data_2OOM # _entry.id 2OOM # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 2OOM pdb_00002oom 10.2210/pdb2oom/pdb RCSB RCSB041394 ? ? WWPDB D_1000041394 ? ? # 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 2008-01-29 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-03-16 4 'Structure model' 1 3 2023-12-27 # _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' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 4 '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 3 'Structure model' database_2 2 3 'Structure model' pdbx_nmr_spectrometer 3 3 'Structure model' pdbx_struct_assembly 4 3 'Structure model' pdbx_struct_oper_list 5 3 'Structure model' struct_conn 6 3 'Structure model' struct_ref_seq 7 4 'Structure model' chem_comp_atom 8 4 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_nmr_spectrometer.model' 4 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 3 'Structure model' '_struct_ref_seq.db_align_beg' 6 3 'Structure model' '_struct_ref_seq.db_align_end' # _pdbx_database_status.entry_id 2OOM _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-01-26 _pdbx_database_status.SG_entry N _pdbx_database_status.status_code_sf ? _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 ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Lebars, I.' 1 'Richard, T.' 2 'Di Primo, C.' 3 'Toulme, J.J.' 4 # _citation.id primary _citation.title 'NMR structure of a kissing complex formed between the TAR RNA element of HIV-1 and a LNA-modified aptamer' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 35 _citation.page_first 6103 _citation.page_last 6114 _citation.year 2007 _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 17768146 _citation.pdbx_database_id_DOI 10.1093/nar/gkm655 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Lebars, I.' 1 ? primary 'Richard, T.' 2 ? primary 'Di Primo, C.' 3 ? primary 'Toulme, J.J.' 4 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn 'RNA 16-mer' 5168.134 1 ? ? ? ? 2 polymer syn 'TAR RNA element of HIV-1' 5136.132 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no GGAGCCUGGGAGCUCC GGAGCCUGGGAGCUCC A ? 2 polyribonucleotide no yes 'CACGGUCC(10C)(LCA)GACGUG' CACGGUCCCAGACGUG B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 A n 1 4 G n 1 5 C n 1 6 C n 1 7 U n 1 8 G n 1 9 G n 1 10 G n 1 11 A n 1 12 G n 1 13 C n 1 14 U n 1 15 C n 1 16 C n 2 1 C n 2 2 A n 2 3 C n 2 4 G n 2 5 G n 2 6 U n 2 7 C n 2 8 C n 2 9 10C n 2 10 LCA n 2 11 G n 2 12 A n 2 13 C n 2 14 G n 2 15 U n 2 16 G n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? ? ? ? 'prepared by in vitro transcription with T7 RNA polymerase' 2 1 sample ? ? ? ? ? 'purchased from Eurogentec' # 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 10C 'RNA linking' n '4-AMINO-1-{2,5-ANHYDRO-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-LYXOFURANOSYL}PYRIMIDIN-2(1H)-ONE' ? 