data_1DUF # _entry.id 1DUF # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _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 1DUF pdb_00001duf 10.2210/pdb1duf/pdb RCSB RCSB010377 ? ? WWPDB D_1000010377 ? ? # 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 2000-07-14 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-16 5 'Structure model' 1 4 2024-05-22 # _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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Database references' 4 4 'Structure model' 'Derived calculations' 5 5 'Structure model' 'Data collection' # 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 4 'Structure model' database_2 2 4 'Structure model' pdbx_struct_assembly 3 4 'Structure model' pdbx_struct_oper_list 4 5 'Structure model' chem_comp_atom 5 5 'Structure model' chem_comp_bond # 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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1DUF _pdbx_database_status.recvd_initial_deposition_date 2000-01-17 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1BNA 'Drew and Dickerson Dodecamer' unspecified PDB 355D 'High resolution Drew and Dickerson Dodecamer' unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Tjandra, N.' 1 'Tate, S.' 2 'Ono, A.' 3 'Kainosho, M.' 4 'Bax, A.' 5 # _citation.id primary _citation.title 'The NMR Structure of a DNA Dodecamer in an Aqueous Dilute Liquid Crystalline Phase' _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_volume 122 _citation.page_first 6190 _citation.page_last 6200 _citation.year 2000 _citation.journal_id_ASTM JACSAT _citation.country US _citation.journal_id_ISSN 0002-7863 _citation.journal_id_CSD 0004 _citation.book_publisher ? _citation.pdbx_database_id_PubMed -1 _citation.pdbx_database_id_DOI 10.1021/ja000324n # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Tjandra, N.' 1 ? primary 'Tate, S.' 2 ? primary 'Ono, A.' 3 ? primary 'Kainosho, M.' 4 ? primary 'Bax, A.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') ; _entity.formula_weight 3663.392 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _entity_poly.pdbx_strand_id A,B _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 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n # 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 # 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 DC 1 1 1 DC C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DT 8 8 8 DT T A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DC 11 11 11 DC C A . n A 1 12 DG 12 12 12 DG G A . n B 1 1 DC 1 13 13 DC C B . n B 1 2 DG 2 14 14 DG G B . n B 1 3 DC 3 15 15 DC C B . n B 1 4 DG 4 16 16 DG G B . n B 1 5 DA 5 17 17 DA A B . n B 1 6 DA 6 18 18 DA A B . n B 1 7 DT 7 19 19 DT T B . n B 1 8 DT 8 20 20 DT T B . n B 1 9 DC 9 21 21 DC C B . n B 1 10 DG 10 22 22 DG G B . n B 1 11 DC 11 23 23 DC C B . n B 1 12 DG 12 24 24 DG G B . n # _cell.entry_id 1DUF _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DUF _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _exptl.entry_id 1DUF _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _database_PDB_matrix.entry_id 1DUF _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1DUF _struct.title 'THE NMR STRUCTURE OF DNA DODECAMER DETERMINED IN AQUEOUS DILUTE LIQUID CRYSTALLINE PHASE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1DUF _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA, DOUBLE HELIX, DIPOLAR COUPLING, 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 1 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1DUF _struct_ref.pdbx_db_accession 1DUF _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1DUF A 1 ? 12 ? 1DUF 1 ? 12 ? 1 12 2 1 1DUF B 1 ? 12 ? 1DUF 13 ? 24 ? 13 24 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _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 x,y,z _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 # _struct_biol.id 1 # 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 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.55 2 1 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.55 3 2 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.55 4 2 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.55 5 2 O6 A DG 12 ? ? H41 B DC 13 ? ? 1.59 6 3 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.60 7 3 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.60 8 4 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.56 9 5 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.55 10 5 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.55 # 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 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 109.91 103.10 6.81 0.90 N 2 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 109.08 103.10 5.98 0.90 N 3 1 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.98 103.10 6.88 0.90 N 4 1 "C4'" A DA 5 ? ? "C3'" A DA 5 ? ? "C2'" A DA 5 ? ? 