data_1S9O # _entry.id 1S9O # _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 1S9O pdb_00001s9o 10.2210/pdb1s9o/pdb RCSB RCSB021541 ? ? WWPDB D_1000021541 ? ? # 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 2005-11-01 2 'Structure model' 1 1 2008-04-29 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 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' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 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_nmr_software 3 4 'Structure model' pdbx_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list 5 5 'Structure model' chem_comp_atom 6 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' 3 4 'Structure model' '_pdbx_nmr_software.name' # _database_PDB_caveat.id 1 _database_PDB_caveat.text 'RESIDUE DG B7 HAS EXTRA HYDROGEN ATOM H6' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1S9O _pdbx_database_status.recvd_initial_deposition_date 2004-02-05 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1S9N _pdbx_database_related.details ;Solution structure of the nitrous acid induced DNA interstrand cross-linked dodecamer duplex GCATCC(G)GATGC with the cross-linked guanines denoted (G) ; _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Edfeldt, N.B.' 1 'Harwood, E.A.' 2 'Sigurdsson, S.T.' 3 'Hopkins, P.B.' 4 'Reid, B.R.' 5 # _citation.id primary _citation.title 'Solution structure of a nitrous acid induced DNA interstrand cross-link.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 32 _citation.page_first 2785 _citation.page_last 2794 _citation.year 2004 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15155847 _citation.pdbx_database_id_DOI 10.1093/nar/gkh606 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Edfeldt, N.B.' 1 ? primary 'Harwood, E.A.' 2 ? primary 'Sigurdsson, S.T.' 3 ? primary 'Hopkins, P.B.' 4 ? primary 'Reid, B.R.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-D(*CP*GP*CP*TP*AP*CP*GP*TP*AP*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)(DT)(DA)(DC)(DG)(DT)(DA)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCTACGTAGCG _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 DT n 1 5 DA n 1 6 DC n 1 7 DG n 1 8 DT n 1 9 DA n 1 10 DG n 1 11 DC n 1 12 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _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 'Chemical synthesis described in Harwood et al. (1999) J. Am. Chem. Soc. 121, 5081-5082' # 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 DC 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 DT 4 4 4 DT DT A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DC 6 6 6 DC DC A . n A 1 7 DG 7 7 7 DG DG A . n A 1 8 DT 8 8 8 DT DT A . n A 1 9 DA 9 9 9 DA DA A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n B 1 1 DC 1 1 1 DC DC B . n B 1 2 DG 2 2 2 DG DG B . n B 1 3 DC 3 3 3 DC DC B . n B 1 4 DT 4 4 4 DT DT B . n B 1 5 DA 5 5 5 DA DA B . n B 1 6 DC 6 6 6 DC DC B . n B 1 7 DG 7 7 7 DG DG B . n B 1 8 DT 8 8 8 DT DT B . n B 1 9 DA 9 9 9 DA DA B . n B 1 10 DG 10 10 10 DG DG B . n B 1 11 DC 11 11 11 DC DC B . n B 1 12 DG 12 12 12 DG DG B . n # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A DG 7 ? N2 ? A DG 7 N2 2 2 Y 1 A DG 7 ? N2 ? A DG 7 N2 3 3 Y 1 A DG 7 ? N2 ? A DG 7 N2 4 4 Y 1 A DG 7 ? N2 ? A DG 7 N2 5 5 Y 1 A DG 7 ? N2 ? A DG 7 N2 6 6 Y 1 A DG 7 ? N2 ? A DG 7 N2 7 7 Y 1 A DG 7 ? N2 ? A DG 7 N2 8 8 Y 1 A DG 7 ? N2 ? A DG 7 N2 9 9 Y 1 A DG 7 ? N2 ? A DG 7 N2 10 10 Y 1 A DG 7 ? N2 ? A DG 7 N2 11 11 Y 1 A DG 7 ? N2 ? A DG 7 N2 12 12 Y 1 A DG 7 ? N2 ? A DG 7 N2 # _cell.entry_id 1S9O _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 1S9O _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 1S9O _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? _exptl_crystal.density_Matthews ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _database_PDB_matrix.entry_id 1S9O _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 1S9O _struct.title ;Solution structure of the nitrous acid induced DNA interstrand cross-linked dodecamer duplex CGCTAC(G)TAGCG with the cross-linked guanines denoted (G) ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1S9O _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DNA, NITROUS ACID, CROSS-LINK, EXTRAHELICAL CYTOSINES, MINOR GROOVE' # 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 1S9O _struct_ref.pdbx_db_accession 1S9O _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code CGCTACGTAGCG _struct_ref.pdbx_db_isoform ? # 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 1S9O A 1 ? 12 ? 1S9O 1 ? 12 ? 1 12 2 1 1S9O B 1 ? 12 ? 1S9O 1 ? 12 ? 1 12 # _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 _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 DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 9 N1 ? ? A DT 4 B DA 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 9 N6 ? ? A DT 4 B DA 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 7 N3 ? ? ? 1_555 B DG 7 N2 ? ? A DG 7 B DG 7 1_555 ? ? ? ? ? ? 'DG-DG MISPAIR' ? ? ? hydrog15 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 9 N1 ? ? ? 1_555 B DT 4 N3 ? ? A DA 9 B DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 9 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 9 B DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 1 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 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 2 2 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 3 3 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 4 4 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.36 5 5 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 6 6 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 7 7 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 8 8 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 9 9 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 10 10 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 11 11 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 12 12 C2 A DG 7 ? ? N2 B DG 7 ? ? 1.35 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 C6 B DG 7 ? ? O6 B DG 7 ? ? 1.364 1.237 0.127 0.009 N 2 2 C6 B DG 7 ? ? O6 B DG 7 ? ? 1.362 1.237 0.125 0.009 N 3 3 C6 B DG 7 ? ? O6 B DG 7 ? ? 1.364 1.237 0.127 0.009 N 4 4 C6 B DG 7 ? ? O6 B DG 7 ? ? 1.362 1.237 0.125 0.009 N 5 5 C6 B DG 7 ? ? O6 B DG 7 ? ? 1.363 1.237 0.126 0.009 N 6 6 C6 B DG 7 ? ? O6 B DG 7 ? ? 1.363 1.237 0.126 0.009 N 7 7 C6 A DG 7 ? ? O6 A DG 7 ? ? 1.363 1.237 0.126 0.009 N 8 8 C6 A DG 7 ? ? O6 A DG 7 ? ? 1.364 1.237 0.127 0.009 N 9 9 C6 A DG 7 ? ? O6 A DG 7 ? ? 1.364 1.237 0.127 0.009 N 10 10 C6 A DG 7 ? ? O6 A DG 7 ? ? 1.363 1.237 0.126 0.009 N 11 11 C6 A DG 7 ? ? O6 A DG 7 ? ? 1.363 1.237 0.126 0.009 N 12 12 C6 A DG 7 ? ? O6 A DG 7 ? ? 1.362 1.237 0.125 0.009 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'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.44 108.30 3.14 0.30 N 2 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.23 108.30 3.93 0.30 N 3 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.94 108.30 2.64 0.30 N 4 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.47 108.30 2.17 0.30 N 5 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.31 108.30 2.01 0.30 N 6 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.49 108.30 3.19 0.30 N 7 1 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.35 108.30 3.05 0.30 N 8 1 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.20 108.30 3.90 0.30 N 9 1 "O4'" B DA 5 ? ? "C1'" B DA 5 ? ? N9 B DA 5 ? ? 