data_1EKW # _entry.id 1EKW # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 1EKW pdb_00001ekw 10.2210/pdb1ekw/pdb RCSB RCSB010688 ? ? WWPDB D_1000010688 ? ? # 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 2000-03-20 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-12-28 5 'Structure model' 1 4 2024-05-01 # _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' 'Atomic model' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' # _database_PDB_caveat.id 1 _database_PDB_caveat.text ;chirally incorrect C4' of G 31 chain R ; # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1EKW _pdbx_database_status.recvd_initial_deposition_date 2000-03-09 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Thiviyanathan, V.' 1 'Luxon, B.A.' 2 'Leontis, N.B.' 3 'Donne, D.' 4 'Gorenstein, D.G.' 5 # _citation.id primary _citation.title 'Hybrid-hybrid matrix structural refinement of a DNA three-way junction from 3D NOESY-NOESY.' _citation.journal_abbrev J.Biomol.NMR _citation.journal_volume 14 _citation.page_first 209 _citation.page_last 221 _citation.year 1999 _citation.journal_id_ASTM JBNME9 _citation.country NE _citation.journal_id_ISSN 0925-2738 _citation.journal_id_CSD 0800 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10481274 _citation.pdbx_database_id_DOI 10.1023/A:1008330011425 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Thiviyanathan, V.' 1 ? primary 'Luxon, B.A.' 2 ? primary 'Leontis, N.B.' 3 ? primary 'Illangasekare, N.' 4 ? primary 'Donne, D.G.' 5 ? primary 'Gorenstein, D.G.' 6 ? # 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 (5'-D(*GP*CP*TP*GP*CP*CP*AP*CP*CP*G)-3') ; 3005.969 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*CP*GP*GP*TP*GP*CP*GP*TP*CP*C)-3') ; 3036.979 1 ? ? ? ? 3 polymer syn ;DNA (5'-D(*GP*GP*AP*CP*GP*TP*CP*GP*CP*AP*GP*C)-3') ; 3688.405 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 '(DG)(DC)(DT)(DG)(DC)(DC)(DA)(DC)(DC)(DG)' GCTGCCACCG X ? 2 polydeoxyribonucleotide no no '(DC)(DG)(DG)(DT)(DG)(DC)(DG)(DT)(DC)(DC)' CGGTGCGTCC H ? 3 polydeoxyribonucleotide no no '(DG)(DG)(DA)(DC)(DG)(DT)(DC)(DG)(DC)(DA)(DG)(DC)' GGACGTCGCAGC R ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DC n 1 3 DT n 1 4 DG n 1 5 DC n 1 6 DC n 1 7 DA n 1 8 DC n 1 9 DC n 1 10 DG n 2 1 DC n 2 2 DG n 2 3 DG n 2 4 DT n 2 5 DG n 2 6 DC n 2 7 DG n 2 8 DT n 2 9 DC n 2 10 DC n 3 1 DG n 3 2 DG n 3 3 DA n 3 4 DC n 3 5 DG n 3 6 DT n 3 7 DC n 3 8 DG n 3 9 DC n 3 10 DA n 3 11 DG n 3 12 DC 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 DG 1 1 1 DG G X . n A 1 2 DC 2 2 2 DC C X . n A 1 3 DT 3 3 3 DT T X . n A 1 4 DG 4 4 4 DG G X . n A 1 5 DC 5 5 5 DC C X . n A 1 6 DC 6 6 6 DC C X . n A 1 7 DA 7 7 7 DA A X . n A 1 8 DC 8 8 8 DC C X . n A 1 9 DC 9 9 9 DC C X . n A 1 10 DG 10 10 10 DG G X . n B 2 1 DC 1 11 11 DC C H . n B 2 2 DG 2 12 12 DG G H . n B 2 3 DG 3 13 13 DG G H . n B 2 4 DT 4 14 14 DT T H . n B 2 5 DG 5 15 15 DG G H . n B 2 6 DC 6 16 16 DC C H . n B 2 7 DG 7 17 17 DG G H . n B 2 8 DT 8 18 18 DT T H . n B 2 9 DC 9 19 19 DC C H . n B 2 10 DC 10 20 20 DC C H . n C 3 1 DG 1 21 21 DG