'C10 H14 N3 O8 P' 335.207 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 LCA 'RNA linking' n '[(1R,3R,4R,7S)-7-HYDROXY-3-(ADENIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H14 N5 O7 P' 359.232 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # 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 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 A 3 3 3 A A A . n A 1 4 G 4 4 4 G G A . n A 1 5 C 5 5 5 C C A . n A 1 6 C 6 6 6 C C A . n A 1 7 U 7 7 7 U U A . n A 1 8 G 8 8 8 G G A . n A 1 9 G 9 9 9 G G A . n A 1 10 G 10 10 10 G G A . n A 1 11 A 11 11 11 A A A . n A 1 12 G 12 12 12 G G A . n A 1 13 C 13 13 13 C C A . n A 1 14 U 14 14 14 U U A . n A 1 15 C 15 15 15 C C A . n A 1 16 C 16 16 16 C C A . n B 2 1 C 1 17 17 C C B . n B 2 2 A 2 18 18 A A B . n B 2 3 C 3 19 19 C C B . n B 2 4 G 4 20 20 G G B . n B 2 5 G 5 21 21 G G B . n B 2 6 U 6 22 22 U U B . n B 2 7 C 7 23 23 C C B . n B 2 8 C 8 24 24 C C B . n B 2 9 10C 9 25 25 10C 10C B . n B 2 10 LCA 10 26 26 LCA LCA B . n B 2 11 G 11 27 27 G G B . n B 2 12 A 12 28 28 A A B . n B 2 13 C 13 29 29 C C B . n B 2 14 G 14 30 30 G G B . n B 2 15 U 15 31 31 U U B . n B 2 16 G 16 32 32 G G B . n # _exptl.entry_id 2OOM _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 2OOM _struct.title 'NMR structure of a kissing complex formed between the TAR RNA element of HIV-1 and a LNA/RNA aptamer' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2OOM _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'LNA; Locked Nucleic Acid; NMR; Aptamer; TAR; HIV-1, RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # loop_ _struct_ref.id _struct_ref.db_code _struct_ref.db_name _struct_ref.entity_id _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 2OOM PDB 1 2OOM 1 ? ? 2 2OOM PDB 2 2OOM 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 2OOM A 1 ? 16 ? 2OOM 1 ? 16 ? 1 16 2 2 2OOM B 1 ? 16 ? 2OOM 17 ? 32 ? 17 32 # _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 covale1 covale both ? B C 8 "O3'" ? ? ? 1_555 B 10C 9 P ? ? B C 24 B 10C 25 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale2 covale both ? B 10C 9 "O3'" ? ? ? 1_555 B LCA 10 P ? ? B 10C 25 B LCA 26 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale3 covale one ? B LCA 10 "O3'" ? ? ? 1_555 B G 11 P ? ? B LCA 26 B G 27 1_555 ? ? ? ? ? ? ? 1.609 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 16 N3 ? ? A G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 16 O2 ? ? A G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 16 N4 ? ? A G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 15 N3 ? ? A G 2 A C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 15 O2 ? ? A G 2 A C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 15 N4 ? ? A G 2 A C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 A U 14 N3 ? ? A A 3 A U 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 A U 14 O4 ? ? A A 3 A U 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 13 N3 ? ? A G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 13 O2 ? ? A G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 13 N4 ? ? A G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 5 N3 ? ? ? 1_555 A G 12 N1 ? ? A C 5 A G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 N4 ? ? ? 1_555 A G 12 O6 ? ? A C 5 A G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 5 O2 ? ? ? 