ? ? ? 1_555 M PHI 8 I ? ? H PHI 23 H PHI 29 1_555 ? ? ? ? ? ? ? 3.008 ? ? covale52 covale both ? M GLY 7 C ? ? ? 1_555 M PHI 8 N ? ? H GLY 28 H PHI 29 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale53 covale both ? M PHI 8 C ? ? ? 1_555 M GLY 9 N ? ? H PHI 29 H GLY 30 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale54 covale both ? N GLY 1 C ? ? ? 1_555 N PHI 2 N ? ? K GLY 22 K PHI 23 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale55 covale both ? N PHI 2 C ? ? ? 1_555 N GLY 3 N ? ? K PHI 23 K GLY 24 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale56 covale both ? N GLY 7 C ? ? ? 1_555 N PHI 8 N ? ? K GLY 28 K PHI 29 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale57 covale both ? N PHI 8 C ? ? ? 1_555 N GLY 9 N ? ? K PHI 29 K GLY 30 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale58 covale both ? O GLY 1 C ? ? ? 1_555 O PHI 2 N ? ? N GLY 22 N PHI 23 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale59 covale both ? O PHI 2 C ? ? ? 1_555 O GLY 3 N ? ? N PHI 23 N GLY 24 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale60 covale both ? O GLY 7 C ? ? ? 1_555 O PHI 8 N ? ? N GLY 28 N PHI 29 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale61 covale both ? O PHI 8 C ? ? ? 1_555 O GLY 9 N ? ? N PHI 29 N GLY 30 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale62 covale both ? P GLY 1 C ? ? ? 1_555 P PHI 2 N ? ? Q GLY 22 Q PHI 23 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale63 covale both ? P PHI 2 C ? ? ? 1_555 P GLY 3 N ? ? Q PHI 23 Q GLY 24 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale64 covale both ? P GLY 7 C ? ? ? 1_555 P PHI 8 N ? ? Q GLY 28 Q PHI 29 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale65 covale both ? P PHI 8 C ? ? ? 1_555 P GLY 9 N ? ? Q PHI 29 Q GLY 30 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale66 covale both ? Q GLY 1 C ? ? ? 1_555 Q PHI 2 N ? ? T GLY 22 T PHI 23 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale67 covale both ? Q PHI 2 C ? ? ? 1_555 Q GLY 3 N ? ? T PHI 23 T GLY 24 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale68 covale both ? Q GLY 7 C ? ? ? 1_555 Q PHI 8 N ? ? T GLY 28 T PHI 29 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale69 covale both ? Q PHI 8 C ? ? ? 1_555 Q GLY 9 N ? ? T PHI 29 T GLY 30 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale70 covale both ? R GLY 1 C ? ? ? 1_555 R PHI 2 N ? ? W GLY 22 W PHI 23 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale71 covale both ? R PHI 2 C ? ? ? 1_555 R GLY 3 N ? ? W PHI 23 W GLY 24 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale72 covale both ? R GLY 7 C ? ? ? 1_555 R PHI 8 N ? ? W GLY 28 W PHI 29 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale73 covale both ? R PHI 8 C ? ? ? 1_555 R GLY 9 N ? ? W PHI 29 W GLY 30 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale74 covale both ? S GLY 1 C ? ? ? 1_555 S PHI 2 N ? ? I GLY 22 I PHI 23 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale75 covale both ? S PHI 2 C ? ? ? 1_555 S GLY 3 N ? ? I PHI 23 I GLY 24 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale76 covale both ? S GLY 7 C ? ? ? 1_555 S PHI 8 N ? ? I GLY 28 I PHI 29 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale77 covale both ? S PHI 8 C ? ? ? 