data_7YWH # _entry.id 7YWH # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.373 _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 7YWH pdb_00007ywh 10.2210/pdb7ywh/pdb WWPDB D_1292120805 ? ? EMDB EMD-14342 ? ? # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Six DNA Helix Bundle nanopore - State 1' _pdbx_database_related.db_id EMD-14342 _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 7YWH _pdbx_database_status.recvd_initial_deposition_date 2022-02-14 _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 'Javed, A.' 1 0000-0002-5829-6057 'Ahmad, K.' 2 0000-0003-2515-8990 'Lanphere, C.' 3 0000-0002-2033-3609 'Coveney, P.' 4 0000-0002-8787-7256 'Howorka, S.' 5 0000-0002-6527-2846 'Orlova, E.V.' 6 0000-0003-3371-415X # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nat Commun' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2041-1723 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 14 _citation.language ? _citation.page_first 3630 _citation.page_last 3630 _citation.title 'Structure and dynamics of an archetypal DNA nanoarchitecture revealed via cryo-EM and molecular dynamics simulations.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-023-38681-5 _citation.pdbx_database_id_PubMed 37336895 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ahmad, K.' 1 0000-0003-2515-8990 primary 'Javed, A.' 2 0000-0002-5829-6057 primary 'Lanphere, C.' 3 0000-0002-2033-3609 primary 'Coveney, P.V.' 4 0000-0002-8787-7256 primary 'Orlova, E.V.' 5 0000-0003-3371-415X primary 'Howorka, S.' 6 0000-0002-6527-2846 # _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 7YWH _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 ? # _symmetry.entry_id 7YWH _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 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn 'DNA (50-MER)' 15334.821 1 ? ? ? 'Synthetic construct' 2 polymer syn 'DNA (50-MER)' 15413.827 1 ? ? ? ? 3 polymer syn 'DNA (50-MER)' 15285.784 1 ? ? ? ? 4 polymer syn 'DNA (50-MER)' 15483.923 1 ? ? ? ? 5 polymer syn 'DNA (50-MER)' 15403.877 1 ? ? ? ? 6 polymer syn 'DNA (50-MER)' 15268.795 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no ;(DA)(DG)(DC)(DG)(DA)(DA)(DC)(DG)(DT)(DG)(DG)(DA)(DT)(DT)(DT)(DT)(DG)(DT)(DC)(DC) (DG)(DA)(DC)(DA)(DT)(DC)(DG)(DG)(DC)(DA)(DA)(DG)(DC)(DT)(DC)(DC)(DC)(DT)(DT)(DT) (DT)(DT)(DC)(DG)(DA)(DC)(DT)(DA)(DT)(DT) ; AGCGAACGTGGATTTTGTCCGACATCGGCAAGCTCCCTTTTTCGACTATT A ? 2 polydeoxyribonucleotide no no ;(DC)(DC)(DG)(DA)(DT)(DG)(DT)(DC)(DG)(DG)(DA)(DC)(DT)(DT)(DT)(DT)(DA)(DC)(DA)(DC) (DG)(DA)(DT)(DC)(DT)(DT)(DC)(DG)(DC)(DC)(DT)(DG)(DC)(DT)(DG)(DG)(DG)(DT)(DT)(DT) (DT)(DG)(DG)(DG)(DA)(DG)(DC)(DT)(DT)(DG) ; CCGATGTCGGACTTTTACACGATCTTCGCCTGCTGGGTTTTGGGAGCTTG B ? 3 polydeoxyribonucleotide no no ;(DC)(DG)(DA)(DA)(DG)(DA)(DT)(DC)(DG)(DT)(DG)(DT)(DT)(DT)(DT)(DT)(DC)(DC)(DA)(DC) (DA)(DG)(DT)(DT)(DG)(DA)(DT)(DT)(DG)(DC)(DC)(DC)(DT)(DT)(DC)(DA)(DC)(DT)(DT)(DT) (DT)(DC)(DC)(DC)(DA)(DG)(DC)(DA)(DG)(DG) ; CGAAGATCGTGTTTTTCCACAGTTGATTGCCCTTCACTTTTCCCAGCAGG C ? 4 polydeoxyribonucleotide no no ;(DA)(DA)(DT)(DC)(DA)(DA)(DC)(DT)(DG)(DT)(DG)(DG)(DT)(DT)(DT)(DT)(DT)(DC)(DT)(DC) (DA)(DC)(DT)(DG)(DG)(DT)(DG)(DA)(DT)(DT)(DA)(DG)(DA)(DA)(DT)(DG)(DC)(DT)(DT)(DT) (DT)(DG)(DT)(DG)(DA)(DA)(DG)(DG)(DG)(DC) ; AATCAACTGTGGTTTTTCTCACTGGTGATTAGAATGCTTTTGTGAAGGGC D ? 5 polydeoxyribonucleotide no no ;(DT)(DC)(DA)(DC)(DC)(DA)(DG)(DT)(DG)(DA)(DG)(DA)(DT)(DT)(DT)(DT)(DT)(DG)(DT)(DC) (DG)(DT)(DA)(DC)(DC)(DA)(DG)(DG)(DT)(DG)(DC)(DA)(DT)(DG)(DG)(DA)(DT)(DT)(DT)(DT) (DT)(DG)(DC)(DA)(DT)(DT)(DC)(DT)(DA)(DA) ; TCACCAGTGAGATTTTTGTCGTACCAGGTGCATGGATTTTTGCATTCTAA E ? 