data_9OSO # _entry.id 9OSO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.408 _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 9OSO pdb_00009oso 10.2210/pdb9oso/pdb WWPDB D_1000296272 ? ? BMRB 31249 ? 10.13018/BMR31249 # 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 _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2025-11-19 ? 2 'Structure model' 1 1 2025-12-17 ? # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation.pdbx_database_id_PubMed' 5 2 'Structure model' '_citation.title' 6 2 'Structure model' '_citation_author.identifier_ORCID' 7 2 'Structure model' '_citation_author.name' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr . _pdbx_database_status.entry_id 9OSO _pdbx_database_status.recvd_initial_deposition_date 2025-05-25 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs . _pdbx_database_status.status_code_nmr_data REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible N # _pdbx_database_related.db_name BMRB _pdbx_database_related.details 'The specificity and structure of DNA crosslinking by a gut bacterial genotoxin' _pdbx_database_related.db_id 31249 _pdbx_database_related.content_type unspecified # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 2 dsouza@g.harvard.edu Victoria "D'Souza" M 'principal investigator/group leader' 0000-0002-5397-9481 3 balskus@chemistry.harvard.edu Emily Balskus P 'principal investigator/group leader' 0000-0001-5985-5714 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID ;D'Souza, V.D. ; 1 0000-0002-5397-9481 'Balskus, E.P.' 2 0000-0001-5985-5714 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Science _citation.journal_id_ASTM SCIEAS _citation.journal_id_CSD 0038 _citation.journal_id_ISSN 1095-9203 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 390 _citation.language ? _citation.page_first eady3571 _citation.page_last eady3571 _citation.title 'The specificity and structure of DNA cross-linking by the gut bacterial genotoxin colibactin.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1126/science.ady3571 _citation.pdbx_database_id_PubMed 41343624 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Carlson, E.S.' 1 0000-0001-9134-1246 primary 'Haslecker, R.' 2 0000-0001-8001-9534 primary 'Lecchi, C.' 3 0009-0009-0345-778X primary 'Aguilar Ramos, M.A.' 4 0000-0002-2537-8371 primary 'Vennelakanti, V.' 5 0000-0001-7677-2902 primary 'Honaker, L.' 6 ? primary 'Stornetta, A.' 7 ? primary 'Millan, E.S.' 8 0009-0001-4096-853X primary 'Johnson, B.A.' 9 0000-0001-8445-5368 primary 'Kulik, H.J.' 10 0000-0001-9342-0191 primary 'Balbo, S.' 11 0000-0002-7686-0504 primary 'Villalta, P.W.' 12 0000-0002-0067-3083 primary ;D'Souza, V.M. ; 13 0000-0002-5397-9481 primary 'Balskus, E.P.' 14 0000-0001-5985-5714 # 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 man DNA-COLIBACTIN 4313.816 2 ? ? ? ? 2 non-polymer syn ;N-({4-[(2R)-2-amino-2-{4-[(2-{(4Z)-2-methyl-4-[(5S)-5-methylpyrrolidin-2-ylidene]-5-oxo-4,5-dihydro-1H-pyrrol-3-yl}acetamido)acetyl]-1,3-thiazol-2-yl}acetyl]-1,3-thiazol-2-yl}methyl)-2-{(4Z)-2-methyl-4-[(5S)-5-methylpyrrolidin-2-ylidene]-5-oxo-4,5-dihydro-1H-pyrrol-3-yl}acetamide ; 745.871 1 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(A1CEB)(DT)(DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAXTATTCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name ;N-({4-[(2R)-2-amino-2-{4-[(2-{(4Z)-2-methyl-4-[(5S)-5-methylpyrrolidin-2-ylidene]-5-oxo-4,5-dihydro-1H-pyrrol-3-yl}acetamido)acetyl]-1,3-thiazol-2-yl}acetyl]-1,3-thiazol-2-yl}methyl)-2-{(4Z)-2-methyl-4-[(5S)-5-methylpyrrolidin-2-ylidene]-5-oxo-4,5-dihydro-1H-pyrrol-3-yl}acetamide ; _pdbx_entity_nonpoly.comp_id A1CEC # 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 A1CEB n 1 7 DT n 1 8 DA n 1 9 DT n 1 10 DT n 1 11 DC n 1 12 DG n 1 13 DC n 1 14 DG n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 14 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene ? _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 562 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # 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 A1CEB non-polymer . '[(2~{R},3~{R},4~{S},5~{R})-5-(6-azanyl-3-methyl-purin-9-yl)-4-fluoranyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate' ? 