1_555 A G 12 N2 ? ? A C 5 A G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 6 B G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 6 B G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 6 B G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 8 N1 ? ? ? 1_555 B 10C 9 N3 ? ? A G 8 B 10C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 8 N2 ? ? ? 1_555 B 10C 9 O2 ? ? A G 8 B 10C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 8 O6 ? ? ? 1_555 B 10C 9 N4 ? ? A G 8 B 10C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 9 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 9 B C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 9 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 9 B C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 9 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 9 B C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 10 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 10 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 10 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 10 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 10 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 10 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? B C 1 N3 ? ? ? 1_555 B G 16 N1 ? ? B C 17 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? B C 1 N4 ? ? ? 1_555 B G 16 O6 ? ? B C 17 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B C 1 O2 ? ? ? 1_555 B G 16 N2 ? ? B C 17 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B A 2 N1 ? ? ? 1_555 B U 15 N3 ? ? B A 18 B U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B A 2 N6 ? ? ? 1_555 B U 15 O4 ? ? B A 18 B U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B C 3 N3 ? ? ? 1_555 B G 14 N1 ? ? B C 19 B G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B C 3 N4 ? ? ? 1_555 B G 14 O6 ? ? B C 19 B G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B C 3 O2 ? ? ? 1_555 B G 14 N2 ? ? B C 19 B G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B G 4 N1 ? ? ? 1_555 B C 13 N3 ? ? B G 20 B C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B G 4 N2 ? ? ? 1_555 B C 13 O2 ? ? B G 20 B C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B G 4 O6 ? ? ? 1_555 B C 13 N4 ? ? B G 20 B C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B G 5 N1 ? ? ? 1_555 B A 12 N1 ? ? B G 21 B A 28 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog39 hydrog ? ? B G 5 O6 ? ? ? 1_555 B A 12 N6 ? ? B G 21 B A 28 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # 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 N1 A A 3 ? ? H3 A U 14 ? ? 1.51 2 1 H3 A U 7 ? ? N1 B LCA 26 ? ? 1.55 3 1 H21 A G 8 ? ? O2 B 10C 25 ? ? 1.57 4 1 H21 A G 9 ? ? O2 B C 24 ? ? 1.57 5 1 H21 A G 4 ? ? O2 A C 13 ? ? 1.58 6 1 H21 A G 10 ? ? O2 B C 23 ? ? 1.58 7 1 O2 B C 19 ? ? H21 B G 30 ? ? 1.58 8 1 O2 B C 17 ? ? H21 B G 32 ? ? 1.58 9 1 H21 A G 2 ? ? O2 A C 15 ? ? 1.59 10 1 H21 A G 1 ? ? O2 A C 16 ? ? 1.60 11 2 O4 A U 7 ? ? H61 B LCA 26 ? ? 1.46 12 2 H61 A A 3 ? ? O4 A U 14 ? ? 1.49 13 2 N1 A A 3 ? ? H3 A U 14 ? ? 1.55 14 2 O2 B C 17 ? ? H21 B G 32 ? ? 