6 polydeoxyribonucleotide no no ;(DC)(DC)(DT)(DG)(DG)(DT)(DA)(DC)(DG)(DA)(DC)(DA)(DT)(DT)(DT)(DT)(DT)(DC)(DC)(DA) (DC)(DG)(DT)(DT)(DC)(DG)(DC)(DT)(DA)(DA)(DT)(DA)(DG)(DT)(DC)(DG)(DA)(DT)(DT)(DT) (DT)(DA)(DT)(DC)(DC)(DA)(DT)(DG)(DC)(DA) ; CCTGGTACGACATTTTTCCACGTTCGCTAATAGTCGATTTTATCCATGCA F ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DA n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DC n 1 8 DG n 1 9 DT n 1 10 DG n 1 11 DG n 1 12 DA n 1 13 DT n 1 14 DT n 1 15 DT n 1 16 DT n 1 17 DG n 1 18 DT n 1 19 DC n 1 20 DC n 1 21 DG n 1 22 DA n 1 23 DC n 1 24 DA n 1 25 DT n 1 26 DC n 1 27 DG n 1 28 DG n 1 29 DC n 1 30 DA n 1 31 DA n 1 32 DG n 1 33 DC n 1 34 DT n 1 35 DC n 1 36 DC n 1 37 DC n 1 38 DT n 1 39 DT n 1 40 DT n 1 41 DT n 1 42 DT n 1 43 DC n 1 44 DG n 1 45 DA n 1 46 DC n 1 47 DT n 1 48 DA n 1 49 DT n 1 50 DT n 2 1 DC n 2 2 DC n 2 3 DG n 2 4 DA n 2 5 DT n 2 6 DG n 2 7 DT n 2 8 DC n 2 9 DG n 2 10 DG n 2 11 DA n 2 12 DC n 2 13 DT n 2 14 DT n 2 15 DT n 2 16 DT n 2 17 DA n 2 18 DC n 2 19 DA n 2 20 DC n 2 21 DG n 2 22 DA n 2 23 DT n 2 24 DC n 2 25 DT n 2 26 DT n 2 27 DC n 2 28 DG n 2 29 DC n 2 30 DC n 2 31 DT n 2 32 DG n 2 33 DC n 2 34 DT n 2 35 DG n 2 36 DG n 2 37 DG n 2 38 DT n 2 39 DT n 2 40 DT n 2 41 DT n 2 42 DG n 2 43 DG n 2 44 DG n 2 45 DA n 2 46 DG n 2 47 DC n 2 48 DT n 2 49 DT n 2 50 DG n 3 1 DC n 3 2 DG n 3 3 DA n 3 4 DA n 3 5 DG n 3 6 DA n 3 7 DT n 3 8 DC n 3 9 DG n 3 10 DT n 3 11 DG n 3 12 DT n 3 13 DT n 3 14 DT n 3 15 DT n 3 16 DT n 3 17 DC n 3 18 DC n 3 19 DA n 3 20 DC n 3 21 DA n 3 22 DG n 3 23 DT n 3 24 DT n 3 25 DG n 3 26 DA n 3 27 DT n 3 28 DT n 3 29 DG n 3 30 DC n 3 31 DC n 3 32 DC n 3 33 DT n 3 34 DT n 3 35 DC n 3 36 DA n 3 37 DC n 3 38 DT n 3 39 DT n 3 40 DT n 3 41 DT n 3 42 DC n 3 43 DC n 3 44 DC n 3 45 DA n 3 46 DG n 3 47 DC n 3 48 DA n 3 49 DG n 3 50 DG n 4 1 DA n 4 2 DA n 4 3 DT n 4 4 DC n 4 5 DA n 4 6 DA n 4 7 DC n 4 8 DT n 4 9 DG n 4 10 DT n 4 11 DG n 4 12 DG n 4 13 DT n 4 14 DT n 4 15 DT n 4 16 DT n 4 17 DT n 4 18 DC n 4 19 DT n 4 20 DC n 4 21 DA n 4 22 DC n 4 23 DT n 4 24 DG n 4 25 DG n 4 26 DT n 4 27 DG n 4 28 DA n 4 29 DT n 4 30 DT n 4 31 DA n 4 32 DG n 4 33 DA n 4 34 DA n 4 35 DT n 4 36 DG n 4 37 DC n 4 38 DT n 4 39 DT n 4 40 DT n 4 41 DT n 4 42 DG n 4 43 DT n 4 44 DG n 4 45 DA n 4 46 DA n 4 47 DG n 4 48 DG n 4 49 DG n 4 50 DC n 5 1 DT n 5 2 DC n 5 3 DA n 5 4 DC n 5 5 DC n 5 6 DA n 5 7 DG n 5 8 DT n 5 9 DG n 5 10 DA n 5 11 DG n 5 12 DA n 5 13 DT n 5 14 DT n 5 15 DT n 5 16 DT n 5 17 DT n 5 18 DG n 5 19 DT n 5 20 DC n 5 21 DG n 5 22 DT n 5 23 DA n 5 24 DC n 5 25 DC n 5 26 DA n 5 27 DG n 5 28 DG n 5 29 DT n 5 30 DG n 5 31 DC n 5 32 DA n 5 33 DT n 5 34 DG n 5 35 DG n 5 36 DA n 5 37 DT n 5 38 DT n 5 39 DT n 5 40 DT n 5 41 DT n 5 42 DG n 5 43 DC n 5 44 DA n 5 45 DT n 5 46 DT n 5 47 DC n 5 48 DT n 5 49 DA n 5 50 DA n 6 1 DC n 6 2 DC n 6 3 DT n 6 4 DG n 6 5 DG n 6 6 DT n 6 7 DA n 6 8 DC n 6 9 DG n 6 10 DA n 6 11 DC n 6 12 DA n 6 13 DT n 6 14 DT n 6 15 DT n 6 16 DT n 6 17 DT n 6 18 DC n 6 19 DC n 6 20 DA n 6 21 DC n 6 22 DG n 6 23 DT n 6 24 DT n 6 25 DC n 6 26 DG n 6 27 DC n 6 28 DT n 6 29 DA n 6 30 DA n 6 31 DT n 6 32 DA n 6 33 DG n 6 34 DT n 6 35 DC n 6 36 DG n 6 37 DA n 6 38 DT n 6 39 DT n 6 40 DT n 6 41 DT n 6 42 DA n 6 43 DT n 6 44 DC n 6 45 DC n 6 46 DA n 6 47 DT n 6 48 DG n 6 49 DC n 6 50 DA n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample 1 50 'DNA molecule' ? 2853804 ? 2 1 sample 1 50 'DNA molecule' ? 2853804 ? 3 1 sample 1 50 'DNA molecule' ? 2853804 ? 4 1 sample 1 50 'DNA molecule' ? 2853804 ? 5 1 sample 1 50 'DNA molecule' ? 2853804 ? 6 1 sample 1 50 'DNA molecule' ? 2853804 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 7YWH 7YWH ? 1 ? 1 2 PDB 7YWH 7YWH ? 2 ? 1 3 PDB 7YWH 7YWH ? 3 ? 1 4 PDB 7YWH 7YWH ? 4 ? 1 5 PDB 7YWH 7YWH ? 5 ? 1 6 PDB 7YWH 7YWH ? 6 ? 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 7YWH A 1 ? 50 ? 7YWH 1 ? 50 ? 1 50 2 2 7YWH B 1 ? 50 ? 7YWH 1 ? 50 ? 1 50 3 3 7YWH C 1 ? 50 ? 7YWH 1 ? 50 ? 1 50 4 4 7YWH D 1 ? 50 ? 7YWH 1 ? 50 ? 1 50 5 5 7YWH E 1 ? 50 ? 7YWH 1 ? 50 ? 1 50 6 6 7YWH F 1 ? 50 ? 7YWH 1 ? 50 ? 