'C11 H16 F N5 O6 P 1' 364.247 A1CEC non-polymer . ;N-({4-[(2R)-2-amino-2-{4-[(2-{(4Z)-2-methyl-4-[(5S)-5-methylpyrrolidin-2-ylidene]-5-oxo-4,5-dihydro-1H-pyrrol-3-yl}acetamido)acetyl]-1,3-thiazol-2-yl}acetyl]-1,3-thiazol-2-yl}methyl)-2-{(4Z)-2-methyl-4-[(5S)-5-methylpyrrolidin-2-ylidene]-5-oxo-4,5-dihydro-1H-pyrrol-3-yl}acetamide ; ? 'C35 H39 N9 O6 S2' 745.871 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 1 101 101 DC DC A . n A 1 2 DG 2 102 102 DG DG A . n A 1 3 DC 3 103 103 DC DC A . n A 1 4 DG 4 104 104 DG DG A . n A 1 5 DA 5 105 105 DA DA A . n A 1 6 A1CEB 6 106 106 A1CEB ABN A . n A 1 7 DT 7 107 107 DT DT A . n A 1 8 DA 8 108 108 DA DA A . n A 1 9 DT 9 109 109 DT DT A . n A 1 10 DT 10 110 110 DT DT A . n A 1 11 DC 11 111 111 DC DC A . n A 1 12 DG 12 112 112 DG DG A . n A 1 13 DC 13 113 113 DC DC A . n A 1 14 DG 14 114 114 DG DG A . n B 1 1 DC 1 201 201 DC DC B . n B 1 2 DG 2 202 202 DG DG B . n B 1 3 DC 3 203 203 DC DC B . n B 1 4 DG 4 204 204 DG DG B . n B 1 5 DA 5 205 205 DA DA B . n B 1 6 A1CEB 6 206 206 A1CEB ABN B . n B 1 7 DT 7 207 207 DT DT B . n B 1 8 DA 8 208 208 DA DA B . n B 1 9 DT 9 209 209 DT DT B . n B 1 10 DT 10 210 210 DT DT B . n B 1 11 DC 11 211 211 DC DC B . n B 1 12 DG 12 212 212 DG DG B . n B 1 13 DC 13 213 213 DC DC B . n B 1 14 DG 14 214 214 DG DG B . n # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 A1CEB ? ? A1CEB ? ? 'SUBJECT OF INVESTIGATION' ? 2 A1CEC ? ? A1CEC ? ? 'SUBJECT OF INVESTIGATION' ? # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id A1CEC _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 301 _pdbx_nonpoly_scheme.auth_seq_num 306 _pdbx_nonpoly_scheme.pdb_mon_id A1CEC _pdbx_nonpoly_scheme.auth_mon_id ADC _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.pdb_ins_code . # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 9OSO _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 9OSO _struct.title 'The specificity and structure of DNA crosslinking by a gut bacterial genotoxin' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 9OSO _struct_keywords.text DNA _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9OSO _struct_ref.pdbx_db_accession 9OSO _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 9OSO A 1 ? 14 ? 9OSO 101 ? 114 ? 101 114 2 1 9OSO B 1 ? 14 ? 9OSO 201 ? 214 ? 201 214 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_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,C # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'NMR Distance Restraints' _pdbx_struct_assembly_auth_evidence.details 'not applicable' # _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] 1.0 _pdbx_struct_oper_list.matrix[1][2] 0.0 _pdbx_struct_oper_list.matrix[1][3] 0.0 _pdbx_struct_oper_list.vector[1] 0.0 _pdbx_struct_oper_list.matrix[2][1] 0.0 _pdbx_struct_oper_list.matrix[2][2] 1.0 _pdbx_struct_oper_list.matrix[2][3] 0.0 _pdbx_struct_oper_list.vector[2] 0.0 _pdbx_struct_oper_list.matrix[3][1] 0.0 _pdbx_struct_oper_list.matrix[3][2] 0.0 _pdbx_struct_oper_list.matrix[3][3] 1.0 _pdbx_struct_oper_list.vector[3] 0.0 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DA 5 "O3'" ? ? ? 1_555 A A1CEB 6 P ? ? A DA 105 A A1CEB 106 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale2 covale both ? A A1CEB 6 "O3'" ? ? ? 1_555 A DT 7 P ? ? A A1CEB 106 A DT 107 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale3 covale none ? A A1CEB 6 C28 ? ? ? 1_555 C A1CEC . C27 ? ? A A1CEB 106 A A1CEC 301 1_555 ? ? ? ? ? ? ? 1.620 ? ? covale4 covale none ? C A1CEC . "C27'" ? ? ? 