1_555 S GLY 9 N ? ? I PHI 29 I GLY 30 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale78 covale both ? T GLY 1 C ? ? ? 1_555 T PHI 2 N ? ? L GLY 22 L PHI 23 1_555 ? ? ? ? ? ? ? 1.319 ? ? covale79 covale both ? T PHI 2 C ? ? ? 1_555 T GLY 3 N ? ? L PHI 23 L GLY 24 1_555 ? ? ? ? ? ? ? 1.318 ? ? covale80 covale both ? T GLY 7 C ? ? ? 1_555 T PHI 8 N ? ? L GLY 28 L PHI 29 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale81 covale both ? T PHI 8 C ? ? ? 1_555 T GLY 9 N ? ? L PHI 29 L GLY 30 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale82 covale both ? U GLY 1 C ? ? ? 1_555 U PHI 2 N ? ? O GLY 22 O PHI 23 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale83 covale both ? U PHI 2 C ? ? ? 1_555 U GLY 3 N ? ? O PHI 23 O GLY 24 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale84 covale both ? U GLY 7 C ? ? ? 1_555 U PHI 8 N ? ? O GLY 28 O PHI 29 1_555 ? ? ? ? ? ? ? 1.321 ? ? covale85 covale both ? U PHI 8 C ? ? ? 1_555 U GLY 9 N ? ? O PHI 29 O GLY 30 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale86 covale both ? V GLY 1 C ? ? ? 1_555 V PHI 2 N ? ? R GLY 22 R PHI 23 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale87 covale both ? V PHI 2 C ? ? ? 1_555 V GLY 3 N ? ? R PHI 23 R GLY 24 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale88 covale both ? V GLY 7 C ? ? ? 1_555 V PHI 8 N ? ? R GLY 28 R PHI 29 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale89 covale both ? V PHI 8 C ? ? ? 1_555 V GLY 9 N ? ? R PHI 29 R GLY 30 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale90 covale both ? W GLY 1 C ? ? ? 1_555 W PHI 2 N ? ? U GLY 22 U PHI 23 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale91 covale both ? W PHI 2 C ? ? ? 1_555 W GLY 3 N ? ? U PHI 23 U GLY 24 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale92 covale both ? W GLY 7 C ? ? ? 1_555 W PHI 8 N ? ? U GLY 28 U PHI 29 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale93 covale both ? W PHI 8 C ? ? ? 1_555 W GLY 9 N ? ? U PHI 29 U GLY 30 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale94 covale both ? X GLY 1 C ? ? ? 1_555 X PHI 2 N ? ? X GLY 22 X PHI 23 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale95 covale both ? X PHI 2 C ? ? ? 1_555 X GLY 3 N ? ? X PHI 23 X GLY 24 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale96 covale both ? X GLY 7 C ? ? ? 1_555 X PHI 8 N ? ? X GLY 28 X PHI 29 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale97 covale both ? X PHI 8 C ? ? ? 1_555 X GLY 9 N ? ? X PHI 29 X GLY 30 1_555 ? ? ? ? ? ? ? 1.323 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 I _pdbx_validate_close_contact.auth_asym_id_1 I _pdbx_validate_close_contact.auth_comp_id_1 PHI _pdbx_validate_close_contact.auth_seq_id_1 23 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 I _pdbx_validate_close_contact.auth_asym_id_2 I _pdbx_validate_close_contact.auth_comp_id_2 PHI _pdbx_validate_close_contact.auth_seq_id_2 29 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.94 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N C GLY 24 ? ? CA C GLY 24 ? ? C C GLY 24 ? ? 133.47 113.10 20.37 2.50 N 2 1 N C ASN 25 ? ? CA C ASN 25 ? ? CB C ASN 25 ? ? 131.61 110.60 21.01 1.80 N 3 1 N C ASN 25 ? ? CA C ASN 25 ? ? C C ASN 25 ? ? 91.25 111.00 -19.75 2.70 N 4 1 N F ASN 25 ? ? CA F ASN 25 ? ? C F ASN 25 ? ? 