1 50 # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 # _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 7YWH _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _struct.entry_id 7YWH _struct.title 'Six DNA Helix Bundle nanopore - State 1' _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 7YWH _struct_keywords.text 'DNA origami, nanopore., DNA' _struct_keywords.pdbx_keywords DNA # 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 2 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 6 ? # 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 hydrog1 hydrog ? ? A DC 3 O2 ? ? ? 1_555 A DA 5 N6 ? ? A DC 3 A DA 5 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? ? hydrog2 hydrog ? ? A DG 4 O6 ? ? ? 1_555 F DT 23 N3 ? ? A DG 4 F DT 23 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog3 hydrog ? ? A DG 27 N1 ? ? ? 1_555 B DG 50 O6 ? ? A DG 27 B DG 50 1_555 ? ? ? ? ? ? 'DG-DG MISPAIR' ? ? ? hydrog4 hydrog ? ? A DC 29 N3 ? ? ? 1_555 A DA 31 N6 ? ? A DC 29 A DA 31 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? ? hydrog5 hydrog ? ? A DA 31 N1 ? ? ? 1_555 B DG 46 N2 ? ? A DA 31 B DG 46 1_555 ? ? ? ? ? ? 'DA-DG MISPAIR' ? ? ? hydrog6 hydrog ? ? A DC 33 N3 ? ? ? 1_555 A DC 35 N4 ? ? A DC 33 A DC 35 1_555 ? ? ? ? ? ? 'DC-DC MISPAIR' ? ? ? hydrog7 hydrog ? ? A DC 33 N4 ? ? ? 1_555 B DG 42 N7 ? ? A DC 33 B DG 42 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog8 hydrog ? ? A DT 38 N3 ? ? ? 1_555 B DT 40 O4 ? ? A DT 38 B DT 40 1_555 ? ? ? ? ? ? 'DT-DT MISPAIR' ? ? ? hydrog9 hydrog ? ? A DG 44 N7 ? ? ? 1_555 F DT 31 N3 ? ? A DG 44 F DT 31 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog10 hydrog ? ? B DC 18 N4 ? ? ? 1_555 C DT 10 O2 ? ? B DC 18 C DT 10 1_555 ? ? ? ? ? ? 'DC-DT MISPAIR' ? ? ? hydrog11 hydrog ? ? B DC 18 N4 ? ? ? 1_555 C DG 11 O6 ? ? B DC 18 C DG 11 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog12 hydrog ? ? B DG 21 N7 ? ? ? 1_555 C DT 7 N3 ? ? B DG 21 C DT 7 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog13 hydrog ? ? B DA 22 N6 ? ? ? 1_555 C DA 6 N1 ? ? B DA 22 C DA 6 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog14 hydrog ? ? B DA 22 N7 ? ? ? 1_555 C DA 6 N6 ? ? B DA 22 C DA 6 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog15 hydrog ? ? B DC 24 N4 ? ? ? 1_555 C DA 4 N7 ? ? B DC 24 C DA 4 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? ? hydrog16 hydrog ? ? B DT 26 O2 ? ? ? 1_555 C DA 4 N6 ? ? B DT 26 C DA 4 1_555 ? ? ? ? ? ? 'DT-DA PAIR' ? ? ? hydrog17 hydrog ? ? B DC 27 O2 ? ? ? 1_555 C DA 3 N6 ? ? B DC 27 C DA 3 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? ? hydrog18 hydrog ? ? B DG 32 N2 ? ? ? 1_555 C DG 46 O6 ? ? B DG 32 C DG 46 1_555 ? ? ? ? ? ? 'DG-DG MISPAIR' ? ? ? hydrog19 hydrog ? ? C DC 1 O2 ? ? ? 1_555 C DC 44 N4 ? ? C DC 1 C DC 44 1_555 ? ? ? ? ? ? 'DC-DC MISPAIR' ? ? ? hydrog20 hydrog ? ? C DA 21 N6 ? ? ? 1_555 D DT 8 O4 ? ? C DA 21 D DT 8 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog21 hydrog ? ? C DT 28 O2 ? ? ? 1_555 C DC 31 N4 ? ? C DT 28 C DC 31 1_555 ? ? ? ? ? ? 'DT-DC MISPAIR' ? ? ? hydrog22 hydrog ? ? C DG 29 O6 ? ? ? 1_555 D DC 50 N4 ? ? C DG 29 D DC 50 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog23 hydrog ? ? D DC 20 O2 ? ? ? 1_555 D DC 22 N4 ? ? D DC 20 D DC 22 1_555 ? ? ? ? ? ? 'DC-DC MISPAIR' ? ? ? hydrog24 hydrog ? ? D DT 29 O2 ? ? ? 1_555 E DA 49 N6 ? ? D DT 29 E DA 49 1_555 ? ? ? ? ? ? 'DT-DA PAIR' ? ? ? hydrog25 hydrog ? ? E DG 18 N1 ? ? ? 1_555 F DC 8 O2 ? ? E DG 18 F DC 8 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog26 hydrog ? ? E DG 18 N2 ? ? ? 1_555 F DA 10 N1 ? ? E DG 18 F DA 10 1_555 ? ? ? ? ? ? 'DG-DA MISPAIR' ? ? ? hydrog27 hydrog ? ? E DC 20 O2 ? ? ? 1_555 F DA 7 N6 ? ? E DC 20 F DA 7 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? ? hydrog28 hydrog ? ? E DC 24 N4 ? ? ? 1_555 F DG 4 O6 ? ? E DC 24 F DG 4 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog29 hydrog ? ? E DA 26 N6 ? ? ? 1_555 E DT 46 O4 ? ? E DA 26 E DT 46 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog30 hydrog ? ? E DA 32 N3 ? ? ? 