1.57 15 2 O2 A C 5 ? ? H21 A G 12 ? ? 1.58 16 2 H21 A G 9 ? ? O2 B C 24 ? ? 1.58 17 2 H21 A G 8 ? ? O2 B 10C 25 ? ? 1.58 18 2 H21 A G 4 ? ? O2 A C 13 ? ? 1.59 19 3 H61 A A 3 ? ? O4 A U 14 ? ? 1.50 20 3 O2 B C 19 ? ? H21 B G 30 ? ? 1.57 21 3 H21 A G 9 ? ? O2 B C 24 ? ? 1.57 22 3 H21 A G 4 ? ? O2 A C 13 ? ? 1.57 23 3 O2 B C 17 ? ? H21 B G 32 ? ? 1.58 24 3 N1 A A 3 ? ? H3 A U 14 ? ? 1.58 25 3 H21 A G 10 ? ? O2 B C 23 ? ? 1.58 26 4 N1 A A 3 ? ? H3 A U 14 ? ? 1.50 27 4 O4 A U 7 ? ? H61 B LCA 26 ? ? 1.54 28 4 H61 A A 3 ? ? O4 A U 14 ? ? 1.55 29 4 H21 A G 8 ? ? O2 B 10C 25 ? ? 1.57 30 4 O2 A C 5 ? ? H21 A G 12 ? ? 1.58 31 4 O2 B C 17 ? ? H21 B G 32 ? ? 1.58 32 4 O2 B C 19 ? ? H21 B G 30 ? ? 1.59 33 4 H21 A G 9 ? ? O2 B C 24 ? ? 1.59 34 4 H21 A G 4 ? ? O2 A C 13 ? ? 1.60 35 4 H21 A G 1 ? ? O2 A C 16 ? ? 1.60 36 5 N1 A A 3 ? ? H3 A U 14 ? ? 1.49 37 5 H21 A G 10 ? ? O2 B C 23 ? ? 1.57 38 5 H61 A A 3 ? ? O4 A U 14 ? ? 1.58 39 5 H21 A G 4 ? ? O2 A C 13 ? ? 1.58 40 5 O2 B C 19 ? ? H21 B G 30 ? ? 1.59 41 5 H21 A G 8 ? ? O2 B 10C 25 ? ? 1.59 42 5 H21 A G 9 ? ? O2 B C 24 ? ? 1.59 43 5 H21 A G 1 ? ? O2 A C 16 ? ? 1.60 44 6 H61 A A 3 ? ? O4 A U 14 ? ? 1.50 45 6 N1 A A 3 ? ? H3 A U 14 ? ? 1.53 46 6 O4 A U 7 ? ? H61 B LCA 26 ? ? 1.56 47 6 O2 A C 5 ? ? H21 A G 12 ? ? 1.57 48 6 O2 B C 17 ? ? H21 B G 32 ? ? 1.57 49 6 N1 B A 18 ? ? H3 B U 31 ? ? 1.58 50 6 O2 B C 19 ? ? H21 B G 30 ? ? 1.58 51 6 H21 A G 2 ? ? O2 A C 15 ? ? 1.58 52 6 H21 A G 1 ? ? O2 A C 16 ? ? 1.59 53 7 N1 A A 3 ? ? H3 A U 14 ? ? 1.48 54 7 H21 A G 1 ? ? O2 A C 16 ? ? 1.56 55 7 H21 A G 9 ? ? O2 B C 24 ? ? 1.57 56 7 O2 B C 17 ? ? H21 B G 32 ? ? 1.57 57 7 H21 A G 8 ? ? O2 B 10C 25 ? ? 1.57 58 7 O2 B C 19 ? ? H21 B G 30 ? ? 1.57 59 7 H21 A G 2 ? ? O2 A C 15 ? ? 1.58 60 7 H21 A G 4 ? ? O2 A C 13 ? ? 1.58 61 7 O2 A C 6 ? ? H21 B G 27 ? ? 1.58 62 7 N1 B A 18 ? ? H3 B U 31 ? ? 1.60 63 8 H61 A A 3 ? ? O4 A U 14 ? ? 1.49 64 8 N1 A A 3 ? ? H3 A U 14 ? ? 1.53 65 8 N1 B A 18 ? ? H3 B U 31 ? ? 1.57 66 8 H21 A G 9 ? ? O2 B C 24 ? ? 1.57 67 8 O2 B C 19 ? ? H21 B G 30 ? ? 1.57 68 8 H21 B G 20 ? ? O2 B C 29 ? ? 1.58 69 8 O2 B C 17 ? ? H21 B G 32 ? ? 1.58 70 8 O2 A C 5 ? ? H21 A G 12 ? ? 1.58 71 9 H61 B A 18 ? ? O4 B U 31 ? ? 1.41 72 9 N1 A A 3 ? ? H3 A U 14 ? ? 1.48 73 9 O4 A U 7 ? ? H61 B LCA 26 ? ? 1.52 74 9 H61 A A 3 ? ? O4 A U 14 ? ? 1.57 75 9 H21 A G 8 ? ? O2 B 10C 25 ? ? 1.58 76 9 H21 A G 4 ? ? O2 A C 13 ? ? 1.59 77 10 O4 A U 7 ? ? H61 B LCA 26 ? ? 1.51 78 10 N1 A A 3 ? ? H3 A U 14 ? ? 1.53 79 10 H61 A A 3 ? ? O4 A U 14 ? ? 1.56 80 10 O2 B C 17 ? ? H21 B G 32 ? ? 1.57 81 10 H21 A G 2 ? ? O2 A C 15 ? ? 1.58 82 10 H21 A G 9 ? ? O2 B C 24 ? ? 1.58 83 10 H21 A G 1 ? ? O2 A C 16 ? ? 1.58 84 10 H21 A G 4 ? ? O2 A C 13 ? ? 1.60 85 11 H61 A A 3 ? ? O4 A U 14 ? ? 1.57 # 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 "C5'" A C 15 ? ? "C4'" A C 15 ? ? "O4'" A C 15 ? ? 101.63 109.10 -7.47 1.20 N 2 6 "C5'" A C 15 ? ? "C4'" A C 15 ? ? "O4'" A C 15 ? ? 101.66 109.10 -7.44 1.20 N 3 10 "C5'" A C 15 ? ? "C4'" A C 15 ? ? "O4'" A C 15 ? ? 101.71 109.10 -7.39 1.20 N # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 B 10C 9 B 10C 25 ? C ? 