127.89 111.00 16.89 2.70 N 5 1 N G GLY 24 ? ? CA G GLY 24 ? ? C G GLY 24 ? ? 135.90 113.10 22.80 2.50 N 6 1 CB G ASN 25 ? ? CA G ASN 25 ? ? C G ASN 25 ? ? 135.08 110.40 24.68 2.00 N 7 1 N G GLY 26 ? ? CA G GLY 26 ? ? C G GLY 26 ? ? 97.80 113.10 -15.30 2.50 N 8 1 N M GLY 24 ? ? CA M GLY 24 ? ? C M GLY 24 ? ? 146.11 113.10 33.01 2.50 N 9 1 N M ASN 25 ? ? CA M ASN 25 ? ? CB M ASN 25 ? ? 130.84 110.60 20.24 1.80 N 10 1 N M ASN 25 ? ? CA M ASN 25 ? ? C M ASN 25 ? ? 90.21 111.00 -20.79 2.70 N 11 1 N P GLY 24 ? ? CA P GLY 24 ? ? C P GLY 24 ? ? 151.80 113.10 38.70 2.50 N 12 1 N P ASN 25 ? ? CA P ASN 25 ? ? CB P ASN 25 ? ? 124.52 110.60 13.92 1.80 N 13 1 N V GLY 24 ? ? CA V GLY 24 ? ? C V GLY 24 ? ? 130.57 113.10 17.47 2.50 N 14 1 N H GLY 24 ? ? CA H GLY 24 ? ? C H GLY 24 ? ? 93.63 113.10 -19.47 2.50 N 15 1 N K ASN 25 ? ? CA K ASN 25 ? ? C K ASN 25 ? ? 127.39 111.00 16.39 2.70 N 16 1 N N GLY 24 ? ? CA N GLY 24 ? ? C N GLY 24 ? ? 143.43 113.10 30.33 2.50 N 17 1 N N ASN 25 ? ? CA N ASN 25 ? ? CB N ASN 25 ? ? 133.55 110.60 22.95 1.80 N 18 1 N N ASN 25 ? ? CA N ASN 25 ? ? C N ASN 25 ? ? 72.98 111.00 -38.02 2.70 N 19 1 N N GLY 26 ? ? CA N GLY 26 ? ? C N GLY 26 ? ? 129.49 113.10 16.39 2.50 N 20 1 N Q GLY 24 ? ? CA Q GLY 24 ? ? C Q GLY 24 ? ? 150.79 113.10 37.69 2.50 N 21 1 N T GLY 28 ? ? CA T GLY 28 ? ? C T GLY 28 ? ? 91.87 113.10 -21.23 2.50 N 22 1 N W GLY 24 ? ? CA W GLY 24 ? ? C W GLY 24 ? ? 142.71 113.10 29.61 2.50 N 23 1 N I GLY 24 ? ? CA I GLY 24 ? ? C I GLY 24 ? ? 97.05 113.10 -16.05 2.50 N 24 1 N I GLY 30 ? ? CA I GLY 30 ? ? C I GLY 30 ? ? 90.72 113.10 -22.38 2.50 N 25 1 N O ASN 25 ? ? CA O ASN 25 ? ? CB O ASN 25 ? ? 99.68 110.60 -10.92 1.80 N 26 1 N O ASN 25 ? ? CA O ASN 25 ? ? C O ASN 25 ? ? 130.87 111.00 19.87 2.70 N 27 1 N X GLY 24 ? ? CA X GLY 24 ? ? C X GLY 24 ? ? 141.39 113.10 28.29 2.50 N 28 1 N X ASN 25 ? ? CA X ASN 25 ? ? CB X ASN 25 ? ? 127.42 110.60 16.82 1.80 N 29 1 N X ASN 25 ? ? CA X ASN 25 ? ? C X ASN 25 ? ? 94.56 111.00 -16.44 2.70 N # 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 ASN C 25 ? ? -174.03 -171.03 2 1 ASN G 25 ? ? -106.13 -78.77 3 1 PHI S 23 ? ? 176.68 174.73 4 1 PHI V 23 ? ? -172.96 136.85 5 1 ASN V 27 ? ? -164.86 98.52 6 1 ASN N 25 ? ? -173.81 -175.37 7 1 ASN O 27 ? ? -160.44 -163.65 8 1 ASN R 27 ? ? -140.95 53.60 9 1 ASN X 25 ? ? -161.82 -162.95 # _pdbx_entry_details.entry_id 8IY7 _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8IY7 _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 ? # _em_3d_reconstruction.entry_id 8IY7 _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 3.71 _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 13423 _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 7.0 # _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 'Cryo-EM structure of DIP-2I8I fibril polymorph1' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 8IY7 _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 2000 _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 8IY7 _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 8IY7 _em_experiment.id 1 _em_experiment.reconstruction_method HELICAL _em_experiment.aggregation_state FILAMENT _em_experiment.entity_assembly_id 1 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ASN N N N N 1 ASN CA C N S 2 ASN C C N N 3 ASN O O N N 4 ASN CB C N N 5 ASN CG C N N 6 ASN OD1 O N N 7 ASN ND2 N N N 8 ASN OXT O N N 