1_555 F DT 47 N3 ? ? E DA 32 F DT 47 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog31 hydrog ? ? E DG 34 O6 ? ? ? 1_555 F DC 44 N4 ? ? E DG 34 F DC 44 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog32 hydrog ? ? F DC 8 O2 ? ? ? 1_555 F DA 10 N6 ? ? F DC 8 F DA 10 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? ? hydrog33 hydrog ? ? F DA 20 N3 ? ? ? 1_555 F DG 22 N1 ? ? F DA 20 F DG 22 1_555 ? ? ? ? ? ? 'DA-DG MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 7YWH _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 H N O P # 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 DA 1 1 1 DA DA A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DG 8 8 8 DG DG A . n A 1 9 DT 9 9 9 DT DT A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DG 11 11 11 DG DG A . n A 1 12 DA 12 12 12 DA DA A . n A 1 13 DT 13 13 13 DT DT A . n A 1 14 DT 14 14 14 DT DT A . n A 1 15 DT 15 15 15 DT DT A . n A 1 16 DT 16 16 16 DT DT A . n A 1 17 DG 17 17 17 DG DG A . n A 1 18 DT 18 18 18 DT DT A . n A 1 19 DC 19 19 19 DC DC A . n A 1 20 DC 20 20 20 DC DC A . n A 1 21 DG 21 21 21 DG DG A . n A 1 22 DA 22 22 22 DA DA A . n A 1 23 DC 23 23 23 DC DC A . n A 1 24 DA 24 24 24 DA DA A . n A 1 25 DT 25 25 25 DT DT A . n A 1 26 DC 26 26 26 DC DC A . n A 1 27 DG 27 27 27 DG DG A . n A 1 28 DG 28 28 28 DG DG A . n A 1 29 DC 29 29 29 DC DC A . n A 1 30 DA 30 30 30 DA DA A . n A 1 31 DA 31 31 31 DA DA A . n A 1 32 DG 32 32 32 DG DG A . n A 1 33 DC 33 33 33 DC DC A . n A 1 34 DT 34 34 34 DT DT A . n A 1 35 DC 35 35 35 DC DC A . n A 1 36 DC 36 36 36 DC DC A . n A 1 37 DC 37 37 37 DC DC A . n A 1 38 DT 38 38 38 DT DT A . n A 1 39 DT 39 39 39 DT DT A . n A 1 40 DT 40 40 40 DT DT A . n A 1 41 DT 41 41 41 DT DT A . n A 1 42 DT 42 42 42 DT DT A . n A 1 43 DC 43 43 43 DC DC A . n A 1 44 DG 44 44 44 DG DG A . n A 1 45 DA 45 45 45 DA DA A . n A 1 46 DC 46 46 46 DC DC A . n A 1 47 DT 47 47 47 DT DT A . n A 1 48 DA 48 48 48 DA DA A . n A 1 49 DT 49 49 49 DT DT A . n A 1 50 DT 50 50 50 DT DT A . n B 2 1 DC 1 1 1 DC DC B . n B 2 2 DC 2 2 2 DC DC B . n B 2 3 DG 3 3 3 DG DG B . n B 2 4 DA 4 4 4 DA DA B . n B 2 5 DT 5 5 5 DT DT B . n B 2 6 DG 6 6 6 DG DG B . n B 2 7 DT 7 7 7 DT DT B . n B 2 8 DC 8 8 8 DC DC B . n B 2 9 DG 9 9 9 DG DG B . n B 2 10 DG 10 10 10 DG DG B . n B 2 11 DA 11 11 11 DA DA B . n B 2 12 DC 12 12 12 DC DC B . n B 2 13 DT 13 13 13 DT DT B . n B 2 14 DT 14 14 14 DT DT B . n B 2 15 DT 15 15 15 DT DT B . n B 2 16 DT 16 16 16 DT DT B . n B 2 17 DA 17 17 17 DA DA B . n B 2 18 DC 18 18 18 DC DC B . n B 2 19 DA 19 19 19 DA DA B . n B 2 20 DC 20 20 20 DC DC B . n B 2 21 DG 21 21 21 DG DG B . n B 2 22 DA 22 22 22 DA DA B . n B 2 23 DT 23 23 23 DT DT B . n B 2 24 DC 24 24 24 DC DC B . n B 2 25 DT 25 25 25 DT DT B . n B 2 26 DT 26 26 26 DT DT B . n B 2 27 DC 27 27 27 DC DC B . n B 2 28 DG 28 28 28 DG DG B . n B 2 29 DC 29 29 29 DC DC B . n B 2 30 DC 30 30 30 DC DC B . n B 2 31 DT 31 31 31 DT DT B . n B 2 32 DG 32 32 32 DG DG B . n B 2 33 DC 33 33 33 DC DC B . n B 2 34 DT 34 34 34 DT DT B . n B 2 35 DG 35 35 35 DG DG B . n B 2 36 DG 36 36 36 DG DG B . n B 2 37 DG 37 37 37 DG DG B . n B 2 38 DT 38 38 38 DT DT B . n B 2 39 DT 39 39 39 DT DT B . n B 2 40 DT 40 40 40 DT DT B . n B 2 41 DT 41 41 41 DT DT B . n B 2 42 DG 42 42 42 DG DG B . n B 2 43 DG 43 43 43 DG DG B . n B 2 44 DG 44 44 44 DG DG B . n B 2 45 DA 45 45 45 DA DA B . n B 2 46 DG 46 46 46 DG DG B . n B 2 47 DC 47 47 47 DC DC B . n B 2 48 DT 48 48 48 DT DT B . n B 2 49 DT 49 49 49 DT DT B . n B 2 50 DG 50 50 50 DG DG B . n C 3 1 DC 1 1 1 DC DC C . n C 3 2 DG 2 2 2 DG DG C . n C 3 3 DA 3 3 3 DA DA C . n C 3 4 DA 4 4 4 DA DA C . n C 3 5 DG 5 5 5 DG DG C . n C 3 6 DA 6 6 6 DA DA C . n C 3 7 DT 7 7 7 DT DT C . n C 3 8 DC 8 8 8 DC DC C . n C 3 9 DG 9 9 9 DG DG C . n C 3 10 DT 10 10 10 DT DT C . n C 3 11 DG 11 11 11 DG DG C . n C 3 