1_555 B A1CEB 6 C28 ? ? A A1CEC 301 B A1CEB 206 1_555 ? ? ? ? ? ? ? 1.525 ? ? covale5 covale both ? B DA 5 "O3'" ? ? ? 1_555 B A1CEB 6 P ? ? B DA 205 B A1CEB 206 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale6 covale both ? B A1CEB 6 "O3'" ? ? ? 1_555 B DT 7 P ? ? B A1CEB 206 B DT 207 1_555 ? ? ? ? ? ? ? 1.612 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 14 N1 ? ? A DC 101 B DG 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 14 O6 ? ? A DC 101 B DG 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 14 N2 ? ? A DC 101 B DG 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 13 N3 ? ? A DG 102 B DC 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 13 O2 ? ? A DG 102 B DC 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 13 N4 ? ? A DG 102 B DC 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 103 B DG 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 103 B DG 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 103 B DG 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 104 B DC 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 104 B DC 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 104 B DC 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 10 N3 ? ? A DA 105 B DT 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 10 O4 ? ? A DA 105 B DT 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 8 N1 ? ? A DT 107 B DA 208 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 8 N6 ? ? A DT 107 B DA 208 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 108 B DT 207 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 108 B DT 207 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 10 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 110 B DA 205 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 10 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 110 B DA 205 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 111 B DG 204 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 111 B DG 204 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 111 B DG 204 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 112 B DC 203 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 112 B DC 203 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 112 B DC 203 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 13 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 113 B DG 202 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 13 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 113 B DG 202 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 13 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 113 B DG 202 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 14 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 114 B DC 201 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 14 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 114 B DC 201 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 14 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 114 B DC 201 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _pdbx_entry_details.entry_id 9OSO _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.has_protein_modification 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'" B DT 209 ? ? "C1'" B DT 209 ? ? N1 B DT 209 ? ? 110.21 108.30 1.91 0.30 N 2 2 "O4'" B DT 209 ? ? "C1'" B DT 209 ? ? N1 B DT 209 ? ? 110.52 108.30 2.22 0.30 N 3 3 "O4'" A DT 110 ? ? "C1'" A DT 110 ? ? N1 A DT 110 ? ? 110.23 108.30 1.93 0.30 N 4 4 "O4'" A DT 107 ? ? "C1'" A DT 107 ? ? N1 A DT 107 ? ? 110.14 108.30 1.84 0.30 N 5 8 "O4'" A DT 110 ? ? "C1'" A DT 110 ? ? N1 A DT 110 ? ? 110.32 108.30 2.02 0.30 N 6 10 "O4'" B DT 209 ? ? "C1'" B DT 209 ? ? N1 B DT 209 ? ? 110.29 108.30 1.99 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 5 DA A 108 ? ? 0.054 'SIDE CHAIN' 2 7 DT B 209 ? ? 