G R . n C 3 2 DG 2 22 22 DG G R . n C 3 3 DA 3 23 23 DA A R . n C 3 4 DC 4 24 24 DC C R . n C 3 5 DG 5 25 25 DG G R . n C 3 6 DT 6 26 26 DT T R . n C 3 7 DC 7 27 27 DC C R . n C 3 8 DG 8 28 28 DG G R . n C 3 9 DC 9 29 29 DC C R . n C 3 10 DA 10 30 30 DA A R . n C 3 11 DG 11 31 31 DG G R . n C 3 12 DC 12 32 32 DC C R . n # _cell.entry_id 1EKW _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 1EKW _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 1EKW _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _database_PDB_matrix.entry_id 1EKW _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 1EKW _struct.title 'NMR STRUCTURE OF A DNA THREE-WAY JUNCTION' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 1EKW _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Three-Way-Junction, Unpaired bases, 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 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 1EKW 1EKW ? ? ? 2 2 PDB 1EKW 1EKW ? ? ? 3 3 PDB 1EKW 1EKW ? ? ? # 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 1EKW X 1 ? 10 ? 1EKW 1 ? 10 ? 1 10 2 2 1EKW H 1 ? 10 ? 1EKW 11 ? 20 ? 11 20 3 3 1EKW R 1 ? 12 ? 1EKW 21 ? 32 ? 21 32 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _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 _struct_biol.details ? # 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 DG 1 N1 ? ? ? 1_555 C DC 12 N3 ? ? X DG 1 R DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 C DC 12 O2 ? ? X DG 1 R DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 C DC 12 N4 ? ? X DG 1 R DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 C DG 11 N1 ? ? X DC 2 R DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 C DG 11 O6 ? ? X DC 2 R DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 C DG 11 N2 ? ? X DC 2 R DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DT 3 N3 ? ? ? 1_555 C DA 10 N1 ? ? X DT 3 R DA 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DT 3 O4 ? ? ? 1_555 C DA 10 N6 ? ? X DT 3 R DA 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 C DC 9 N3 ? ? X DG 4 R DC 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 C DC 9 O2 ? ? X DG 4 R DC 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 O6 ? ? ? 1_555 C DC 9 N4 ? ? X DG 4 R DC 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 5 N1 ? ? X DC 5 H DG 15 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 C DG 8 N2 ? ? X DC 5 R DG 28 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog14 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DT 4 O4 ? ? X DC 6 H DT 14 1_555 ? ? ? ? ? ? 'DC-DT MISPAIR' ? ? ? hydrog15 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 5 N1 ? ? X DC 6 H DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 5 O6 ? ? X DC 6 H DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 5 N2 ? ? X DC 6 H DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 4 N3 ? ? X DA 7 H DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 4 O4 ? ? X DA 7 H DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? X DC 8 H DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? X