2 B LCA 10 B LCA 26 ? A ? # _pdbx_nmr_ensemble.entry_id 2OOM _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 12 _pdbx_nmr_ensemble.conformer_selection_criteria 'The submitted structures are the 12 structures with zero violation on NOE distance, dihedral and with the lowest energy.' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 2OOM _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 1 '1 mM unlabeled TAR; 10mM phosphate buffer pH 6.4' '90% H2O/10% D2O' 2 '1 mM unlabeled aptamer; 10mM phosphate buffer pH 6.4' '90% H2O/10% D2O' 3 '1 mM unlabeled TAR/aptamer complex; 10mM phosphate buffer pH 6.4' '90% H2O/10% D2O' 4 '1 mM unlabeled TAR/aptamer complex; 10mM phosphate buffer pH 6.4' '100% D2O' 5 '1 mM 15N,13C TAR/unlabeled,aptamer complex; 10mM phosphate buffer pH 6.4' '90% H2O/10% D2O' 6 '1 mM 15N,13C TAR/unlabeled,aptamer complex; 10mM phosphate' '100% D2O' # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature_units 1 288 ambient 6.4 ? . K 2 277 ambient 6.4 ? . K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 4 1 '2D NOESY' 2 4 1 '2D TOCSY' 3 4 1 DQF-COSY 4 6 1 HMQC 5 6 1 '3D HMQC-NOESY' 6 6 1 '3D HCCH-TOCSY' 7 4 1 '3D NOESY-NOESY' 8 3 1 NOESY 9 5 1 HSQC 10 3 2 '2D NOESY' # _pdbx_nmr_details.entry_id 2OOM _pdbx_nmr_details.text 'The structure was determined using standard homonuclear and heteronuclear methods' # _pdbx_nmr_software.name CNS _pdbx_nmr_software.version 1.1 _pdbx_nmr_software.classification refinement _pdbx_nmr_software.authors 'Brunger A. T. etall' _pdbx_nmr_software.ordinal 1 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal 10C "O5'" O N N 1 10C "C5'" C N N 2 10C "C4'" C N R 3 10C "O4'" O N N 4 10C "C1'" C N R 5 10C N1 N N N 6 10C C6 C N N 7 10C C5 C N N 8 10C C4 C N N 9 10C N4 N N N 10 10C N3 N N N 11 10C C2 C N N 12 10C O2 O N N 13 10C "C3'" C N S 14 10C "C2'" C N R 15 10C "O2'" O N N 16 10C "O3'" O N N 17 10C "C6'" C N N 18 10C O3P O N N 19 10C P P N N 20 10C O1P O N N 21 10C O2P O N N 22 10C HOP1 H N N 23 10C HOP2 H N N 24 10C "H5'1" H N N 25 10C "H5'2" H N N 26 10C "H1'" H N N 27 10C H6 H N N 28 10C H5 H N N 29 10C "H3'" H N N 30 10C "H6'1" H N N 31 10C "H6'2" H N N 32 10C H41 H N N 33 10C H42 H N N 34 10C "H2'1" H N N 35 10C H3T H N N 36 A OP3 O N N 37 A P P N N 38 A OP1 O N N 39 A OP2 O N N 40 A "O5'" O N N 41 A "C5'" C N N 42 A "C4'" C N R 43 A "O4'" O N N 44 A "C3'" C N S 45 A "O3'" O N N 46 A "C2'" C N R 47 A "O2'" O N N 48 A "C1'" C N R 49 A N9 N Y N 50 A C8 C Y N 51 A N7 N Y N 52 A C5 C Y N 53 A C6 C Y N 54 A N6 N N N 55 A N1 N Y N 56 A C2 C Y N 57 A N3 N Y N 58 A C4 C Y N 59 A HOP3 H N N 60 A HOP2 H N N 61 A "H5'" H N N 62 A "H5''" H N N 63 A "H4'" H N N 64 A "H3'" H N N 65 A "HO3'" H N N 66 A "H2'" H N N 67 A "HO2'" H N N 68 A "H1'" H N N 69 A H8 H N N 70 A H61 H N N 71 A H62 H N N 72 A H2 H N N 73 C OP3 O N N 74 C P P N N 75 C OP1 O N N 76 C OP2 O N N 77 C "O5'" O N N 78 C "C5'" C N N 79 C "C4'" C N R 80 C "O4'" O N N 81 C "C3'" C N S 82 C "O3'" O N N 83 C "C2'" C N R 84 C "O2'" O N N 85 C "C1'" C N R 86 C N1 N N N 87 C C2 C N N 88 C O2 O N N 89 C N3 N N N 90 C C4 C N N 91 