0.058 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 9OSO _pdbx_nmr_ensemble.conformers_calculated_total_number 50 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.representative_conformer ? _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 9OSO _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system _pdbx_nmr_sample_details.label _pdbx_nmr_sample_details.type _pdbx_nmr_sample_details.details 1 '1.5 ug/uL DNA-COLIBACTIN, 10 mM TRIS, 10 mM sodium chloride, 90% H2O/10% D2O' '90% H2O/10% D2O' H_sample-1 solution ? 2 '1.5 ug/uL [U-100% 13C; U-100% 15N] DNA-COLIBACTIN, 10 mM TRIS, 10 mM sodium chloride, 90% H2O/10% D2O' '90% H2O/10% D2O' 15N_13C_sample solution ? 3 '1.5 ug/uL [U-100% 13C; U-100% 15N] DNA-COLIBACTIN, 10 mM TRIS, 10 mM sodium chloride, 100% D2O' '100% D2O' 15N_13C_sample solution ? 4 '1.5 ug/uL DNA-COLIBACTIN, 10 mM TRIS, 10 mM sodium chloride, 100% D2O' '100% D2O' H_sample-2 solution ? # loop_ _pdbx_nmr_exptl_sample.solution_id _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling 1 DNA-COLIBACTIN 1.5 ? ug/uL 'natural abundance' 1 TRIS 10 ? mM 'natural abundance' 1 'sodium chloride' 10 ? mM 'natural abundance' 2 DNA-COLIBACTIN 1.5 ? ug/uL '[U-100% 13C; U-100% 15N]' 2 TRIS 10 ? mM 'natural abundance' 2 'sodium chloride' 10 ? mM 'natural abundance' 3 DNA-COLIBACTIN 1.5 ? ug/uL '[U-100% 13C; U-100% 15N]' 3 TRIS 10 ? mM 'natural abundance' 3 'sodium chloride' 10 ? mM 'natural abundance' 4 DNA-COLIBACTIN 1.5 ? ug/uL 'natural abundance' 4 TRIS 10 ? mM 'natural abundance' 4 'sodium chloride' 10 ? mM 'natural abundance' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 278 _pdbx_nmr_exptl_sample_conditions.pressure_units bar _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 8.2 _pdbx_nmr_exptl_sample_conditions.ionic_strength '10 mM Tris 10 mM Nacl' _pdbx_nmr_exptl_sample_conditions.details ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_err ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_units mM _pdbx_nmr_exptl_sample_conditions.label condition_1 _pdbx_nmr_exptl_sample_conditions.pH_err ? _pdbx_nmr_exptl_sample_conditions.pH_units pH _pdbx_nmr_exptl_sample_conditions.pressure_err ? _pdbx_nmr_exptl_sample_conditions.temperature_err ? _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 _pdbx_nmr_exptl.spectrometer_id _pdbx_nmr_exptl.sample_state 1 1 1 '2D 1H-1H NOESY' 1 isotropic 2 1 2 '2D 1H-15N HSQC' 1 isotropic 3 1 2 '2D 1H-13C HSQC' 1 isotropic 4 1 4 '2D 1H-1H NOESY' 1 isotropic # _pdbx_nmr_refine.entry_id 9OSO _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 2 # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 1 'structure calculation' CYANA ? 'Guntert, Mumenthaler and Wuthrich' 2 refinement 'X-PLOR NIH' ? 'Schwieters, Kuszewski, Tjandra and Clore' 3 'chemical shift assignment' NMRFx ? 'Bruce Johnson' # 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 A1CEB C2 C Y N 1 A1CEB C4 C Y N 2 A1CEB C5 C Y N 3 A1CEB C6 C Y N 4 A1CEB P P N N 5 A1CEB OP1 O N N 6 A1CEB OP2 O N N 7 A1CEB "O5'" O N N 8 A1CEB N9 N Y N 9 A1CEB N3 N Y N 10 A1CEB C28 C N N 11 A1CEB N1 N Y N 12 A1CEB N6 N N N 13 A1CEB N7 N Y N 14 A1CEB C8 C Y N 15 A1CEB "F2'" F N N 16 A1CEB "C2'" C N S 17 A1CEB "C5'" C N N 18 A1CEB "C4'" C N R 19 A1CEB "O4'" O N N 20 A1CEB "C1'" C N R 21 A1CEB "C3'" C N R 22 A1CEB "O3'" O N N 23 A1CEB H2 H N N 24 A1CEB HOP2 H N N 25 A1CEB H28B H N N 26 A1CEB H28A H N N 27 A1CEB H4 H N N 28 A1CEB H62 H N N 29 A1CEB H61 H N N 30 A1CEB H8 H N N 31 A1CEB "H2''" H N N 32 A1CEB "H5'" H N N 33 A1CEB "H5''" H N N 34 A1CEB "H4'" H N N 35 A1CEB "H1'" H N N 36 A1CEB "H3'" H N N 37 A1CEB "HO3'" H N N 38 A1CEB OP3 O N N 39 A1CEB HOP3 H N N 40 A1CEC N1 N N N 41 A1CEC N3 N N N 42 A1CEC "C27'" C N N 43 A1CEC "C26'" C N N 44 A1CEC "N2'" N N N 45 A1CEC "C25'" C N N 46 A1CEC "O13'" O N N 47 A1CEC "C24'" C N N 48 A1CEC "C23'" C N N 49 A1CEC "C22'" C N N 50 A1CEC "C21'" C N N 51 A1CEC "C19'" C N S 52 A1CEC "C20'" C N N 53 A1CEC "N1'" N N N 54 A1CEC "C29'" C N N 55 A1CEC "C30'" C N N 56 A1CEC "C31'" C N N 57 A1CEC "O14'" O N N 58 A1CEC "N3'" N N N 59 A1CEC C42 C N N 60 A1CEC C41 C N N 61 A1CEC O16 O N N 62 A1CEC C40 C Y N 63 A1CEC "N4'" N Y N 64 A1CEC C39 C Y N 65 A1CEC S12 S Y N 66 A1CEC C38 C Y N 67 A1CEC C37 C N N 68 A1CEC N37 N N N 69 A1CEC C36 C N N 70 A1CEC O15 O N N 71 A1CEC C35 C Y N 72 A1CEC C34 C Y N 73 A1CEC C33 C Y N 74 A1CEC N4 N Y N 75 A1CEC S11 S Y N 76 A1CEC C27 C N N 77 A1CEC C26 C N N 78 A1CEC N2 N N N 79 A1CEC C25 C N N 80 A1CEC O13 O N N 81 A1CEC C24 C N N 82 A1CEC C23 C N N 83 A1CEC C22 C N N 84 A1CEC C21 C N N 85 A1CEC C19 C N S 86 A1CEC C20 C N N 87 A1CEC C29 C N N 88 A1CEC C30 C N N 89 A1CEC C31 C N N 90 A1CEC O14 O N N 91 A1CEC C32 C N N 92 A1CEC H11 H N N 93 A1CEC H13 H N N 94 A1CEC H27D H N N 95 A1CEC H27E H N N 96 A1CEC H1 H N N 97 A1CEC "H12'" H N N 98 A1CEC H22E H N N 99 A1CEC H22D H N N 100 A1CEC H21D H N N 101 A1CEC H21E H N N 102 A1CEC H19D H N N 103 A1CEC H20F H N N 104 A1CEC H20E H N N 105 A1CEC H20D H N N 106 A1CEC "H11'" H N N 107 A1CEC H30D H N N 108 A1CEC H30E H N N 109 A1CEC "H13'" H N N 110 A1CEC H42A H N N 111 A1CEC H42B H N N 112 A1CEC H39 H N N 113 A1CEC H15 H N N 114 A1CEC H34 H N N 115 A1CEC H27B H N N 116 A1CEC H27A H N N 117 A1CEC H4 H N N 118 A1CEC H12 H N N 119 A1CEC H22B H N N 120 A1CEC H22A H N N 121 A1CEC H21B H N N 122 A1CEC H21A H N N 123 A1CEC H19A H N N 124 A1CEC H20C H N N 125 A1CEC H20B H N N 126 A1CEC H20A H N N 127 A1CEC H30A H N N 128 A1CEC H30B H N N 129 A1CEC H32A H N N 130 A1CEC H32B H N N 131 DA OP3 O N N 132 DA P P N N 133 DA OP1 O N N 134 DA OP2 O N N 135 DA "O5'" O N N 136 DA "C5'" C N N 137 DA "C4'" C N R 138 DA "O4'" O N N 139 DA "C3'" C N S 140 DA "O3'" O N N 141 DA "C2'" C N N 142 DA "C1'" C N R 143 DA N9 N Y N 144 DA C8 C Y N 145 DA N7 N Y N 146 DA C5 C Y N 147 DA C6 C Y N 148 DA N6 N N N 149 DA N1 N Y N 150 DA C2 C Y N 151 DA N3 N Y N 152 DA C4 C Y N 153 DA HOP3 H N N 154 DA HOP2 H N N 155 DA "H5'" H N N 156 DA "H5''" H N N 157 DA "H4'" H N N 158 DA "H3'" H N N 159 DA "HO3'" H N N 160 DA "H2'" H N N 161 DA "H2''" H N N 162 DA "H1'" H N N 163 DA H8 H N N 164 DA H61 H N N 165 DA H62 H N N 166 DA H2 H N N 167 DC OP3 O N N 168 DC P P N N 169 DC OP1 O N N 170 DC OP2 O N N 171 DC "O5'" O N N 172 DC "C5'" C N N 173 DC "C4'" C N R 174 DC "O4'" O N N 175 DC "C3'" C N S 176 DC "O3'" O N N 177 DC "C2'" C N N 178 DC "C1'" C N R 179 DC N1 N N N 180 DC C2 C N N 181 DC O2 O N N 182 DC N3 N N N 183 DC C4 C N N 184 DC N4 N N N 185 DC C5 C N N 186 DC C6 C N N 187 DC HOP3 H N N 188 DC HOP2 H N N 189 DC "H5'" H N N 190 DC "H5''" H N N 191 DC "H4'" H N N 192 DC "H3'" H N N 193 DC "HO3'" H N N 194 DC "H2'" H N N 195 DC "H2''" H N N 196 DC "H1'" H N N 197 DC H41 H N N 198 DC H42 H N N 199 DC H5 H N N 200 DC H6 H N N 201 DG OP3 O N N 202 DG P P N N 203 DG OP1 O N N 204 DG OP2 O N N 205 DG "O5'" O N N 206 DG "C5'" C N N 207 DG "C4'" C N R 208 DG "O4'" O N N 209 DG "C3'" C N S 210 DG "O3'" O N N 211 DG "C2'" C N N 212 DG "C1'" C N R 213 DG N9 N Y N 214 DG C8 C Y N 215 DG N7 N Y N 216 DG C5 C Y N 217 DG C6 C N N 218 DG O6 O N N 219 DG N1 N N N 220 DG C2 C N N 221 DG N2 N N N 222 DG N3 N N N 223 DG C4 C Y N 224 DG HOP3 H N N 225 DG HOP2 H N N 226 DG "H5'" H N N 227 DG "H5''" H N N 228 DG "H4'" H N N 229 DG "H3'" H N N 230 DG "HO3'" H N N 231 DG "H2'" H N N 232 DG "H2''" H N N 233 DG "H1'" H N N 234 DG H8 H N N 235 DG H1 H N N 236 DG H21 H N N 237 DG H22 H N N 238 DT OP3 O N N 239 DT P P N N 240 DT OP1 O N N 241 DT OP2 O N N 242 DT "O5'" O N N 243 DT "C5'" C N N 244 DT "C4'" C N R 245 DT "O4'" O N N 246 DT "C3'" C N S 247 DT "O3'" O N N 248 DT "C2'" C N N 249 DT "C1'" C N R 250 DT N1 N N N 251 DT C2 C N N 252 DT O2 O N N 253 DT N3 N N N 254 DT C4 C N N 255 DT O4 O N N 256 DT C5 C N N 257 DT C7 C N N 258 DT C6 C N N 259 DT HOP3 H N N 260 DT HOP2 H N N 261 DT "H5'" H N N 262 DT "H5''" H N N 263 DT "H4'" H N N 264 DT "H3'" H N N 265 DT "HO3'" H