DC 8 H DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? X DC 8 H DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 2 N1 ? ? X DC 9 H DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 2 O6 ? ? X DC 9 H DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 2 N2 ? ? X DC 9 H DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? X DG 10 H DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? X DG 10 H DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? X DG 10 H DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B DC 6 N3 ? ? ? 1_555 C DG 5 N1 ? ? H DC 16 R DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B DC 6 N4 ? ? ? 1_555 C DG 5 O6 ? ? H DC 16 R DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B DC 6 O2 ? ? ? 1_555 C DG 5 N2 ? ? H DC 16 R DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B DG 7 N1 ? ? ? 1_555 C DC 4 N3 ? ? H DG 17 R DC 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B DG 7 N2 ? ? ? 1_555 C DC 4 O2 ? ? H DG 17 R DC 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B DG 7 O6 ? ? ? 1_555 C DC 4 N4 ? ? H DG 17 R DC 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B DT 8 N3 ? ? ? 1_555 C DA 3 N1 ? ? H DT 18 R DA 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B DT 8 O4 ? ? ? 1_555 C DA 3 N6 ? ? H DT 18 R DA 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B DC 9 N3 ? ? ? 1_555 C DG 2 N1 ? ? H DC 19 R DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B DC 9 N4 ? ? ? 1_555 C DG 2 O6 ? ? H DC 19 R DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B DC 9 O2 ? ? ? 1_555 C DG 2 N2 ? ? H DC 19 R DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B DC 10 N3 ? ? ? 1_555 C DG 1 N1 ? ? H DC 20 R DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? B DC 10 N4 ? ? ? 1_555 C DG 1 O6 ? ? H DC 20 R DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? B DC 10 O2 ? ? ? 1_555 C DG 1 N2 ? ? H DC 20 R DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 C6 _pdbx_validate_rmsd_bond.auth_asym_id_1 X _pdbx_validate_rmsd_bond.auth_comp_id_1 DT _pdbx_validate_rmsd_bond.auth_seq_id_1 3 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 N1 _pdbx_validate_rmsd_bond.auth_asym_id_2 X _pdbx_validate_rmsd_bond.auth_comp_id_2 DT _pdbx_validate_rmsd_bond.auth_seq_id_2 3 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.334 _pdbx_validate_rmsd_bond.bond_target_value 1.378 _pdbx_validate_rmsd_bond.bond_deviation -0.044 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.007 _pdbx_validate_rmsd_bond.linker_flag N # 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 "O4'" X DC 2 ? ? "C1'" X DC 2 ? ? N1 X DC 2 ? ? 110.22 108.30 1.92 0.30 N 2 1 "O4'" X DT 3 ? ? "C4'" X DT 3 ? ? "C3'" X DT 3 ? ? 112.77 106.00 6.77 0.60 N 3 1 "C4'" X DT 3 ? ? "C3'" X DT 3 ? ? "C2'" X DT 3 ? ? 96.49 102.20 -5.71 0.70 N 4 1 C4 X DT 3 ? ? C5 X DT 3 ? ? C7 X DT 3 ? ? 123.77 119.00 4.77 0.60 N 5 1 C6 X DT 3 ? ? C5 X DT 3 ? ? C7 X DT 3 ? ? 113.23 122.90 -9.67 0.60 N 6 1 C6 X DT 3 ? ? N1 X DT 3 ? ? "C1'" X DT 3 ? ? 110.50 120.40 -9.90 1.50 N 7 1 "O4'" X DG 4 ? ? "C1'" X DG 4 ? ? N9 X DG 4 ? ? 