110.12 108.30 1.82 0.30 N 10 1 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.84 108.30 2.54 0.30 N 11 1 C5 B DG 7 ? ? C6 B DG 7 ? ? O6 B DG 7 ? ? 123.10 128.60 -5.50 0.60 N 12 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.48 108.30 2.18 0.30 N 13 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.39 108.30 2.09 0.30 N 14 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.38 108.30 3.08 0.30 N 15 2 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.36 108.30 3.06 0.30 N 16 2 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.28 108.30 3.98 0.30 N 17 2 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.89 108.30 2.59 0.30 N 18 2 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.49 108.30 2.19 0.30 N 19 2 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.36 108.30 2.06 0.30 N 20 2 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.33 108.30 3.03 0.30 N 21 2 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.35 108.30 3.05 0.30 N 22 2 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.13 108.30 3.83 0.30 N 23 2 "O4'" B DA 5 ? ? "C1'" B DA 5 ? ? N9 B DA 5 ? ? 110.12 108.30 1.82 0.30 N 24 2 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.86 108.30 2.56 0.30 N 25 2 C5 B DG 7 ? ? C6 B DG 7 ? ? O6 B DG 7 ? ? 123.04 128.60 -5.56 0.60 N 26 2 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.49 108.30 2.19 0.30 N 27 2 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.26 108.30 1.96 0.30 N 28 2 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.50 108.30 3.20 0.30 N 29 3 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.38 108.30 3.08 0.30 N 30 3 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.17 108.30 3.87 0.30 N 31 3 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.87 108.30 2.57 0.30 N 32 3 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.55 108.30 2.25 0.30 N 33 3 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.33 108.30 2.03 0.30 N 34 3 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.52 108.30 3.22 0.30 N 35 3 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.22 108.30 2.92 0.30 N 36 3 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.20 108.30 3.90 0.30 N 37 3 "O4'" B DA 5 ? ? "C1'" B DA 5 ? ? N9 B DA 5 ? ? 110.16 108.30 1.86 0.30 N 38 3 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.88 108.30 2.58 0.30 N 39 3 C5 B DG 7 ? ? C6 B DG 7 ? ? O6 B DG 7 ? ? 123.08 128.60 -5.52 0.60 N 40 3 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.46 108.30 2.16 0.30 N 41 3 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.38 108.30 2.08 0.30 N 42 3 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.35 108.30 3.05 0.30 N 43 4 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.16 108.30 1.86 0.30 N 44 4 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.27 108.30 2.97 0.30 N 45 4 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.17 108.30 3.87 0.30 N 46 4 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.49 108.30 2.19 0.30 N 47 4 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.50 108.30 2.20 0.30 N 48 4 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.28 108.30 2.98 0.30 N 49 4 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.14 108.30 1.84 0.30 N 50 4 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.15 108.30 2.85 0.30 N 51 4 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 111.65 108.30 3.35 0.30 N 52 4 "O4'" B DC 6 ? ? "C1'" B DC 6 ? ? N1 B DC 6 ? ? 