109.02 103.10 5.92 0.90 N 5 1 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.30 103.10 6.20 0.90 N 6 1 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.67 103.10 6.57 0.90 N 7 1 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.75 103.10 6.65 0.90 N 8 1 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.90 103.10 6.80 0.90 N 9 1 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 109.42 103.10 6.32 0.90 N 10 1 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.55 103.10 6.45 0.90 N 11 1 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.69 103.10 6.59 0.90 N 12 1 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 109.92 103.10 6.82 0.90 N 13 1 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 109.11 103.10 6.01 0.90 N 14 1 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.97 103.10 6.87 0.90 N 15 1 "C4'" B DA 17 ? ? "C3'" B DA 17 ? ? "C2'" B DA 17 ? ? 109.00 103.10 5.90 0.90 N 16 1 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.34 103.10 6.24 0.90 N 17 1 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.67 103.10 6.57 0.90 N 18 1 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.71 103.10 6.61 0.90 N 19 1 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.85 103.10 6.75 0.90 N 20 1 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 109.54 103.10 6.44 0.90 N 21 1 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.53 103.10 6.43 0.90 N 22 1 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.75 103.10 6.65 0.90 N 23 2 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 109.92 103.10 6.82 0.90 N 24 2 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 109.05 103.10 5.95 0.90 N 25 2 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.88 103.10 6.78 0.90 N 26 2 "C4'" A DA 5 ? ? "C3'" A DA 5 ? ? "C2'" A DA 5 ? ? 108.95 103.10 5.85 0.90 N 27 2 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.36 103.10 6.26 0.90 N 28 2 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.60 103.10 6.50 0.90 N 29 2 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.73 103.10 6.63 0.90 N 30 2 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.88 103.10 6.78 0.90 N 31 2 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 109.50 103.10 6.40 0.90 N 32 2 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.75 103.10 6.65 0.90 N 33 2 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.84 103.10 6.74 0.90 N 34 2 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 110.01 103.10 6.91 0.90 N 35 2 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 108.94 103.10 5.84 0.90 N 36 2 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.88 103.10 6.78 0.90 N 37 2 "C4'" B DA 17 ? ? "C3'" B DA 17 ? ? "C2'" B DA 17 ? ? 109.02 103.10 5.92 0.90 N 38 2 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.34 103.10 6.24 0.90 N 39 2 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.63 103.10 6.53 0.90 N 40 2 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.75 103.10 6.65 0.90 N 41 2 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.83 103.10 6.73 0.90 N 42 2 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 109.59 103.10 6.49 0.90 N 43 2 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.64 103.10 6.54 0.90 N 44 2 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.84 103.10 6.74 0.90 N 45 3 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 109.88 103.10 6.78 0.90 N 46 3 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 109.08 103.10 5.98 0.90 N 47 3 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.99 103.10 6.89 0.90 N 48 3 "C4'" A DA 5 ? ? "C3'" A DA 5 ? ? "C2'" A DA 5 ? ? 108.83 103.10 5.73 0.90 N 49 3 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.16 103.10 6.06 0.90 N 50 3 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.78 103.10 6.68 0.90 N 51 3 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.80 103.10 6.70 0.90 N 52 3 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 110.12 103.10 7.02 0.90 N 53 3 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 109.51 103.10 6.41 0.90 N 54 3 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.49 103.10 6.39 0.90 N 55 3 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.74 103.10 6.64 0.90 N 56 3 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 109.85 103.10 6.75 0.90 N 57 3 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 109.03 103.10 5.93 0.90 N 58 3 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.93 103.10 6.83 0.90 N 59 3 "C4'" B DA 17 ? ? "C3'" B DA 17 ? ? "C2'" B DA 17 ? ? 