N N 266 DT "H2'" H N N 267 DT "H2''" H N N 268 DT "H1'" H N N 269 DT H3 H N N 270 DT H71 H N N 271 DT H72 H N N 272 DT H73 H N N 273 DT H6 H N N 274 # 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 A1CEB N6 C6 sing N N 1 A1CEB OP2 P sing N N 2 A1CEB N7 C8 doub Y N 3 A1CEB N7 C5 sing Y N 4 A1CEB P OP1 doub N N 5 A1CEB P "O5'" sing N N 6 A1CEB C6 C5 doub Y N 7 A1CEB C6 N1 sing Y N 8 A1CEB C8 N9 sing Y N 9 A1CEB C5 C4 sing Y N 10 A1CEB "O5'" "C5'" sing N N 11 A1CEB "F2'" "C2'" sing N N 12 A1CEB N1 C2 doub Y N 13 A1CEB N9 C4 sing Y N 14 A1CEB N9 "C1'" sing N N 15 A1CEB "C5'" "C4'" sing N N 16 A1CEB C4 N3 doub Y N 17 A1CEB C2 N3 sing Y N 18 A1CEB "C2'" "C1'" sing N N 19 A1CEB "C2'" "C3'" sing N N 20 A1CEB "O4'" "C1'" sing N N 21 A1CEB "O4'" "C4'" sing N N 22 A1CEB N3 C28 sing N N 23 A1CEB "C4'" "C3'" sing N N 24 A1CEB "C3'" "O3'" sing N N 25 A1CEB C2 H2 sing N N 26 A1CEB OP2 HOP2 sing N N 27 A1CEB C28 H28B sing N N 28 A1CEB C28 H28A sing N N 29 A1CEB C28 H4 sing N N 30 A1CEB N6 H62 sing N N 31 A1CEB N6 H61 sing N N 32 A1CEB C8 H8 sing N N 33 A1CEB "C2'" "H2''" sing N N 34 A1CEB "C5'" "H5'" sing N N 35 A1CEB "C5'" "H5''" sing N N 36 A1CEB "C4'" "H4'" sing N N 37 A1CEB "C1'" "H1'" sing N N 38 A1CEB "C3'" "H3'" sing N N 39 A1CEB "O3'" "HO3'" sing N N 40 A1CEB P OP3 sing N N 41 A1CEB OP3 HOP3 sing N N 42 A1CEC "O13'" "C25'" doub N N 43 A1CEC "C20'" "C19'" sing N N 44 A1CEC "N1'" "C19'" sing N N 45 A1CEC "N1'" "C23'" sing N N 46 A1CEC "C19'" "C21'" sing N N 47 A1CEC "C25'" "N2'" sing N N 48 A1CEC "C25'" "C24'" sing N N 49 A1CEC "N2'" "C26'" sing N N 50 A1CEC "C23'" "C24'" doub N Z 51 A1CEC "C23'" "C22'" sing N N 52 A1CEC "C24'" "C29'" sing N N 53 A1CEC "C21'" "C22'" sing N N 54 A1CEC "C26'" "C29'" doub N N 55 A1CEC "C26'" "C27'" sing N N 56 A1CEC "C29'" "C30'" sing N N 57 A1CEC "O14'" "C31'" doub N N 58 A1CEC C27 C26 sing N N 59 A1CEC N2 C26 sing N N 60 A1CEC N2 C25 sing N N 61 A1CEC "C30'" "C31'" sing N N 62 A1CEC "C31'" "N3'" sing N N 63 A1CEC C26 C29 doub N N 64 A1CEC O13 C25 doub N N 65 A1CEC C25 C24 sing N N 66 A1CEC "N3'" C42 sing N N 67 A1CEC C42 C41 sing N N 68 A1CEC C29 C24 sing N N 69 A1CEC C29 C30 sing N N 70 A1CEC C24 C23 doub N Z 71 A1CEC N37 C37 doub N N 72 A1CEC C41 O16 doub N N 73 A1CEC C41 C40 sing N N 74 A1CEC C30 C31 sing N N 75 A1CEC N3 C32 sing N N 76 A1CEC N3 C31 sing N N 77 A1CEC "N4'" C40 sing Y N 78 A1CEC "N4'" C38 doub Y N 79 A1CEC C32 C33 sing N N 80 A1CEC C31 O14 doub N N 81 A1CEC C23 N1 sing N N 82 A1CEC C23 C22 sing N N 83 A1CEC C40 C39 doub Y N 84 A1CEC N1 C19 sing N N 85 A1CEC N4 C33 doub Y N 86 A1CEC N4 C35 sing Y N 87 A1CEC C37 C38 sing N N 88 A1CEC C37 C36 sing N N 89 A1CEC C38 S12 sing Y N 90 A1CEC C33 S11 sing Y N 91 A1CEC C39 S12 sing Y N 92 A1CEC C35 C36 sing N N 93 A1CEC C35 C34 doub Y N 94 A1CEC C36 O15 doub N N 95 A1CEC C22 C21 sing N N 96 A1CEC C19 C20 sing N N 97 A1CEC C19 C21 sing N N 98 A1CEC S11 C34 sing Y N 99 A1CEC N1 H11 sing N N 100 A1CEC N3 H13 sing N N 101 A1CEC "C27'" H27D sing N N 102 A1CEC "C27'" H27E sing N N 103 A1CEC "C27'" H1 sing N N 104 A1CEC "N2'" "H12'" sing N N 105 A1CEC "C22'" H22E sing N N 106 A1CEC "C22'" H22D sing N N 107 A1CEC "C21'" H21D sing N N 108 A1CEC "C21'" H21E sing N N 109 A1CEC "C19'" H19D sing N N 110 A1CEC "C20'" H20F sing N N 111 A1CEC "C20'" H20E sing N N 112 A1CEC "C20'" H20D sing N N 113 A1CEC "N1'" "H11'" sing N N 114 A1CEC "C30'" H30D sing N N 115 A1CEC "C30'" H30E sing N N 116 A1CEC "N3'" "H13'" sing N N 117 A1CEC C42 H42A sing N N 118 A1CEC C42 H42B sing N N 119 A1CEC C39 H39 sing N N 120 A1CEC N37 H15 sing N N 121 A1CEC C34 H34 sing N N 122 A1CEC C27 H27B sing N N 123 A1CEC C27 H27A sing N N 124 A1CEC C27 H4 sing N N 125 A1CEC N2 H12 sing N N 126 A1CEC C22 H22B sing N N 127 A1CEC C22 H22A sing N N 128 A1CEC C21 H21B sing N N 129 A1CEC C21 H21A sing N N 130 A1CEC C19 H19A sing N N 131 A1CEC C20 H20C sing N N 132 A1CEC C20 H20B