12 DT 12 12 12 DT DT C . n C 3 13 DT 13 13 13 DT DT C . n C 3 14 DT 14 14 14 DT DT C . n C 3 15 DT 15 15 15 DT DT C . n C 3 16 DT 16 16 16 DT DT C . n C 3 17 DC 17 17 17 DC DC C . n C 3 18 DC 18 18 18 DC DC C . n C 3 19 DA 19 19 19 DA DA C . n C 3 20 DC 20 20 20 DC DC C . n C 3 21 DA 21 21 21 DA DA C . n C 3 22 DG 22 22 22 DG DG C . n C 3 23 DT 23 23 23 DT DT C . n C 3 24 DT 24 24 24 DT DT C . n C 3 25 DG 25 25 25 DG DG C . n C 3 26 DA 26 26 26 DA DA C . n C 3 27 DT 27 27 27 DT DT C . n C 3 28 DT 28 28 28 DT DT C . n C 3 29 DG 29 29 29 DG DG C . n C 3 30 DC 30 30 30 DC DC C . n C 3 31 DC 31 31 31 DC DC C . n C 3 32 DC 32 32 32 DC DC C . n C 3 33 DT 33 33 33 DT DT C . n C 3 34 DT 34 34 34 DT DT C . n C 3 35 DC 35 35 35 DC DC C . n C 3 36 DA 36 36 36 DA DA C . n C 3 37 DC 37 37 37 DC DC C . n C 3 38 DT 38 38 38 DT DT C . n C 3 39 DT 39 39 39 DT DT C . n C 3 40 DT 40 40 40 DT DT C . n C 3 41 DT 41 41 41 DT DT C . n C 3 42 DC 42 42 42 DC DC C . n C 3 43 DC 43 43 43 DC DC C . n C 3 44 DC 44 44 44 DC DC C . n C 3 45 DA 45 45 45 DA DA C . n C 3 46 DG 46 46 46 DG DG C . n C 3 47 DC 47 47 47 DC DC C . n C 3 48 DA 48 48 48 DA DA C . n C 3 49 DG 49 49 49 DG DG C . n C 3 50 DG 50 50 50 DG DG C . n D 4 1 DA 1 1 1 DA DA D . n D 4 2 DA 2 2 2 DA DA D . n D 4 3 DT 3 3 3 DT DT D . n D 4 4 DC 4 4 4 DC DC D . n D 4 5 DA 5 5 5 DA DA D . n D 4 6 DA 6 6 6 DA DA D . n D 4 7 DC 7 7 7 DC DC D . n D 4 8 DT 8 8 8 DT DT D . n D 4 9 DG 9 9 9 DG DG D . n D 4 10 DT 10 10 10 DT DT D . n D 4 11 DG 11 11 11 DG DG D . n D 4 12 DG 12 12 12 DG DG D . n D 4 13 DT 13 13 13 DT DT D . n D 4 14 DT 14 14 14 DT DT D . n D 4 15 DT 15 15 15 DT DT D . n D 4 16 DT 16 16 16 DT DT D . n D 4 17 DT 17 17 17 DT DT D . n D 4 18 DC 18 18 18 DC DC D . n D 4 19 DT 19 19 19 DT DT D . n D 4 20 DC 20 20 20 DC DC D . n D 4 21 DA 21 21 21 DA DA D . n D 4 22 DC 22 22 22 DC DC D . n D 4 23 DT 23 23 23 DT DT D . n D 4 24 DG 24 24 24 DG DG D . n D 4 25 DG 25 25 25 DG DG D . n D 4 26 DT 26 26 26 DT DT D . n D 4 27 DG 27 27 27 DG DG D . n D 4 28 DA 28 28 28 DA DA D . n D 4 29 DT 29 29 29 DT DT D . n D 4 30 DT 30 30 30 DT DT D . n D 4 31 DA 31 31 31 DA DA D . n D 4 32 DG 32 32 32 DG DG D . n D 4 33 DA 33 33 33 DA DA D . n D 4 34 DA 34 34 34 DA DA D . n D 4 35 DT 35 35 35 DT DT D . n D 4 36 DG 36 36 36 DG DG D . n D 4 37 DC 37 37 37 DC DC D . n D 4 38 DT 38 38 38 DT DT D . n D 4 39 DT 39 39 39 DT DT D . n D 4 40 DT 40 40 40 DT DT D . n D 4 41 DT 41 41 41 DT DT D . n D 4 42 DG 42 42 42 DG DG D . n D 4 43 DT 43 43 43 DT DT D . n D 4 44 DG 44 44 44 DG DG D . n D 4 45 DA 45 45 45 DA DA D . n D 4 46 DA 46 46 46 DA DA D . n D 4 47 DG 47 47 47 DG DG D . n D 4 48 DG 48 48 48 DG DG D . n D 4 49 DG 49 49 49 DG DG D . n D 4 50 DC 50 50 50 DC DC D . n E 5 1 DT 1 1 1 DT DT E . n E 5 2 DC 2 2 2 DC DC E . n E 5 3 DA 3 3 3 DA DA E . n E 5 4 DC 4 4 4 DC DC E . n E 5 5 DC 5 5 5 DC DC E . n E 5 6 DA 6 6 6 DA DA E . n E 5 7 DG 7 7 7 DG DG E . n E 5 8 DT 8 8 8 DT DT E . n E 5 9 DG 9 9 9 DG DG E . n E 5 10 DA 10 10 10 DA DA E . n E 5 11 DG 11 11 11 DG DG E . n E 5 12 DA 12 12 12 DA DA E . n E 5 13 DT 13 13 13 DT DT E . n E 5 14 DT 14 14 14 DT DT E . n E 5 15 DT 15 15 15 DT DT E . n E 5 16 DT 16 16 16 DT DT E . n E 5 17 DT 17 17 17 DT DT E . n E 5 18 DG 18 18 18 DG DG E . n E 5 19 DT 19 19 19 DT DT E . n E 5 20 DC 20 20 20 DC DC E . n E 5 21 DG 21 21 21 DG DG E . n E 5 22 DT 22 22 22 DT DT E . n E 5 23 DA 23 23 23 DA DA E . n E 5 24 DC 24 24 24 DC DC E . n E 5 25 DC 25 25 25 DC DC E . n E 5 26 DA 26 26 26 DA DA E . n E 5 27 DG 27 27 27 DG DG E . n E 5 28 DG 28 28 28 DG DG E . n E 5 29 DT 29 29 29 DT DT E . n E 5 30 DG 30 30 30 DG DG E . n E 5 31 DC 31 31 31 DC DC E . n E 5 32 DA 32 32 32 DA DA E . n E 5 33 DT 33 33 33 DT DT E . n E 5 34 DG 34 34 34 DG DG E . n E 5 35 DG 35 35 35 DG DG E . n E 5 36 DA 36 36 36 DA DA E . n E 5 37 DT 37 37 37 DT DT E . n E 5 38 DT 38 38 38 DT DT E . n E 5 39 DT 39 39 39 DT DT E . n