117.73 108.30 9.43 0.30 N 8 1 "C4'" X DC 6 ? ? "C3'" X DC 6 ? ? "C2'" X DC 6 ? ? 94.26 102.20 -7.94 0.70 N 9 1 "O4'" X DC 6 ? ? "C1'" X DC 6 ? ? N1 X DC 6 ? ? 112.79 108.30 4.49 0.30 N 10 1 "O4'" X DA 7 ? ? "C1'" X DA 7 ? ? N9 X DA 7 ? ? 110.49 108.30 2.19 0.30 N 11 1 "O4'" X DC 8 ? ? "C1'" X DC 8 ? ? N1 X DC 8 ? ? 112.06 108.30 3.76 0.30 N 12 1 "O4'" X DC 9 ? ? "C1'" X DC 9 ? ? N1 X DC 9 ? ? 112.84 108.30 4.54 0.30 N 13 1 C6 X DC 9 ? ? N1 X DC 9 ? ? "C1'" X DC 9 ? ? 113.25 120.80 -7.55 1.20 N 14 1 "O4'" X DG 10 ? ? "C1'" X DG 10 ? ? N9 X DG 10 ? ? 111.01 108.30 2.71 0.30 N 15 1 "O4'" H DC 11 ? ? "C1'" H DC 11 ? ? N1 H DC 11 ? ? 112.34 108.30 4.04 0.30 N 16 1 "O4'" H DG 12 ? ? "C1'" H DG 12 ? ? N9 H DG 12 ? ? 110.73 108.30 2.43 0.30 N 17 1 "C4'" H DG 13 ? ? "C3'" H DG 13 ? ? "C2'" H DG 13 ? ? 96.96 102.20 -5.24 0.70 N 18 1 "O4'" H DG 13 ? ? "C1'" H DG 13 ? ? N9 H DG 13 ? ? 114.15 108.30 5.85 0.30 N 19 1 "O4'" H DC 16 ? ? "C4'" H DC 16 ? ? "C3'" H DC 16 ? ? 110.68 106.00 4.68 0.60 N 20 1 N1 H DC 16 ? ? C2 H DC 16 ? ? O2 H DC 16 ? ? 122.67 118.90 3.77 0.60 N 21 1 N7 H DG 17 ? ? C8 H DG 17 ? ? N9 H DG 17 ? ? 116.28 113.10 3.18 0.50 N 22 1 "O4'" H DT 18 ? ? "C1'" H DT 18 ? ? N1 H DT 18 ? ? 111.55 108.30 3.25 0.30 N 23 1 N1 H DC 19 ? ? C2 H DC 19 ? ? O2 H DC 19 ? ? 122.70 118.90 3.80 0.60 N 24 1 "O4'" H DC 20 ? ? "C1'" H DC 20 ? ? N1 H DC 20 ? ? 110.52 108.30 2.22 0.30 N 25 1 "O4'" R DG 22 ? ? "C1'" R DG 22 ? ? N9 R DG 22 ? ? 110.96 108.30 2.66 0.30 N 26 1 "O4'" R DC 24 ? ? "C1'" R DC 24 ? ? "C2'" R DC 24 ? ? 100.59 105.90 -5.31 0.80 N 27 1 "O4'" R DC 24 ? ? "C1'" R DC 24 ? ? N1 R DC 24 ? ? 112.17 108.30 3.87 0.30 N 28 1 N1 R DC 24 ? ? C2 R DC 24 ? ? O2 R DC 24 ? ? 122.90 118.90 4.00 0.60 N 29 1 "O4'" R DG 25 ? ? "C1'" R DG 25 ? ? "C2'" R DG 25 ? ? 100.95 105.90 -4.95 0.80 N 30 1 "O4'" R DG 25 ? ? "C1'" R DG 25 ? ? N9 R DG 25 ? ? 111.77 108.30 3.47 0.30 N 31 1 "O4'" R DT 26 ? ? "C1'" R DT 26 ? ? N1 R DT 26 ? ? 114.35 108.30 6.05 0.30 N 32 1 "O4'" R DC 27 ? ? "C1'" R DC 27 ? ? N1 R DC 27 ? ? 112.30 108.30 4.00 0.30 N 33 1 "O4'" R DG 28 ? ? "C1'" R DG 28 ? ? N9 R DG 28 ? ? 113.04 108.30 4.74 0.30 N 34 1 "O4'" R DA 30 ? ? "C1'" R DA 30 ? ? N9 R DA 30 ? ? 114.35 108.30 6.05 0.30 N 35 1 "C4'" R DG 31 ? ? "C3'" R DG 31 ? ? "C2'" R DG 31 ? ? 96.53 102.20 -5.67 0.70 N 36 1 "C5'" R DC 32 ? ? "C4'" R DC 32 ? ? "O4'" R DC 32 ? ? 116.72 109.80 6.92 1.10 N 37 1 "O4'" R DC 32 ? ? "C1'" R DC 32 ? ? N1 R DC 32 ? ? 111.08 108.30 2.78 0.30 N 38 1 N1 R DC 32 ? ? C2 R DC 32 ? ? O2 R DC 32 ? ? 123.07 118.90 4.17 0.60 N # _pdbx_validate_chiral.id 1 _pdbx_validate_chiral.PDB_model_num 1 _pdbx_validate_chiral.auth_atom_id "C4'" _pdbx_validate_chiral.label_alt_id ? _pdbx_validate_chiral.auth_asym_id R _pdbx_validate_chiral.auth_comp_id DG _pdbx_validate_chiral.auth_seq_id 31 _pdbx_validate_chiral.PDB_ins_code ? _pdbx_validate_chiral.details 'WRONG HAND' _pdbx_validate_chiral.omega . # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DG X 1 ? ? 0.085 'SIDE CHAIN' 2 1 DT X 3 ? ? 0.195 'SIDE CHAIN' 3 1 DC X 5 ? ? 