9 ASN H H N N 10 ASN H2 H N N 11 ASN HA H N N 12 ASN HB2 H N N 13 ASN HB3 H N N 14 ASN HD21 H N N 15 ASN HD22 H N N 16 ASN HXT H N N 17 GLY N N N N 18 GLY CA C N N 19 GLY C C N N 20 GLY O O N N 21 GLY OXT O N N 22 GLY H H N N 23 GLY H2 H N N 24 GLY HA2 H N N 25 GLY HA3 H N N 26 GLY HXT H N N 27 PHI N N N N 28 PHI CA C N S 29 PHI CB C N N 30 PHI CG C Y N 31 PHI CD1 C Y N 32 PHI CD2 C Y N 33 PHI CE1 C Y N 34 PHI CE2 C Y N 35 PHI CZ C Y N 36 PHI I I N N 37 PHI C C N N 38 PHI O O N N 39 PHI OXT O N N 40 PHI H H N N 41 PHI H2 H N N 42 PHI HA H N N 43 PHI HB2 H N N 44 PHI HB3 H N N 45 PHI HD1 H N N 46 PHI HD2 H N N 47 PHI HE1 H N N 48 PHI HE2 H N N 49 PHI HXT H N N 50 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ASN N CA sing N N 1 ASN N H sing N N 2 ASN N H2 sing N N 3 ASN CA C sing N N 4 ASN CA CB sing N N 5 ASN CA HA sing N N 6 ASN C O doub N N 7 ASN C OXT sing N N 8 ASN CB CG sing N N 9 ASN CB HB2 sing N N 10 ASN CB HB3 sing N N 11 ASN CG OD1 doub N N 12 ASN CG ND2 sing N N 13 ASN ND2 HD21 sing N N 14 ASN ND2 HD22 sing N N 15 ASN OXT HXT sing N N 16 GLY N CA sing N N 17 GLY N H sing N N 18 GLY N H2 sing N N 19 GLY CA C sing N N 20 GLY CA HA2 sing N N 21 GLY CA HA3 sing N N 22 GLY C O doub N N 23 GLY C OXT sing N N 24 GLY OXT HXT sing N N 25 PHI N CA sing N N 26 PHI N H sing N N 27 PHI N H2 sing N N 28 PHI CA CB sing N N 29 PHI CA C sing N N 30 PHI CA HA sing N N 31 PHI CB CG sing N N 32 PHI CB HB2 sing N N 33 PHI CB HB3 sing N N 34 PHI CG CD1 doub Y N 35 PHI CG CD2 sing Y N 36 PHI CD1 CE1 sing Y N 37 PHI CD1 HD1 sing N N 38 PHI CD2 CE2 doub Y N 39 PHI CD2 HD2 sing N N 40 PHI CE1 CZ doub Y N 41 PHI CE1 HE1 sing N N 42 PHI CE2 CZ sing Y N 43 PHI CE2 HE2 sing N N 44 PHI CZ I sing N N 45 PHI C O doub N N 46 PHI C OXT sing N N 47 PHI OXT HXT sing N N 48 # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type NONE # _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 9606 _em_entity_assembly_recombinant.organism 'Homo sapiens' _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 -1.24 _em_helical_entity.axial_rise_per_subunit 4.83 # _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 60 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 BIOQUANTUM (6k 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 'MODEL REFINEMENT' ? 1 ? ? ? PHENIX 1.15.2_3472: 'IMAGE ACQUISITION' ? 2 1 1 1 ? ? 'PARTICLE SELECTION' ? 3 1 1 1 ? ? 'VOLUME SELECTION' ? 4 1 1 1 ? ? CLASSIFICATION ? 5 1 1 1 ? ? MASKING ? 6 1 1 1 ? ? RECONSTRUCTION ? 7 1 1 1 ? ? 'INITIAL EULER ASSIGNMENT' ? 8 1 1 1 ? ? 'FINAL EULER ASSIGNMENT' ? 9 1 1 1 ? ? 'CTF CORRECTION' ? 10 1 1 1 ? ? 'LAYERLINE INDEXING' ? 11 1 1 1 ? ? 'DIFFRACTION INDEXING' ? 12 1 1 1 ? ? 'MODEL FITTING' ? 13 1 1 1 ? ? 'SERIES ALIGNMENT' ? 14 1 1 1 ? ? 'MOLECULAR REPLACEMENT' ? 15 1 1 1 ? ? 'LATTICE DISTORTION CORRECTION' ? 16 1 1 1 ? ? 'SYMMETRY DETERMINATION' ? 17 1 1 1 ? ? 'CRYSTALLOGRAPHY MERGING' ? 18 1 1 1 ? ? OTHER ? 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 # _pdbx_audit_support.funding_organization 'Not funded' _pdbx_audit_support.country ? _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id PHI _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id PHI _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _atom_sites.entry_id 8IY7 _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 I N O # loop_