C N4 N N N 92 C C5 C N N 93 C C6 C N N 94 C HOP3 H N N 95 C HOP2 H N N 96 C "H5'" H N N 97 C "H5''" H N N 98 C "H4'" H N N 99 C "H3'" H N N 100 C "HO3'" H N N 101 C "H2'" H N N 102 C "HO2'" H N N 103 C "H1'" H N N 104 C H41 H N N 105 C H42 H N N 106 C H5 H N N 107 C H6 H N N 108 G OP3 O N N 109 G P P N N 110 G OP1 O N N 111 G OP2 O N N 112 G "O5'" O N N 113 G "C5'" C N N 114 G "C4'" C N R 115 G "O4'" O N N 116 G "C3'" C N S 117 G "O3'" O N N 118 G "C2'" C N R 119 G "O2'" O N N 120 G "C1'" C N R 121 G N9 N Y N 122 G C8 C Y N 123 G N7 N Y N 124 G C5 C Y N 125 G C6 C N N 126 G O6 O N N 127 G N1 N N N 128 G C2 C N N 129 G N2 N N N 130 G N3 N N N 131 G C4 C Y N 132 G HOP3 H N N 133 G HOP2 H N N 134 G "H5'" H N N 135 G "H5''" H N N 136 G "H4'" H N N 137 G "H3'" H N N 138 G "HO3'" H N N 139 G "H2'" H N N 140 G "HO2'" H N N 141 G "H1'" H N N 142 G H8 H N N 143 G H1 H N N 144 G H21 H N N 145 G H22 H N N 146 LCA P P N N 147 LCA O1P O N N 148 LCA "O5'" O N N 149 LCA "C5'" C N N 150 LCA "C3'" C N S 151 LCA "C6'" C N N 152 LCA N9 N Y N 153 LCA C8 C Y N 154 LCA C4 C Y N 155 LCA N7 N Y N 156 LCA C5 C Y N 157 LCA C6 C Y N 158 LCA "C2'" C N R 159 LCA N6 N N N 160 LCA "C4'" C N R 161 LCA "C1'" C N R 162 LCA C2 C Y N 163 LCA N1 N Y N 164 LCA "O4'" O N N 165 LCA O2P O N N 166 LCA N3 N Y N 167 LCA "O3'" O N N 168 LCA OXT O N N 169 LCA "O2'" O N N 170 LCA H1P H N N 171 LCA "H5'1" H N N 172 LCA "H5'2" H N N 173 LCA "H3'" H N N 174 LCA "H6'1" H N N 175 LCA "H6'2" H N N 176 LCA H8 H N N 177 LCA "H2'1" H N N 178 LCA H61 H N N 179 LCA H62 H N N 180 LCA "H1'" H N N 181 LCA H2 H N N 182 LCA HB H N N 183 LCA HA H N N 184 U OP3 O N N 185 U P P N N 186 U OP1 O N N 187 U OP2 O N N 188 U "O5'" O N N 189 U "C5'" C N N 190 U "C4'" C N R 191 U "O4'" O N N 192 U "C3'" C N S 193 U "O3'" O N N 194 U "C2'" C N R 195 U "O2'" O N N 196 U "C1'" C N R 197 U N1 N N N 198 U C2 C N N 199 U O2 O N N 200 U N3 N N N 201 U C4 C N N 202 U O4 O N N 203 U C5 C N N 204 U C6 C N N 205 U HOP3 H N N 206 U HOP2 H N N 207 U "H5'" H N N 208 U "H5''" H N N 209 U "H4'" H N N 210 U "H3'" H N N 211 U "HO3'" H N N 212 U "H2'" H N N 213 U "HO2'" H N N 214 U "H1'" H N N 215 U H3 H N N 216 U H5 H N N 217 U H6 H N N 218 # 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 10C "O5'" P sing N N 1 10C "O5'" "C5'" sing N N 2 10C "C5'" "H5'1" sing N N 3 10C "C5'" "H5'2" sing N N 4 10C "C5'" "C4'" sing N N 5 10C "C4'" "O4'" sing N N 6 10C "C4'" "C6'" sing N N 7 10C "C4'" "C3'" sing N N 8 10C "O4'" "C1'" sing N N 9 10C "C1'" "H1'" sing N N 10 10C "C1'" N1 sing N N 11 10C "C1'" "C2'" sing N N 12 10C N1 C6 sing N N 13 10C N1 C2 sing N N 14 10C C6 H6 sing N N 15 10C C6 C5 doub N N 16 10C C5 H5 sing N N 17 10C C5 C4 sing N N 18 10C C4 N4 sing N N 19 10C C4 N3 doub N N 20 10C N4 H41 sing N N 21 10C N4 H42 sing N N 22 10C N3 C2 sing N N 23 10C C2 O2 doub N N 24 10C "C3'" "H3'" sing N N 25 10C "C3'" "O3'" sing N N 26 10C "C3'" "C2'" sing N N 27 10C "C2'" "O2'" sing N N 28 10C "C2'" "H2'1" sing N N 29 10C "O2'" "C6'" sing N N 30 10C "O3'" H3T sing N N 31 10C "C6'" "H6'1" sing N N 32 10C "C6'" "H6'2" sing N N 33 10C O3P P doub N