108.87 103.10 5.77 0.90 N 60 3 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.15 103.10 6.05 0.90 N 61 3 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.76 103.10 6.66 0.90 N 62 3 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.75 103.10 6.65 0.90 N 63 3 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 110.17 103.10 7.07 0.90 N 64 3 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 109.53 103.10 6.43 0.90 N 65 3 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.53 103.10 6.43 0.90 N 66 3 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.75 103.10 6.65 0.90 N 67 4 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 109.72 103.10 6.62 0.90 N 68 4 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 109.03 103.10 5.93 0.90 N 69 4 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.95 103.10 6.85 0.90 N 70 4 "C4'" A DA 5 ? ? "C3'" A DA 5 ? ? "C2'" A DA 5 ? ? 108.90 103.10 5.80 0.90 N 71 4 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.28 103.10 6.18 0.90 N 72 4 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.75 103.10 6.65 0.90 N 73 4 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.73 103.10 6.63 0.90 N 74 4 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.88 103.10 6.78 0.90 N 75 4 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 109.46 103.10 6.36 0.90 N 76 4 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.56 103.10 6.46 0.90 N 77 4 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.74 103.10 6.64 0.90 N 78 4 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 109.88 103.10 6.78 0.90 N 79 4 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 109.11 103.10 6.01 0.90 N 80 4 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.90 103.10 6.80 0.90 N 81 4 "C4'" B DA 17 ? ? "C3'" B DA 17 ? ? "C2'" B DA 17 ? ? 108.85 103.10 5.75 0.90 N 82 4 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.23 103.10 6.13 0.90 N 83 4 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.75 103.10 6.65 0.90 N 84 4 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.79 103.10 6.69 0.90 N 85 4 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.84 103.10 6.74 0.90 N 86 4 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 109.54 103.10 6.44 0.90 N 87 4 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.55 103.10 6.45 0.90 N 88 4 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.75 103.10 6.65 0.90 N 89 5 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 109.95 103.10 6.85 0.90 N 90 5 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 109.07 103.10 5.97 0.90 N 91 5 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.99 103.10 6.89 0.90 N 92 5 "C4'" A DA 5 ? ? "C3'" A DA 5 ? ? "C2'" A DA 5 ? ? 108.99 103.10 5.89 0.90 N 93 5 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.34 103.10 6.24 0.90 N 94 5 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.65 103.10 6.55 0.90 N 95 5 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.78 103.10 6.68 0.90 N 96 5 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.92 103.10 6.82 0.90 N 97 5 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 109.47 103.10 6.37 0.90 N 98 5 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.56 103.10 6.46 0.90 N 99 5 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.71 103.10 6.61 0.90 N 100 5 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 109.98 103.10 6.88 0.90 N 101 5 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 109.10 103.10 6.00 0.90 N 102 5 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.99 103.10 6.89 0.90 N 103 5 "C4'" B DA 17 ? ? "C3'" B DA 17 ? ? "C2'" B DA 17 ? ? 