sing N N 133 A1CEC C20 H20A sing N N 134 A1CEC C30 H30A sing N N 135 A1CEC C30 H30B sing N N 136 A1CEC C32 H32A sing N N 137 A1CEC C32 H32B sing N N 138 DA OP3 P sing N N 139 DA OP3 HOP3 sing N N 140 DA P OP1 doub N N 141 DA P OP2 sing N N 142 DA P "O5'" sing N N 143 DA OP2 HOP2 sing N N 144 DA "O5'" "C5'" sing N N 145 DA "C5'" "C4'" sing N N 146 DA "C5'" "H5'" sing N N 147 DA "C5'" "H5''" sing N N 148 DA "C4'" "O4'" sing N N 149 DA "C4'" "C3'" sing N N 150 DA "C4'" "H4'" sing N N 151 DA "O4'" "C1'" sing N N 152 DA "C3'" "O3'" sing N N 153 DA "C3'" "C2'" sing N N 154 DA "C3'" "H3'" sing N N 155 DA "O3'" "HO3'" sing N N 156 DA "C2'" "C1'" sing N N 157 DA "C2'" "H2'" sing N N 158 DA "C2'" "H2''" sing N N 159 DA "C1'" N9 sing N N 160 DA "C1'" "H1'" sing N N 161 DA N9 C8 sing Y N 162 DA N9 C4 sing Y N 163 DA C8 N7 doub Y N 164 DA C8 H8 sing N N 165 DA N7 C5 sing Y N 166 DA C5 C6 sing Y N 167 DA C5 C4 doub Y N 168 DA C6 N6 sing N N 169 DA C6 N1 doub Y N 170 DA N6 H61 sing N N 171 DA N6 H62 sing N N 172 DA N1 C2 sing Y N 173 DA C2 N3 doub Y N 174 DA C2 H2 sing N N 175 DA N3 C4 sing Y N 176 DC OP3 P sing N N 177 DC OP3 HOP3 sing N N 178 DC P OP1 doub N N 179 DC P OP2 sing N N 180 DC P "O5'" sing N N 181 DC OP2 HOP2 sing N N 182 DC "O5'" "C5'" sing N N 183 DC "C5'" "C4'" sing N N 184 DC "C5'" "H5'" sing N N 185 DC "C5'" "H5''" sing N N 186 DC "C4'" "O4'" sing N N 187 DC "C4'" "C3'" sing N N 188 DC "C4'" "H4'" sing N N 189 DC "O4'" "C1'" sing N N 190 DC "C3'" "O3'" sing N N 191 DC "C3'" "C2'" sing N N 192 DC "C3'" "H3'" sing N N 193 DC "O3'" "HO3'" sing N N 194 DC "C2'" "C1'" sing N N 195 DC "C2'" "H2'" sing N N 196 DC "C2'" "H2''" sing N N 197 DC "C1'" N1 sing N N 198 DC "C1'" "H1'" sing N N 199 DC N1 C2 sing N N 200 DC N1 C6 sing N N 201 DC C2 O2 doub N N 202 DC C2 N3 sing N N 203 DC N3 C4 doub N N 204 DC C4 N4 sing N N 205 DC C4 C5 sing N N 206 DC N4 H41 sing N N 207 DC N4 H42 sing N N 208 DC C5 C6 doub N N 209 DC C5 H5 sing N N 210 DC C6 H6 sing N N 211 DG OP3 P sing N N 212 DG OP3 HOP3 sing N N 213 DG P OP1 doub N N 214 DG P OP2 sing N N 215 DG P "O5'" sing N N 216 DG OP2 HOP2 sing N N 217 DG "O5'" "C5'" sing N N 218 DG "C5'" "C4'" sing N N 219 DG "C5'" "H5'" sing N N 220 DG "C5'" "H5''" sing N N 221 DG "C4'" "O4'" sing N N 222 DG "C4'" "C3'" sing N N 223 DG "C4'" "H4'" sing N N 224 DG "O4'" "C1'" sing N N 225 DG "C3'" "O3'" sing N N 226 DG "C3'" "C2'" sing N N 227 DG "C3'" "H3'" sing N N 228 DG "O3'" "HO3'" sing N N 229 DG "C2'" "C1'" sing N N 230 DG "C2'" "H2'" sing N N 231 DG "C2'" "H2''" sing N N 232 DG "C1'" N9 sing N N 233 DG "C1'" "H1'" sing N N 234 DG N9 C8 sing Y N 235 DG N9 C4 sing Y N 236 DG C8 N7 doub Y N 237 DG C8 H8 sing N N 238 DG N7 C5 sing Y N 239 DG C5 C6 sing N N 240 DG C5 C4 doub Y N 241 DG C6 O6 doub N N 242 DG C6 N1 sing N N 243 DG N1 C2 sing N N 244 DG N1 H1 sing N N 245 DG C2 N2 sing N N 246 DG C2 N3 doub N N 247 DG N2 H21 sing N N 248 DG N2 H22 sing N N 249 DG N3 C4 sing N N 250 DT OP3 P sing N N 251 DT OP3 HOP3 sing N N 252 DT P OP1 doub N N 253 DT P OP2 sing N N 254 DT P "O5'" sing N N 255 DT OP2 HOP2 sing N N 256 DT "O5'" "C5'" sing N N 257 DT "C5'" "C4'" sing N N 258 DT "C5'" "H5'" sing N N 259 DT "C5'" "H5''" sing N N 260 DT "C4'" "O4'" sing N N 261 DT "C4'" "C3'" sing N N 262 DT "C4'" "H4'" sing N N 263 DT "O4'" "C1'" sing N N 264 DT "C3'" "O3'" sing N N 265 DT "C3'" "C2'" sing N N 266 DT "C3'" "H3'" sing N N 267 DT "O3'" "HO3'" sing N N 268 DT "C2'" "C1'" sing N N 269 DT "C2'" "H2'" sing N N 270 DT "C2'" "H2''" sing N N 271 DT "C1'" N1 sing N N 272 DT "C1'" "H1'" sing N N 273 DT N1 C2 sing N N 274 DT N1 C6 sing N N 275 DT C2 O2 doub N N 276 DT C2 N3 sing N N 277 DT N3 C4 sing N N 278 DT N3 H3 sing N N 279 DT C4 O4 doub N N 280 DT C4 C5 sing N N 281 DT C5 C7 sing N N 282 DT C5 C6 doub N N 283 DT C7 H71 sing N N 284 DT C7 H72 sing N N 285 DT C7 H73 sing N N 286 DT C6 H6 sing N N 287 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 9OSO 'double helix' 9OSO '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 14 1_555 -0.536 0.055 -0.022 9.456 8.587 0.607 1 A_DC101:DG214_B A 101 ? B 214 ? 