0.120 'SIDE CHAIN' 4 1 DC X 6 ? ? 0.127 'SIDE CHAIN' 5 1 DA X 7 ? ? 0.099 'SIDE CHAIN' 6 1 DC X 9 ? ? 0.112 'SIDE CHAIN' 7 1 DG X 10 ? ? 0.121 'SIDE CHAIN' 8 1 DG H 13 ? ? 0.089 'SIDE CHAIN' 9 1 DG H 15 ? ? 0.136 'SIDE CHAIN' 10 1 DC H 16 ? ? 0.129 'SIDE CHAIN' 11 1 DC H 19 ? ? 0.092 'SIDE CHAIN' 12 1 DG R 22 ? ? 0.088 'SIDE CHAIN' 13 1 DG R 25 ? ? 0.117 'SIDE CHAIN' 14 1 DG R 28 ? ? 0.069 'SIDE CHAIN' 15 1 DG R 31 ? ? 0.197 'SIDE CHAIN' 16 1 DC R 32 ? ? 0.071 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 1EKW _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? _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 1EKW _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'minimized average structure' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '2 mM DNA, 0.5mM EDTA, 100 mM Sodium phosphate, 10 mM MgCl2, 100mM NaCl' _pdbx_nmr_sample_details.solvent_system '100% D2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 301 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 6.8 _pdbx_nmr_exptl_sample_conditions.ionic_strength '100 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.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 1 1 '3D NOESY-NOESY' # _pdbx_nmr_refine.entry_id 1EKW _pdbx_nmr_refine.method 'Complete relaxation matrix Molecular Dynamics' _pdbx_nmr_refine.details 'Particle Mesh Ewald Methods were used.' _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_software.name MORASS _pdbx_nmr_software.version 2.5 _pdbx_nmr_software.classification 'iterative matrix relaxation' _pdbx_nmr_software.authors 'Meadows, R., Post, C.B., Luxon, B.A., & Gorenstein, D.G.' _pdbx_nmr_software.ordinal 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 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 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1EKW 'double helix' 1EKW 'b-form double helix' 1EKW 'quadruple helix' 1EKW 'three-way junction' # 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 DG 1 1_555 C DC 12 1_555 1.336 -0.649 2.250 48.533 -27.475 -22.750 1 X_DG1:DC32_R X 1 ? R 32 ? 19 1 1 A DC 2 1_555 C DG 11 1_555 0.557 -0.345 0.042 -4.880 -33.561 1.760 2 X_DC2:DG31_R X 2 ? R 31 ? 19 1 1 A DT 3 1_555 C DA 10 1_555 0.135 -0.178 0.924 -19.321 -6.109 -0.315 3 X_DT3:DA30_R X 3 ? R 30 ? 20 1 1 A DG 4 1_555 C DC 9 1_555 -0.607 -0.296 0.838 13.531 7.510 0.983 4 X_DG4:DC29_R X 4 ? R 29 ? 19 1 1 A DC 5 1_555 C DG 8 1_555 0.094 0.830 0.818 -13.393 40.518 54.208 5 X_DC5:DG28_R X 5 ? R 28 ? ? 1 1 A DC 6 1_555 B DG 5 1_555 0.505 -0.369 0.798 6.148 -20.869 -0.432 6 X_DC6:DG15_H X 6 ? H 15 ? 19 1 1 A DA 7 1_555 B DT 4 1_555 0.547 -0.040 0.340 2.767 -30.590 8.415 7 X_DA7:DT14_H X 7 ? H 14 ? 20 1 1 A DC 8 1_555 B DG 3 1_555 -0.262 -0.126 0.145 -5.778 -27.532 -8.781 8 X_DC8:DG13_H X 8 ? H 13 ? 19 1 1 A DC 9 1_555 B DG 2 1_555 0.084 -0.174 0.577 -9.277 -13.111 -0.973 9 X_DC9:DG12_H X 9 ? H 12 ? 19 1 1 A DG 10 1_555 B DC 1 1_555 -0.254 -0.236 0.529 14.984 0.463 -3.945 10 X_DG10:DC11_H X 10 ? H 11 ? 19 1 1 B DC 6 1_555 C DG 5 1_555 0.172 -0.259 0.537 -11.754 5.161 -5.541 11 H_DC16:DG25_R H 16 ? R 25 ? 