111.63 108.30 3.33 0.30 N 53 4 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 111.70 108.30 3.40 0.30 N 54 4 C5 B DG 7 ? ? C6 B DG 7 ? ? O6 B DG 7 ? ? 123.18 128.60 -5.42 0.60 N 55 4 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.53 108.30 2.23 0.30 N 56 4 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.39 108.30 2.09 0.30 N 57 4 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.59 108.30 3.29 0.30 N 58 5 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.73 108.30 2.43 0.30 N 59 5 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.49 108.30 3.19 0.30 N 60 5 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.14 108.30 3.84 0.30 N 61 5 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.03 108.30 2.73 0.30 N 62 5 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.62 108.30 2.32 0.30 N 63 5 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.37 108.30 2.07 0.30 N 64 5 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.32 108.30 3.02 0.30 N 65 5 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.11 108.30 1.81 0.30 N 66 5 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.24 108.30 2.94 0.30 N 67 5 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.19 108.30 3.89 0.30 N 68 5 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.86 108.30 2.56 0.30 N 69 5 C5 B DG 7 ? ? C6 B DG 7 ? ? O6 B DG 7 ? ? 123.08 128.60 -5.52 0.60 N 70 5 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.52 108.30 2.22 0.30 N 71 5 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.45 108.30 2.15 0.30 N 72 5 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.34 108.30 3.04 0.30 N 73 6 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.31 108.30 3.01 0.30 N 74 6 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.19 108.30 3.89 0.30 N 75 6 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 110.15 108.30 1.85 0.30 N 76 6 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.96 108.30 2.66 0.30 N 77 6 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.57 108.30 2.27 0.30 N 78 6 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.40 108.30 2.10 0.30 N 79 6 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.58 108.30 3.28 0.30 N 80 6 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.14 108.30 1.84 0.30 N 81 6 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.37 108.30 3.07 0.30 N 82 6 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.14 108.30 3.84 0.30 N 83 6 "O4'" B DA 5 ? ? "C1'" B DA 5 ? ? N9 B DA 5 ? ? 110.10 108.30 1.80 0.30 N 84 6 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.90 108.30 2.60 0.30 N 85 6 C5 B DG 7 ? ? C6 B DG 7 ? ? O6 B DG 7 ? ? 123.11 128.60 -5.49 0.60 N 86 6 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.46 108.30 2.16 0.30 N 87 6 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.28 108.30 1.98 0.30 N 88 6 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.30 108.30 3.00 0.30 N 89 7 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.18 108.30 1.88 0.30 N 90 7 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.35 108.30 3.05 0.30 N 91 7 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.17 108.30 3.87 0.30 N 92 7 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 110.12 108.30 1.82 0.30 N 93 7 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.86 108.30 2.56 0.30 N 94 7 C5 A DG 7 ? ? C6 A DG 7 ? ? O6 A DG 7 ? ? 123.19 128.60 -5.41 0.60 N 95 7 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.48 108.30 2.18 0.30 N 96 7 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.39 108.30 2.09 0.30 N 97 7 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.44 108.30 3.14 0.30 N 98 7 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.35 108.30 3.05 0.30 N 99 7 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.15 108.30 3.85 0.30 N 100 7 "O4'" B DA 5 ? ? "C1'" B DA 5 ? ? N9 B DA 5 ? ? 