N 34 10C P O1P sing N N 35 10C P O2P sing N N 36 10C O1P HOP1 sing N N 37 10C O2P HOP2 sing N N 38 A OP3 P sing N N 39 A OP3 HOP3 sing N N 40 A P OP1 doub N N 41 A P OP2 sing N N 42 A P "O5'" sing N N 43 A OP2 HOP2 sing N N 44 A "O5'" "C5'" sing N N 45 A "C5'" "C4'" sing N N 46 A "C5'" "H5'" sing N N 47 A "C5'" "H5''" sing N N 48 A "C4'" "O4'" sing N N 49 A "C4'" "C3'" sing N N 50 A "C4'" "H4'" sing N N 51 A "O4'" "C1'" sing N N 52 A "C3'" "O3'" sing N N 53 A "C3'" "C2'" sing N N 54 A "C3'" "H3'" sing N N 55 A "O3'" "HO3'" sing N N 56 A "C2'" "O2'" sing N N 57 A "C2'" "C1'" sing N N 58 A "C2'" "H2'" sing N N 59 A "O2'" "HO2'" sing N N 60 A "C1'" N9 sing N N 61 A "C1'" "H1'" sing N N 62 A N9 C8 sing Y N 63 A N9 C4 sing Y N 64 A C8 N7 doub Y N 65 A C8 H8 sing N N 66 A N7 C5 sing Y N 67 A C5 C6 sing Y N 68 A C5 C4 doub Y N 69 A C6 N6 sing N N 70 A C6 N1 doub Y N 71 A N6 H61 sing N N 72 A N6 H62 sing N N 73 A N1 C2 sing Y N 74 A C2 N3 doub Y N 75 A C2 H2 sing N N 76 A N3 C4 sing Y N 77 C OP3 P sing N N 78 C OP3 HOP3 sing N N 79 C P OP1 doub N N 80 C P OP2 sing N N 81 C P "O5'" sing N N 82 C OP2 HOP2 sing N N 83 C "O5'" "C5'" sing N N 84 C "C5'" "C4'" sing N N 85 C "C5'" "H5'" sing N N 86 C "C5'" "H5''" sing N N 87 C "C4'" "O4'" sing N N 88 C "C4'" "C3'" sing N N 89 C "C4'" "H4'" sing N N 90 C "O4'" "C1'" sing N N 91 C "C3'" "O3'" sing N N 92 C "C3'" "C2'" sing N N 93 C "C3'" "H3'" sing N N 94 C "O3'" "HO3'" sing N N 95 C "C2'" "O2'" sing N N 96 C "C2'" "C1'" sing N N 97 C "C2'" "H2'" sing N N 98 C "O2'" "HO2'" sing N N 99 C "C1'" N1 sing N N 100 C "C1'" "H1'" sing N N 101 C N1 C2 sing N N 102 C N1 C6 sing N N 103 C C2 O2 doub N N 104 C C2 N3 sing N N 105 C N3 C4 doub N N 106 C C4 N4 sing N N 107 C C4 C5 sing N N 108 C N4 H41 sing N N 109 C N4 H42 sing N N 110 C C5 C6 doub N N 111 C C5 H5 sing N N 112 C C6 H6 sing N N 113 G OP3 P sing N N 114 G OP3 HOP3 sing N N 115 G P OP1 doub N N 116 G P OP2 sing N N 117 G P "O5'" sing N N 118 G OP2 HOP2 sing N N 119 G "O5'" "C5'" sing N N 120 G "C5'" "C4'" sing N N 121 G "C5'" "H5'" sing N N 122 G "C5'" "H5''" sing N N 123 G "C4'" "O4'" sing N N 124 G "C4'" "C3'" sing N N 125 G "C4'" "H4'" sing N N 126 G "O4'" "C1'" sing N N 127 G "C3'" "O3'" sing N N 128 G "C3'" "C2'" sing N N 129 G "C3'" "H3'" sing N N 130 G "O3'" "HO3'" sing N N 131 G "C2'" "O2'" sing N N 132 G "C2'" "C1'" sing N N 133 G "C2'" "H2'" sing N N 134 G "O2'" "HO2'" sing N N 135 G "C1'" N9 sing N N 136 G "C1'" "H1'" sing N N 137 G N9 C8 sing Y N 138 G N9 C4 sing Y N 139 G C8 N7 doub Y N 140 G C8 H8 sing N N 141 G N7 C5 sing Y N 142 G C5 C6 sing N N 143 G C5 C4 doub Y N 144 G C6 O6 doub N N 145 G C6 N1 sing N N 146 G N1 C2 sing N N 147 G N1 H1 sing N N 148 G C2 N2 sing N N 149 G C2 N3 doub N N 150 G N2 H21 sing N N 151 G N2 H22 sing N N 152 G N3 C4 sing N N 153 LCA P O1P sing N N 154 LCA P "O5'" sing N N 155 LCA P O2P doub N N 156 LCA P OXT sing N N 157 LCA O1P H1P sing N N 158 LCA "O5'" "C5'" sing N N 159 LCA "C5'" "C4'" sing N N 160 LCA "C5'" "H5'1" sing N N 161 LCA "C5'" "H5'2" sing N N 162 LCA "C3'" "C2'" sing N N 163 LCA "C3'" "C4'" sing N N 164 