108.98 103.10 5.88 0.90 N 104 5 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.27 103.10 6.17 0.90 N 105 5 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.67 103.10 6.57 0.90 N 106 5 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.70 103.10 6.60 0.90 N 107 5 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.89 103.10 6.79 0.90 N 108 5 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 109.46 103.10 6.36 0.90 N 109 5 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.61 103.10 6.51 0.90 N 110 5 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.74 103.10 6.64 0.90 N # _pdbx_nmr_ensemble.entry_id 1DUF _pdbx_nmr_ensemble.conformers_calculated_total_number 20 _pdbx_nmr_ensemble.conformers_submitted_total_number 5 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 1DUF _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria ? # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '0.5 MM DUPLEX DNA, 40MM SODIUM PHOSPHATE, PH 7.0' _pdbx_nmr_sample_details.solvent_system ? # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 308.00 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.00 _pdbx_nmr_exptl_sample_conditions.ionic_strength '40 mM' _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 13C-HSQC-J-MODULATED 1 2 1 COSY 1 3 1 '13C-HSQC-F1- COUPLED' 1 4 1 '15N-HSQC-F1- COUPLED' 1 5 1 '2D NOESY' 1 # _pdbx_nmr_details.entry_id 1DUF _pdbx_nmr_details.text ;THIS STRUCTURE WAS DETERMINED USING A COMPLETE SET OF HOMONUCLEAR AND HETERONUCLEAR DIPOLAR COUPLINGS IN LIQUID CRYSTAL ; # _pdbx_nmr_refine.entry_id 1DUF _pdbx_nmr_refine.method 'SIMULATED ANNEALING, MOLECULAR DYNAMICS' _pdbx_nmr_refine.details ;THE STRUCTURE IS BASED ON A TOTAL OF 162 NOE, 32 HYDROGEN BOND, AND 156 DIHEDRAL RESTRAINTS; AS WELL AS 198 CH AND 10 NH ONE-BOND DIPOLAR COUPLING RESTRAINTS IN ADDITION TO 200 APPROXIMATE PROTON -PROTON DIPOLAR COUPLINGS ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement X-PLOR 3.841 BRUNGER 1 'structure solution' 'NMRPIPE 1.7 REV' 1999.039.11.31 ? 2 'structure solution' 'XWINNMR VERSION' 2.4 ? 3 'structure solution' 'PIPP/CAPP VERSION' 4.2.8 ? 4 # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 # _ndb_struct_conf_na.entry_id 1DUF _ndb_struct_conf_na.feature 'b-form 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 1 1_555 B DG 12 1_555 0.185 -0.644 -1.324 -0.942 -14.391 6.747 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.578 -0.403 -0.033 -5.424 -7.014 1.360 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.466 -0.458 -0.212 -1.029 -7.104 -0.794 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.377 -0.430 -0.085 2.207 -9.874 -1.252 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 -0.243 -0.272 -0.098 -4.289 -12.087 0.685 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 -0.081 -0.164 0.073 3.091 -19.510 -1.088 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 0.077 -0.166 0.073 -3.045 -19.530 -1.290 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 0.250 -0.273 -0.086 4.177 -12.373 0.680 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.370 -0.430 -0.075 -2.066 -10.113 -1.327 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.450 -0.456 -0.210 1.140 -7.604 -0.894 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.600 -0.396 -0.013 4.985 -7.299 1.750 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.176 -0.644 -1.331 1.006 -14.246 7.322 12 A_DG12:DC13_B A 12 ? B 13 ? 19 1 # 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 DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.284 -0.468 4.005 -5.955 8.215 30.342 -2.661 -0.797 3.741 15.172 10.998 31.956 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 -0.426 -0.447 3.227 0.483 -2.460 36.684 -0.377 0.740 3.243 -3.904 -0.767 36.767 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.082 -0.632 3.323 0.037 7.331 30.957 -2.489 0.156 3.096 13.499 -0.069 31.793 3 AA_DC3DG4:DC21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 -0.271 -0.468 3.341 -1.651 4.261 36.084 -1.353 0.200 3.275 6.845 2.653 36.362 4 AA_DG4DA5:DT20DC21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 -0.410 -0.305 3.167 -0.866 -2.345 37.190 -0.175 0.530 3.188 -3.671 1.356 37.271 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.002 -0.463 3.477 0.027 -4.952 36.124 -0.004 0.008 3.507 -7.940 -0.044 36.451 6 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 0.424 -0.301 3.159 0.957 -2.173 37.276 -0.192 -0.540 3.180 -3.395 -1.495 37.349 7 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 0.265 -0.462 3.324 1.677 4.218 36.044 -1.336 -0.188 3.260 6.784 -2.698 36.320 8 AA_DT8DC9:DG16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 0.076 -0.604 3.329 0.098 7.350 31.179 -2.418 -0.120 3.110 13.442 -0.180 32.013 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 0.474 -0.457 3.220 -0.563 -2.239 36.776 -0.424 -0.826 3.234 -3.545 0.892 36.846 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 0.296 -0.460 3.975 5.981 8.263 30.336 -2.642 0.770 3.715 15.257 -11.045 31.966 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 DMX Bruker 600 ? 2 DMX Bruker 750 ? # _atom_sites.entry_id 1DUF _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 # loop_ _atom_type.symbol C H N O P # loop_