19 1 1 A DG 2 1_555 B DC 13 1_555 -0.919 -0.222 0.016 17.225 -5.635 2.292 2 A_DG102:DC213_B A 102 ? B 213 ? 19 1 1 A DC 3 1_555 B DG 12 1_555 -0.070 0.046 -0.198 12.990 -10.917 2.897 3 A_DC103:DG212_B A 103 ? B 212 ? 19 1 1 A DG 4 1_555 B DC 11 1_555 -0.732 -0.237 0.124 -0.155 -15.023 2.061 4 A_DG104:DC211_B A 104 ? B 211 ? 19 1 1 A DA 5 1_555 B DT 10 1_555 -0.262 -0.351 0.733 1.218 -10.048 -4.774 5 A_DA105:DT210_B A 105 ? B 210 ? 20 1 1 A DT 7 1_555 B DA 8 1_555 -0.475 -0.064 -0.030 -2.819 -12.774 3.348 6 A_DT107:DA208_B A 107 ? B 208 ? 20 1 1 A DA 8 1_555 B DT 7 1_555 0.312 -0.008 -0.227 -21.665 -15.415 0.659 7 A_DA108:DT207_B A 108 ? B 207 ? 20 1 1 A DT 10 1_555 B DA 5 1_555 -0.312 -0.035 -0.645 6.270 -31.754 -7.876 8 A_DT110:DA205_B A 110 ? B 205 ? 20 1 1 A DC 11 1_555 B DG 4 1_555 0.696 -0.245 0.104 -8.100 -17.524 3.295 9 A_DC111:DG204_B A 111 ? B 204 ? 19 1 1 A DG 12 1_555 B DC 3 1_555 0.305 0.061 0.141 -17.985 -4.559 2.467 10 A_DG112:DC203_B A 112 ? B 203 ? 19 1 1 A DC 13 1_555 B DG 2 1_555 0.882 -0.148 0.325 -16.251 0.200 0.525 11 A_DC113:DG202_B A 113 ? B 202 ? 19 1 1 A DG 14 1_555 B DC 1 1_555 0.312 0.085 0.021 -15.854 -6.079 0.850 12 A_DG114:DC201_B A 114 ? B 201 ? 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 14 1_555 A DG 2 1_555 B DC 13 1_555 -0.183 -0.776 2.884 -0.455 5.557 32.282 -2.202 0.256 2.718 9.902 0.810 32.748 1 AA_DC101DG102:DC213DG214_BB A 101 ? B 214 ? A 102 ? B 213 ? 1 A DG 2 1_555 B DC 13 1_555 A DC 3 1_555 B DG 12 1_555 -0.146 -0.589 3.318 0.564 4.136 37.538 -1.446 0.299 3.235 6.402 -0.874 37.761 2 AA_DG102DC103:DG212DC213_BB A 102 ? B 213 ? A 103 ? B 212 ? 1 A DC 3 1_555 B DG 12 1_555 A DG 4 1_555 B DC 11 1_555 -0.415 -0.731 3.229 -2.743 14.571 32.340 -3.226 0.300 2.689 24.612 4.632 35.494 3 AA_DC103DG104:DC211DG212_BB A 103 ? B 212 ? A 104 ? B 211 ? 1 A DG 4 1_555 B DC 11 1_555 A DA 5 1_555 B DT 10 1_555 -0.410 -0.451 3.005 -6.877 4.374 38.802 -1.138 -0.138 2.966 6.497 10.215 39.616 4 AA_DG104DA105:DT210DC211_BB A 104 ? B 211 ? A 105 ? B 210 ? 1 A DT 7 1_555 B DA 8 1_555 A DA 8 1_555 B DT 7 1_555 -0.335 -0.569 3.473 0.270 16.517 41.820 -2.300 0.465 3.049 22.130 -0.362 44.828 5 AA_DT107DA108:DT207DA208_BB A 107 ? B 208 ? A 108 ? B 207 ? 1 A DA 8 1_555 B DT 7 1_555 A DT 10 1_555 B DA 5 1_555 -0.937 0.443 5.963 3.216 7.500 58.509 -0.251 1.252 5.920 7.633 -3.273 59.026 6 AA_DA108DT110:DA205DT207_BB A 108 ? B 207 ? A 110 ? B 205 ? 1 A DT 10 1_555 B DA 5 1_555 A DC 11 1_555 B DG 4 1_555 0.980 -0.598 3.593 -0.803 9.578 40.991 -1.902 -1.456 3.358 13.455 1.128 42.055 7 AA_DT110DC111:DG204DA205_BB A 110 ? B 205 ? A 111 ? B 204 ? 1 A DC 11 1_555 B DG 4 1_555 A DG 12 1_555 B DC 3 1_555 0.165 -0.739 3.067 0.787 13.264 34.833 -2.748 -0.165 2.625 21.226 -1.260 37.208 8 AA_DC111DG112:DC203DG204_BB A 111 ? B 204 ? A 112 ? B 203 ? 1 A DG 12 1_555 B DC 3 1_555 A DC 13 1_555 B DG 2 1_555 -0.156 -0.719 3.248 0.107 3.371 36.345 -1.607 0.263 3.171 5.389 -0.171 36.496 9 AA_DG112DC113:DG202DC203_BB A 112 ? B 203 ? A 113 ? B 202 ? 1 A DC 13 1_555 B DG 2 1_555 A DG 14 1_555 B DC 1 1_555 -0.265 -0.951 3.479 4.232 -6.524 35.798 -0.541 1.053 3.539 -10.461 -6.786 36.606 10 AA_DC113DG114:DC201DG202_BB A 113 ? B 202 ? A 114 ? B 201 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Institutes of Health/National Cancer Institute (NIH/NCI)' 'United States' R01CA208834 1 'Howard Hughes Medical Institute (HHMI)' 'United States' 55108516 2 # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model 'AVANCE II' _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 700 _pdbx_nmr_spectrometer.details cryoprobe # _atom_sites.entry_id 9OSO _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C F H N O P S # loop_ #