E 5 40 DT 40 40 40 DT DT E . n E 5 41 DT 41 41 41 DT DT E . n E 5 42 DG 42 42 42 DG DG E . n E 5 43 DC 43 43 43 DC DC E . n E 5 44 DA 44 44 44 DA DA E . n E 5 45 DT 45 45 45 DT DT E . n E 5 46 DT 46 46 46 DT DT E . n E 5 47 DC 47 47 47 DC DC E . n E 5 48 DT 48 48 48 DT DT E . n E 5 49 DA 49 49 49 DA DA E . n E 5 50 DA 50 50 50 DA DA E . n F 6 1 DC 1 1 1 DC DC F . n F 6 2 DC 2 2 2 DC DC F . n F 6 3 DT 3 3 3 DT DT F . n F 6 4 DG 4 4 4 DG DG F . n F 6 5 DG 5 5 5 DG DG F . n F 6 6 DT 6 6 6 DT DT F . n F 6 7 DA 7 7 7 DA DA F . n F 6 8 DC 8 8 8 DC DC F . n F 6 9 DG 9 9 9 DG DG F . n F 6 10 DA 10 10 10 DA DA F . n F 6 11 DC 11 11 11 DC DC F . n F 6 12 DA 12 12 12 DA DA F . n F 6 13 DT 13 13 13 DT DT F . n F 6 14 DT 14 14 14 DT DT F . n F 6 15 DT 15 15 15 DT DT F . n F 6 16 DT 16 16 16 DT DT F . n F 6 17 DT 17 17 17 DT DT F . n F 6 18 DC 18 18 18 DC DC F . n F 6 19 DC 19 19 19 DC DC F . n F 6 20 DA 20 20 20 DA DA F . n F 6 21 DC 21 21 21 DC DC F . n F 6 22 DG 22 22 22 DG DG F . n F 6 23 DT 23 23 23 DT DT F . n F 6 24 DT 24 24 24 DT DT F . n F 6 25 DC 25 25 25 DC DC F . n F 6 26 DG 26 26 26 DG DG F . n F 6 27 DC 27 27 27 DC DC F . n F 6 28 DT 28 28 28 DT DT F . n F 6 29 DA 29 29 29 DA DA F . n F 6 30 DA 30 30 30 DA DA F . n F 6 31 DT 31 31 31 DT DT F . n F 6 32 DA 32 32 32 DA DA F . n F 6 33 DG 33 33 33 DG DG F . n F 6 34 DT 34 34 34 DT DT F . n F 6 35 DC 35 35 35 DC DC F . n F 6 36 DG 36 36 36 DG DG F . n F 6 37 DA 37 37 37 DA DA F . n F 6 38 DT 38 38 38 DT DT F . n F 6 39 DT 39 39 39 DT DT F . n F 6 40 DT 40 40 40 DT DT F . n F 6 41 DT 41 41 41 DT DT F . n F 6 42 DA 42 42 42 DA DA F . n F 6 43 DT 43 43 43 DT DT F . n F 6 44 DC 44 44 44 DC DC F . n F 6 45 DC 45 45 45 DC DC F . n F 6 46 DA 46 46 46 DA DA F . n F 6 47 DT 47 47 47 DT DT F . n F 6 48 DG 48 48 48 DG DG F . n F 6 49 DC 49 49 49 DC DC F . n F 6 50 DA 50 50 50 DA DA F . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email e.orlova@mail.cryst.bbk.ac.uk _pdbx_contact_author.name_first Elena _pdbx_contact_author.name_last Orlova _pdbx_contact_author.name_mi V _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-3371-415X # _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 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 21000 ? 1 MORE -48 ? 1 'SSA (A^2)' 58280 ? # _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_ _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 2023-05-24 2 'Structure model' 1 1 2023-07-05 # _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_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group '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 # 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.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.journal_volume' 6 2 'Structure model' '_citation.page_first' 7 2 'Structure model' '_citation.page_last' 8 2 'Structure model' '_citation.pdbx_database_id_DOI' 9 2 'Structure model' '_citation.pdbx_database_id_PubMed' 10 2 'Structure model' '_citation.title' 11 2 'Structure model' '_citation.year' 12 2 'Structure model' '_citation_author.name' # _em_3d_fitting.entry_id 7YWH _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_protocol 'FLEXIBLE FIT' _em_3d_fitting.ref_space REAL _em_3d_fitting.target_criteria Cross-correlation _em_3d_fitting.method ? # _em_3d_reconstruction.entry_id 7YWH _em_3d_reconstruction.id 1 _em_3d_reconstruction.algorithm 'FOURIER SPACE' _em_3d_reconstruction.details ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.num_class_averages 1 _em_3d_reconstruction.num_particles 16938 _em_3d_reconstruction.resolution 8 _em_3d_reconstruction.resolution_method 'FSC 0.5 CUT-OFF' _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.method ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.magnification_calibration ? # _em_buffer.id 1 _em_buffer.details ? _em_buffer.pH 7.4 _em_buffer.specimen_id 1 _em_buffer.name ? # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.details ? _em_entity_assembly.name 'Six DNA helix bundle DNA nanopore' _em_entity_assembly.source 'MULTIPLE SOURCES' _em_entity_assembly.type COMPLEX _em_entity_assembly.entity_id_list '1, 2, 3, 4, 5, 6' _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_image_scans.entry_id 7YWH _em_image_scans.id 1 _em_image_scans.dimension_height ? _em_image_scans.dimension_width ? _em_image_scans.frames_per_image 50 _em_image_scans.image_recording_id 1 _em_image_scans.sampling_size 5.0 _em_image_scans.scanner_model ? _em_image_scans.used_frames_per_image ? _em_image_scans.citation_id ? _em_image_scans.number_digital_images ? _em_image_scans.od_range ? _em_image_scans.quant_bit_size ? _em_image_scans.details ? # _em_imaging.id 1 _em_imaging.entry_id 7YWH _em_imaging.accelerating_voltage 300 _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter 70 _em_imaging.calibrated_defocus_max ? _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_magnification 47000 _em_imaging.cryogen NITROGEN _em_imaging.details ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 2.7 _em_imaging.nominal_defocus_max 2500 _em_imaging.nominal_defocus_min 1200 _em_imaging.nominal_magnification ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.specimen_id 1 _em_imaging.citation_id ? _em_imaging.date ? _em_imaging.temperature ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.astigmatism ? _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.specimen_holder_type ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details ? _em_sample_support.grid_material COPPER _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type C-flat-2/2 _em_sample_support.method ? _em_sample_support.film_material ? # _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature 283 _em_vitrification.cryogen_name ETHANE _em_vitrification.details ? _em_vitrification.humidity 100 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.entry_id 7YWH _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 7YWH _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 7YWH _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry C1 # _em_buffer_component.buffer_id 1 _em_buffer_component.id 1 _em_buffer_component.concentration 12 _em_buffer_component.concentration_units mM _em_buffer_component.formula MgCl2 _em_buffer_component.name 'Magnesium Chloride' # _em_ctf_correction.id 1 _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' _em_ctf_correction.details ? # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.avg_electron_dose_per_image 1.2 _em_image_recording.average_exposure_time ? _em_image_recording.details ? _em_image_recording.detector_mode COUNTING _em_image_recording.film_or_detector_model 'GATAN K2 SUMMIT (4k x 4k)' _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged 1 _em_image_recording.num_real_images ? _em_image_recording.avg_electron_dose_per_subtomogram ? # _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.details ? _em_particle_selection.method ? _em_particle_selection.num_particles_selected 368501 _em_particle_selection.reference_model ? # loop_ _em_software.id _em_software.category _em_software.details _em_software.name _em_software.version _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id 1 'PARTICLE SELECTION' ? RELION 3.0 1 ? ? 2 'IMAGE ACQUISITION' ? EPU ? ? ? 1 3 MASKING ? ? ? ? ? ? 4 'CTF CORRECTION' ? CTFFIND 4.1 1 ? ? 5 'LAYERLINE INDEXING' ? ? ? ? ? ? 6 'DIFFRACTION INDEXING' ? ? ? ? ? ? 7 'MODEL FITTING' ? iMODFIT ? ? 1 ? 8 'MODEL FITTING' ? ISOLDE ? ? 1 ? 9 OTHER ? ? ? ? ? ? 10 'MODEL REFINEMENT' ? ISOLDE ? ? 1 ? 11 'INITIAL EULER ASSIGNMENT' ? cryoSPARC 2.5 1 ? ? 12 'FINAL EULER ASSIGNMENT' ? cryoSPARC 2.5 1 ? ? 13 CLASSIFICATION ? cryoSPARC ? 1 ? ? 14 RECONSTRUCTION ? cryoSPARC ? 1 ? ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration 1 _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # _ndb_struct_conf_na.entry_id 7YWH _ndb_struct_conf_na.feature 'double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 3 1_555 A DA 5 1_555 5.812 -1.365 -1.152 17.857 54.813 -23.826 1 A_DC3:DA5_A A 3 ? A 5 ? ? ? 1 A DG 4 1_555 F DT 23 1_555 -2.212 -1.059 -2.220 -17.035 -50.125 33.960 2 A_DG4:DT23_F A 4 ? F 23 ? ? ? 1 A DG 27 1_555 B DG 50 1_555 1.787 2.237 2.000 -11.690 18.342 -68.326 3 A_DG27:DG50_B A 27 ? B 50 ? ? ? 1 A DC 29 1_555 A DA 31 1_555 2.142 1.213 -0.791 -12.554 13.766 -72.514 4 A_DC29:DA31_A A 29 ? A 31 ? ? 1 1 A DC 33 1_555 A DC 35 1_555 1.255 2.256 0.064 -30.974 -35.282 -62.039 5 A_DC33:DC35_A A 33 ? A 35 ? ? 3 1 A DT 38 1_555 B DT 40 1_555 4.219 -0.242 1.131 -16.964 60.901 -80.702 6 A_DT38:DT40_B A 38 ? B 40 ? ? ? 1 A DG 44 1_555 F DT 31 1_555 -3.333 -1.644 -0.310 11.650 55.055 -107.567 7 A_DG44:DT31_F A 44 ? F 31 ? ? ? 1 B DC 18 1_555 C DG 11 1_555 0.271 1.481 -1.750 -12.433 17.616 -107.172 8 B_DC18:DG11_C B 18 ? C 11 ? ? ? 1 B DG 21 1_555 C DT 7 1_555 -4.634 -0.444 -0.309 -27.395 -10.520 -124.001 9 B_DG21:DT7_C B 21 ? C 7 ? ? ? 1 B DA 22 1_555 C DA 6 1_555 -2.618 1.854 -1.706 0.264 2.383 -120.568 10 B_DA22:DA6_C B 22 ? C 6 ? 5 4 1 B DT 26 1_555 C DA 4 1_555 4.111 -0.396 0.710 -45.824 -9.298 -48.830 11 B_DT26:DA4_C B 26 ? C 4 ? ? ? 1 B DC 27 1_555 C DA 3 1_555 3.451 0.640 0.972 -25.935 -35.410 -73.372 12 B_DC27:DA3_C B 27 ? C 3 ? ? ? 1 B DG 32 1_555 C DG 46 1_555 7.163 -0.276 -0.051 16.531 2.233 7.060 13 B_DG32:DG46_C B 32 ? C 46 ? ? ? 1 C DC 1 1_555 C DC 44 1_555 4.198 -1.818 -0.802 31.981 44.627 -85.132 14 C_DC1:DC44_C C 1 ? C 44 ? ? 2 1 C DA 21 1_555 D DT 8 1_555 -1.200 0.306 -0.037 -24.578 -13.339 -35.507 15 C_DA21:DT8_D C 21 ? D 8 ? ? ? 1 C DT 28 1_555 C DC 31 1_555 3.110 -1.622 -2.366 -26.532 25.345 19.936 16 C_DT28:DC31_C C 28 ? C 31 ? ? ? 1 C DG 29 1_555 D DC 50 1_555 0.281 0.275 -0.849 -26.140 -2.746 -18.153 17 C_DG29:DC50_D C 29 ? D 50 ? ? 1 1 D DC 20 1_555 D DC 22 1_555 4.297 -2.618 -1.275 -14.006 23.670 -56.766 18 D_DC20:DC22_D D 20 ? D 22 ? ? ? 1 D DT 29 1_555 E DA 49 1_555 5.461 -1.799 -1.848 -21.700 -13.691 -40.695 19 D_DT29:DA49_E D 29 ? E 49 ? ? ? 1 E DG 18 1_555 F DA 10 1_555 2.726 1.474 -1.023 1.167 29.295 -25.686 20 E_DG18:DA10_F E 18 ? F 10 ? ? ? 1 E DC 20 1_555 F DA 7 1_555 4.889 -1.095 2.298 -37.462 31.619 -71.168 21 E_DC20:DA7_F E 20 ? F 7 ? ? ? 1 E DC 24 1_555 F DG 4 1_555 0.392 1.329 -2.043 -38.950 18.794 -101.208 22 E_DC24:DG4_F E 24 ? F 4 ? ? ? 1 E DA 26 1_555 E DT 46 1_555 3.273 3.471 0.867 5.378 -48.625 -166.927 23 E_DA26:DT46_E E 26 ? E 46 ? ? ? 1 E DA 32 1_555 F DT 47 1_555 3.186 -0.131 2.106 1.432 -30.569 50.856 24 E_DA32:DT47_F E 32 ? F 47 ? ? 5 1 E DG 34 1_555 F DC 44 1_555 -3.246 3.859 2.410 56.814 -21.532 -111.339 25 E_DG34:DC44_F E 34 ? F 44 ? ? 3 1 F DA 20 1_555 F DG 22 1_555 2.545 3.169 2.112 16.966 25.525 138.896 26 F_DA20:DG22_F F 20 ? F 22 ? ? 5 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 27 1_555 B DG 50 1_555 A DC 29 1_555 A DA 31 1_555 -0.831 -2.136 6.071 -15.732 -49.858 70.227 0.936 -0.180 6.359 -38.596 12.178 85.496 1 AA_DG27DC29:DA31DG50_AB A 27 ? B 50 ? A 29 ? A 31 ? 1 B DG 21 1_555 C DT 7 1_555 B DA 22 1_555 C DA 6 1_555 -0.150 -0.871 3.997 5.633 7.350 36.695 -2.475 1.097 3.698 11.453 -8.777 37.806 2 BB_DG21DA22:DA6DT7_CC B 21 ? C 7 ? B 22 ? C 6 ? 1 B DT 26 1_555 C DA 4 1_555 B DC 27 1_555 C DA 3 1_555 -2.127 1.376 -3.397 97.111 127.569 58.720 1.922 0.142 -1.853 67.745 -51.571 162.873 3 BB_DT26DC27:DA3DA4_CC B 26 ? C 4 ? B 27 ? C 3 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Biotechnology and Biological Sciences Research Council (BBSRC)' 'United Kingdom' BB/M012700/1 1 'Biotechnology and Biological Sciences Research Council (BBSRC)' 'United Kingdom' BB/M025373/1 2 'Wellcome Trust' 'United Kingdom' 202679/Z/16/Z 3 'Wellcome Trust' 'United Kingdom' 206166/Z/17/Z 4 # _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 ? #