110.10 108.30 1.80 0.30 N 101 7 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.92 108.30 2.62 0.30 N 102 7 N1 B DG 7 ? ? C2 B DG 7 ? ? N2 B DG 7 ? ? 122.22 116.20 6.02 0.90 N 103 7 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.51 108.30 2.21 0.30 N 104 7 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.39 108.30 2.09 0.30 N 105 7 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.25 108.30 2.95 0.30 N 106 8 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.20 108.30 1.90 0.30 N 107 8 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.31 108.30 3.01 0.30 N 108 8 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.14 108.30 3.84 0.30 N 109 8 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.87 108.30 2.57 0.30 N 110 8 C5 A DG 7 ? ? C6 A DG 7 ? ? O6 A DG 7 ? ? 123.09 128.60 -5.51 0.60 N 111 8 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.44 108.30 2.14 0.30 N 112 8 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.39 108.30 2.09 0.30 N 113 8 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.36 108.30 3.06 0.30 N 114 8 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.40 108.30 3.10 0.30 N 115 8 "O4'" B DC 3 ? ? "C1'" B DC 3 ? ? N1 B DC 3 ? ? 110.13 108.30 1.83 0.30 N 116 8 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.10 108.30 3.80 0.30 N 117 8 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.84 108.30 2.54 0.30 N 118 8 N1 B DG 7 ? ? C2 B DG 7 ? ? N2 B DG 7 ? ? 122.24 116.20 6.04 0.90 N 119 8 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.55 108.30 2.25 0.30 N 120 8 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.38 108.30 2.08 0.30 N 121 8 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.33 108.30 3.03 0.30 N 122 9 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.26 108.30 2.96 0.30 N 123 9 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.20 108.30 3.90 0.30 N 124 9 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.93 108.30 2.63 0.30 N 125 9 C5 A DG 7 ? ? C6 A DG 7 ? ? O6 A DG 7 ? ? 123.16 128.60 -5.44 0.60 N 126 9 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.46 108.30 2.16 0.30 N 127 9 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.39 108.30 2.09 0.30 N 128 9 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.33 108.30 3.03 0.30 N 129 9 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.23 108.30 1.93 0.30 N 130 9 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.40 108.30 3.10 0.30 N 131 9 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.12 108.30 3.82 0.30 N 132 9 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.86 108.30 2.56 0.30 N 133 9 N1 B DG 7 ? ? C2 B DG 7 ? ? N2 B DG 7 ? ? 122.23 116.20 6.03 0.90 N 134 9 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.63 108.30 2.33 0.30 N 135 9 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.37 108.30 2.07 0.30 N 136 9 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.32 108.30 3.02 0.30 N 137 10 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.17 108.30 1.87 0.30 N 138 10 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.38 108.30 3.08 0.30 N 139 10 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.09 108.30 3.79 0.30 N 140 10 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 110.14 108.30 1.84 0.30 N 141 10 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.85 108.30 2.55 0.30 N 142 10 C5 A DG 7 ? ? C6 A DG 7 ? ? O6 A DG 7 ? ? 