19 1 1 B DG 7 1_555 C DC 4 1_555 -0.588 -0.291 -0.120 -1.003 -5.897 -5.776 12 H_DG17:DC24_R H 17 ? R 24 ? 19 1 1 B DT 8 1_555 C DA 3 1_555 -0.220 -0.118 -0.172 4.587 -9.443 -3.236 13 H_DT18:DA23_R H 18 ? R 23 ? 20 1 1 B DC 9 1_555 C DG 2 1_555 0.433 -0.331 -0.622 13.612 0.021 -9.315 14 H_DC19:DG22_R H 19 ? R 22 ? 19 1 1 B DC 10 1_555 C DG 1 1_555 -0.349 -0.105 -0.113 16.211 -0.568 -3.862 15 H_DC20:DG21_R H 20 ? R 21 ? 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 DG 1 1_555 C DC 12 1_555 A DC 2 1_555 C DG 11 1_555 1.036 -0.047 4.557 19.569 -8.460 38.684 1.122 1.358 4.483 -11.749 -27.179 43.972 1 XX_DG1DC2:DG31DC32_RR X 1 ? R 32 ? X 2 ? R 31 ? 1 A DC 2 1_555 C DG 11 1_555 A DT 3 1_555 C DA 10 1_555 0.925 -0.499 3.441 -7.672 -1.008 36.543 -0.643 -2.486 3.201 -1.585 12.069 37.326 2 XX_DC2DT3:DA30DG31_RR X 2 ? R 31 ? X 3 ? R 30 ? 1 A DT 3 1_555 C DA 10 1_555 A DG 4 1_555 C DC 9 1_555 0.348 -0.627 2.259 2.352 -6.873 21.336 0.228 -0.264 2.366 -17.907 -6.127 22.525 3 XX_DT3DG4:DC29DA30_RR X 3 ? R 30 ? X 4 ? R 29 ? 1 A DG 4 1_555 C DC 9 1_555 A DC 5 1_555 C DG 8 1_555 2.554 2.576 5.365 -2.442 3.338 41.922 3.016 -3.970 5.395 4.652 3.404 42.116 4 XX_DG4DC5:DG28DC29_RR X 4 ? R 29 ? X 5 ? R 28 ? 1 A DC 5 1_555 C DG 8 1_555 A DC 6 1_555 B DG 5 1_555 -3.073 0.862 3.240 12.785 -12.946 39.145 2.221 5.224 1.834 -18.178 -17.952 43.016 5 XX_DC5DC6:DG15DG28_HR X 5 ? R 28 ? X 6 ? H 15 ? 1 A DC 6 1_555 B DG 5 1_555 A DA 7 1_555 B DT 4 1_555 0.705 -0.156 3.005 10.919 4.340 39.567 -0.666 0.114 3.054 6.247 -15.715 41.207 6 XX_DC6DA7:DT14DG15_HH X 6 ? H 15 ? X 7 ? H 14 ? 1 A DA 7 1_555 B DT 4 1_555 A DC 8 1_555 B DG 3 1_555 -0.324 -0.572 3.069 -0.694 2.813 33.990 -1.391 0.450 3.019 4.800 1.185 34.109 7 XX_DA7DC8:DG13DT14_HH X 7 ? H 14 ? X 8 ? H 13 ? 1 A DC 8 1_555 B DG 3 1_555 A DC 9 1_555 B DG 2 1_555 0.894 -0.226 3.221 -0.847 0.156 34.856 -0.401 -1.618 3.198 0.260 1.414 34.866 8 XX_DC8DC9:DG12DG13_HH X 8 ? H 13 ? X 9 ? H 12 ? 1 A DC 9 1_555 B DG 2 1_555 A DG 10 1_555 B DC 1 1_555 -0.535 -0.908 2.337 -0.706 5.719 36.053 -2.000 0.786 2.182 9.168 1.132 36.495 9 XX_DC9DG10:DC11DG12_HH X 9 ? H 12 ? X 10 ? H 11 ? 1 B DC 6 1_555 C DG 5 1_555 B DG 7 1_555 C DC 4 1_555 0.814 0.457 3.078 11.414 -7.583 31.765 1.910 0.345 3.003 -13.118 -19.744 34.525 10 HH_DC16DG17:DC24DG25_RR H 16 ? R 25 ? H 17 ? R 24 ? 1 B DG 7 1_555 C DC 4 1_555 B DT 8 1_555 C DA 3 1_555 0.465 -0.892 3.108 -0.273 -1.513 27.284 -1.529 -1.050 3.147 -3.204 0.579 27.327 11 HH_DG17DT18:DA23DC24_RR H 17 ? R 24 ? H 18 ? R 23 ? 1 B DT 8 1_555 C DA 3 1_555 B DC 9 1_555 C DG 2 1_555 -0.805 -0.214 3.159 -2.705 -5.375 45.988 0.173 0.799 3.203 -6.845 3.445 46.359 12 HH_DT18DC19:DG22DA23_RR H 18 ? R 23 ? H 19 ? R 22 ? 1 B DC 9 1_555 C DG 2 1_555 B DC 10 1_555 C DG 1 1_555 0.199 -1.222 3.264 -9.325 4.477 28.407 -3.222 -2.206 2.837 8.764 18.254 30.195 13 HH_DC19DC20:DG21DG22_RR H 19 ? R 22 ? H 20 ? R 21 ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.field_strength 1 ? Varian UNITYPLUS 600 2 ? Varian UNITYPLUS 750 # _atom_sites.entry_id 1EKW _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_