123.17 128.60 -5.43 0.60 N 143 10 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.56 108.30 2.26 0.30 N 144 10 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.39 108.30 2.09 0.30 N 145 10 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.26 108.30 2.96 0.30 N 146 10 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.21 108.30 1.91 0.30 N 147 10 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.34 108.30 3.04 0.30 N 148 10 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.11 108.30 3.81 0.30 N 149 10 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.92 108.30 2.62 0.30 N 150 10 N1 B DG 7 ? ? C2 B DG 7 ? ? N2 B DG 7 ? ? 122.11 116.20 5.91 0.90 N 151 10 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.63 108.30 2.33 0.30 N 152 10 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.43 108.30 2.13 0.30 N 153 10 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.38 108.30 3.08 0.30 N 154 11 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.12 108.30 1.82 0.30 N 155 11 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.25 108.30 2.95 0.30 N 156 11 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.21 108.30 3.91 0.30 N 157 11 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 110.10 108.30 1.80 0.30 N 158 11 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 110.87 108.30 2.57 0.30 N 159 11 C5 A DG 7 ? ? C6 A DG 7 ? ? O6 A DG 7 ? ? 123.12 128.60 -5.48 0.60 N 160 11 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.52 108.30 2.22 0.30 N 161 11 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.34 108.30 2.04 0.30 N 162 11 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.39 108.30 3.09 0.30 N 163 11 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.12 108.30 1.82 0.30 N 164 11 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.41 108.30 3.11 0.30 N 165 11 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.10 108.30 3.80 0.30 N 166 11 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.91 108.30 2.61 0.30 N 167 11 N1 B DG 7 ? ? C2 B DG 7 ? ? N2 B DG 7 ? ? 122.10 116.20 5.90 0.90 N 168 11 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.60 108.30 2.30 0.30 N 169 11 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.34 108.30 2.04 0.30 N 170 11 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.40 108.30 3.10 0.30 N 171 12 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 110.66 108.30 2.36 0.30 N 172 12 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.24 108.30 2.94 0.30 N 173 12 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 111.70 108.30 3.40 0.30 N 174 12 "O4'" A DC 6 ? ? "C1'" A DC 6 ? ? N1 A DC 6 ? ? 111.67 108.30 3.37 0.30 N 175 12 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.82 108.30 3.52 0.30 N 176 12 C5 A DG 7 ? ? C6 A DG 7 ? ? O6 A DG 7 ? ? 123.16 128.60 -5.44 0.60 N 177 12 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.56 108.30 2.26 0.30 N 178 12 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.50 108.30 2.20 0.30 N 179 12 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 111.44 108.30 3.14 0.30 N 180 12 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.45 108.30 2.15 0.30 N 181 12 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.39 108.30 3.09 0.30 N 182 12 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 112.16 108.30 3.86 0.30 N 183 12 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.40 108.30 2.10 0.30 N 184 12 N1 B DG 7 ? ? C2 B DG 7 ? ? N2 B DG 7 ? ? 122.39 116.20 6.19 0.90 N 185 12 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 110.44 108.30 2.14 0.30 N 186 12 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.32 108.30 3.02 0.30 N # 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 A 2 ? ? 0.063 'SIDE CHAIN' 2 1 DC A 6 ? ? 0.074 'SIDE CHAIN' 3 1 DG A 12 ? ? 0.073 'SIDE CHAIN' 4 1 DG B 2 ? ? 0.065 'SIDE CHAIN' 5 1 DC B 6 ? ? 0.070 'SIDE CHAIN' 6 1 DG B 12 ? ? 0.073 'SIDE CHAIN' 7 2 DG A 2 ? ? 0.064 'SIDE CHAIN' 8 2 DC A 6 ? ? 0.073 'SIDE CHAIN' 9 2 DG A 12 ? ? 0.072 'SIDE CHAIN' 10 2 DG B 2 ? ? 0.066 'SIDE CHAIN' 11 2 DC B 6 ? ? 0.070 'SIDE CHAIN' 12 2 DG B 12 ? ? 0.072 'SIDE CHAIN' 13 3 DG A 2 ? ? 0.064 'SIDE CHAIN' 14 3 DC A 6 ? ? 0.074 'SIDE CHAIN' 15 3 DG A 12 ? ? 0.072 'SIDE CHAIN' 16 3 DG B 2 ? ? 0.066 'SIDE CHAIN' 17 3 DC B 6 ? ? 0.070 'SIDE CHAIN' 18 3 DG B 12 ? ? 0.072 'SIDE CHAIN' 19 4 DG A 2 ? ? 0.069 'SIDE CHAIN' 20 4 DC A 6 ? ? 0.075 'SIDE CHAIN' 21 4 DG A 12 ? ? 0.076 'SIDE CHAIN' 22 4 DG B 2 ? ? 0.068 'SIDE CHAIN' 23 4 DA B 9 ? ? 0.053 'SIDE CHAIN' 24 4 DG B 12 ? ? 0.071 'SIDE CHAIN' 25 5 DC A 6 ? ? 0.074 'SIDE CHAIN' 26 5 DG A 12 ? ? 0.072 'SIDE CHAIN' 27 5 DG B 2 ? ? 0.066 'SIDE CHAIN' 28 5 DC B 6 ? ? 0.070 'SIDE CHAIN' 29 5 DG B 12 ? ? 0.074 'SIDE CHAIN' 30 6 DG A 2 ? ? 0.064 'SIDE CHAIN' 31 6 DC A 6 ? ? 0.074 'SIDE CHAIN' 32 6 DG A 12 ? ? 0.073 'SIDE CHAIN' 33 6 DG B 2 ? ? 0.063 'SIDE CHAIN' 34 6 DC B 6 ? ? 0.070 'SIDE CHAIN' 35 6 DG B 12 ? ? 0.073 'SIDE CHAIN' 36 7 DG A 2 ? ? 0.064 'SIDE CHAIN' 37 7 DC A 6 ? ? 0.070 'SIDE CHAIN' 38 7 DG A 12 ? ? 0.074 'SIDE CHAIN' 39 7 DG B 2 ? ? 0.064 'SIDE CHAIN' 40 7 DC B 6 ? ? 0.073 'SIDE CHAIN' 41 7 DG B 12 ? ? 0.073 'SIDE CHAIN' 42 8 DG A 2 ? ? 0.063 'SIDE CHAIN' 43 8 DC A 6 ? ? 0.070 'SIDE CHAIN' 44 8 DG A 12 ? ? 0.072 'SIDE CHAIN' 45 8 DG B 2 ? ? 0.063 'SIDE CHAIN' 46 8 DC B 6 ? ? 0.073 'SIDE CHAIN' 47 8 DG B 12 ? ? 0.073 'SIDE CHAIN' 48 9 DG A 2 ? ? 0.065 'SIDE CHAIN' 49 9 DC A 6 ? ? 0.070 'SIDE CHAIN' 50 9 DG A 12 ? ? 0.072 'SIDE CHAIN' 51 9 DC B 6 ? ? 0.073 'SIDE CHAIN' 52 9 DG B 12 ? ? 0.071 'SIDE CHAIN' 53 10 DG A 2 ? ? 0.063 'SIDE CHAIN' 54 10 DC A 6 ? ? 0.070 'SIDE CHAIN' 55 10 DG A 12 ? ? 0.073 'SIDE CHAIN' 56 10 DC B 6 ? ? 0.073 'SIDE CHAIN' 57 10 DG B 12 ? ? 0.072 'SIDE CHAIN' 58 11 DG A 2 ? ? 0.066 'SIDE CHAIN' 59 11 DC A 6 ? ? 0.070 'SIDE CHAIN' 60 11 DG A 12 ? ? 0.073 'SIDE CHAIN' 61 11 DG B 2 ? ? 0.065 'SIDE CHAIN' 62 11 DC B 6 ? ? 0.073 'SIDE CHAIN' 63 11 DG B 12 ? ? 0.071 'SIDE CHAIN' 64 12 DG A 2 ? ? 0.062 'SIDE CHAIN' 65 12 DA A 9 ? ? 0.051 'SIDE CHAIN' 66 12 DG A 12 ? ? 0.072 'SIDE CHAIN' 67 12 DC B 6 ? ? 0.075 'SIDE CHAIN' 68 12 DG B 12 ? ? 0.080 'SIDE CHAIN' # _pdbx_database_remark.id 400 _pdbx_database_remark.text ; COMPOUND N2 ATOM OF G7 IS MISSING IN ALL MODELS DUE TO NITROUS ACID INDUCED DNA INTERSTRAND CROSS-LINKED DODECAMER DUPLEX ; # _pdbx_nmr_ensemble.entry_id 1S9O _pdbx_nmr_ensemble.conformers_calculated_total_number 20 _pdbx_nmr_ensemble.conformers_submitted_total_number 12 _pdbx_nmr_ensemble.conformer_selection_criteria 'back calculated data agree with experimental NOESY spectrum' _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 1S9O _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria ? # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 '1mM DNA, 10mM phosphate pH 7.0, 200mM NaCl, 1mM EDTA' '100% D2O' 2 '1mM DNA, 10mM phosphate pH 7.0, 200mM NaCl, 1mM EDTA' '90% H2O/10% D2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength 200mM _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 2 1 DQF-COSY 3 3 1 '1H-31P HETCOR' # _pdbx_nmr_details.entry_id 1S9O _pdbx_nmr_details.text 'This structure was determined using standard 2D homonuclear techniques' # _pdbx_nmr_refine.entry_id 1S9O _pdbx_nmr_refine.method 'distance geometry, molecular dynamics, matrix relaxation' _pdbx_nmr_refine.details ;the structures are based on a total of 647 distance restraints (514 are NOE-derived, 42 from hydrogen bonding, 81 repulsive) and 176 dihedral angle restraints (104 backbone, 72 chiral). ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal XwinNMR 1 collection Bruker 1 Felix 1 processing Hare 2 Felix 1 'data analysis' Hare 3 DGII 1 'structure solution' Biosym 4 Discover 1 'structure solution' Biosym 5 BIRDER 97 'iterative matrix relaxation' Zhu 6 Discover 1 refinement Biosym 7 # 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 1S9O 'double helix' 1S9O 'b-form double helix' 1S9O 'internal loop' # 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 0.700 -0.239 -0.079 5.783 -22.562 -0.391 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 0.213 -0.039 0.140 -14.312 -17.788 -2.308 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.793 -0.215 0.511 -21.262 -5.508 -1.593 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DT 4 1_555 B DA 9 1_555 -0.143 -0.036 0.490 -18.386 -11.417 1.310 4 A_DT4:DA9_B A 4 ? B 9 ? 20 1 1 A DA 5 1_555 B DT 8 1_555 -0.150 0.014 -0.082 -1.560 -4.533 -8.123 5 A_DA5:DT8_B A 5 ? B 8 ? 20 1 1 A DG 7 1_555 B DG 7 1_555 0.024 2.031 1.060 -0.943 -22.227 45.372 6 A_DG7:DG7_B A 7 ? B 7 ? ? ? 1 A DT 8 1_555 B DA 5 1_555 0.177 0.009 -0.060 -0.034 -4.796 -8.206 7 A_DT8:DA5_B A 8 ? B 5 ? 20 1 1 A DA 9 1_555 B DT 4 1_555 0.079 -0.022 0.484 17.016 -11.448 2.363 8 A_DA9:DT4_B A 9 ? B 4 ? 20 1 1 A DG 10 1_555 B DC 3 1_555 -0.793 -0.218 0.534 20.730 -5.313 -1.669 9 A_DG10:DC3_B A 10 ? B 3 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 -0.222 -0.041 0.171 14.022 -17.035 -2.429 10 A_DC11:DG2_B A 11 ? B 2 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.693 -0.238 -0.074 -5.244 -22.776 -0.381 11 A_DG12:DC1_B A 12 ? B 1 ? 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 0.045 -1.380 3.403 -0.606 14.511 31.500 -4.454 -0.164 2.541 25.125 1.049 34.610 1 AA_DC1DG2:DC11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.143 -0.474 3.291 -2.208 1.801 41.289 -0.864 -0.440 3.257 2.551 3.126 41.383 2 AA_DG2DC3:DG10DC11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B DG 10 1_555 A DT 4 1_555 B DA 9 1_555 0.426 -0.851 3.006 3.264 6.385 28.321 -2.936 -0.206 2.782 12.791 -6.539 29.196 3 AA_DC3DT4:DA9DG10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DT 4 1_555 B DA 9 1_555 A DA 5 1_555 B DT 8 1_555 -1.450 0.129 2.824 0.250 7.137 36.905 -0.605 2.280 2.790 11.146 -0.391 37.566 4 AA_DT4DA5:DT8DA9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A DA 5 1_555 B DT 8 1_555 A DG 7 1_555 B DG 7 1_555 1.183 0.687 3.101 -6.651 -0.383 50.400 0.826 -1.811 2.928 -0.448 7.771 50.810 5 AA_DA5DG7:DG7DT8_BB A 5 ? B 8 ? A 7 ? B 7 ? 1 A DG 7 1_555 B DG 7 1_555 A DT 8 1_555 B DA 5 1_555 -1.220 0.580 3.084 6.628 0.270 49.951 0.664 1.869 2.913 0.319 -7.809 50.361 6 AA_DG7DT8:DA5DG7_BB A 7 ? B 7 ? A 8 ? B 5 ? 1 A DT 8 1_555 B DA 5 1_555 A DA 9 1_555 B DT 4 1_555 1.463 0.192 2.815 -0.091 7.232 36.947 -0.517 -2.278 2.799 11.279 0.141 37.624 7 AA_DT8DA9:DT4DA5_BB A 8 ? B 5 ? A 9 ? B 4 ? 1 A DA 9 1_555 B DT 4 1_555 A DG 10 1_555 B DC 3 1_555 -0.475 -0.823 2.980 -3.503 6.125 28.255 -2.836 0.259 2.781 12.305 7.038 29.105 8 AA_DA9DG10:DC3DT4_BB A 9 ? B 4 ? A 10 ? B 3 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -0.145 -0.473 3.291 2.153 1.805 41.236 -0.864 0.436 3.257 2.559 -3.052 41.328 9 AA_DG10DC11:DG2DC3_BB A 10 ? B 3 ? A 11 ? B 2 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 -0.035 -1.368 3.379 0.823 14.215 31.677 -4.372 0.179 2.549 24.549 -1.421 34.655 10 AA_DC11DG12:DC1DG2_BB A 11 ? B 2 ? A 12 ? B 1 ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.field_strength 1 ? Bruker DMX 750 2 ? Bruker DRX 500 # _atom_sites.entry_id 1S9O _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_