LCA "C3'" "O3'" sing N N 165 LCA "C3'" "H3'" sing N N 166 LCA "C6'" "C4'" sing N N 167 LCA "C6'" "O2'" sing N N 168 LCA "C6'" "H6'1" sing N N 169 LCA "C6'" "H6'2" sing N N 170 LCA N9 C8 sing Y N 171 LCA N9 C4 sing Y N 172 LCA N9 "C1'" sing N N 173 LCA C8 N7 doub Y N 174 LCA C8 H8 sing N N 175 LCA C4 C5 doub Y N 176 LCA C4 N3 sing Y N 177 LCA N7 C5 sing Y N 178 LCA C5 C6 sing Y N 179 LCA C6 N6 sing N N 180 LCA C6 N1 doub Y N 181 LCA "C2'" "C1'" sing N N 182 LCA "C2'" "O2'" sing N N 183 LCA "C2'" "H2'1" sing N N 184 LCA N6 H61 sing N N 185 LCA N6 H62 sing N N 186 LCA "C4'" "O4'" sing N N 187 LCA "C1'" "O4'" sing N N 188 LCA "C1'" "H1'" sing N N 189 LCA C2 N1 sing Y N 190 LCA C2 N3 doub Y N 191 LCA C2 H2 sing N N 192 LCA "O3'" HB sing N N 193 LCA OXT HA sing N N 194 U OP3 P sing N N 195 U OP3 HOP3 sing N N 196 U P OP1 doub N N 197 U P OP2 sing N N 198 U P "O5'" sing N N 199 U OP2 HOP2 sing N N 200 U "O5'" "C5'" sing N N 201 U "C5'" "C4'" sing N N 202 U "C5'" "H5'" sing N N 203 U "C5'" "H5''" sing N N 204 U "C4'" "O4'" sing N N 205 U "C4'" "C3'" sing N N 206 U "C4'" "H4'" sing N N 207 U "O4'" "C1'" sing N N 208 U "C3'" "O3'" sing N N 209 U "C3'" "C2'" sing N N 210 U "C3'" "H3'" sing N N 211 U "O3'" "HO3'" sing N N 212 U "C2'" "O2'" sing N N 213 U "C2'" "C1'" sing N N 214 U "C2'" "H2'" sing N N 215 U "O2'" "HO2'" sing N N 216 U "C1'" N1 sing N N 217 U "C1'" "H1'" sing N N 218 U N1 C2 sing N N 219 U N1 C6 sing N N 220 U C2 O2 doub N N 221 U C2 N3 sing N N 222 U N3 C4 sing N N 223 U N3 H3 sing N N 224 U C4 O4 doub N N 225 U C4 C5 sing N N 226 U C5 C6 doub N N 227 U C5 H5 sing N N 228 U C6 H6 sing N N 229 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2OOM 'double helix' 2OOM 'a-form double helix' 2OOM 'mismatched base pair' # 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 G 1 1_555 A C 16 1_555 -1.124 -0.341 0.071 1.795 0.867 5.938 1 A_G1:C16_A A 1 ? A 16 ? 19 1 1 A G 2 1_555 A C 15 1_555 -0.917 -0.202 -0.123 -6.199 -3.755 6.241 2 A_G2:C15_A A 2 ? A 15 ? 19 1 1 A A 3 1_555 A U 14 1_555 0.105 -0.417 0.079 -0.354 -0.454 0.571 3 A_A3:U14_A A 3 ? A 14 ? 20 1 1 A G 4 1_555 A C 13 1_555 -0.662 -0.341 -0.011 2.039 -0.248 2.260 4 A_G4:C13_A A 4 ? A 13 ? 19 1 1 A C 5 1_555 A G 12 1_555 0.960 -0.393 -0.003 2.205 -0.624 3.409 5 A_C5:G12_A A 5 ? A 12 ? 19 1 1 B C 1 1_555 B G 16 1_555 0.833 -0.386 0.011 -1.371 0.616 2.707 6 B_C17:G32_B B 17 ? B 32 ? 19 1 1 B A 2 1_555 B U 15 1_555 -0.171 -0.270 0.019 1.033 -0.395 4.291 7 B_A18:U31_B B 18 ? B 31 ? 20 1 1 B C 3 1_555 B G 14 1_555 0.453 -0.319 -0.022 1.071 0.553 1.082 8 B_C19:G30_B B 19 ? B 30 ? 19 1 1 B G 4 1_555 B C 13 1_555 -0.565 -0.354 0.015 -0.869 -0.996 0.162 9 B_G20:C29_B B 20 ? B 29 ? 19 1 1 B G 5 1_555 B A 12 1_555 -0.394 1.844 -0.166 -13.525 -1.838 -31.384 10 B_G21:A28_B B 21 ? B 28 ? 8 ? 1 A C 6 1_555 B G 11 1_555 0.775 -0.394 -0.003 1.113 1.077 -5.476 11 A_C6:G27_B A 6 ? B 27 ? 19 1 1 A G 8 1_555 B 10C 9 1_555 -0.582 -0.210 0.035 0.083 -0.052 4.067 12 A_G8:10C25_B A 8 ? B 25 ? 19 1 1 A G 9 1_555 B C 8 1_555 -0.227 -0.211 0.038 3.328 0.241 2.327 13 A_G9:C24_B A 9 ? B 24 ? 19 1 1 A G 10 1_555 B C 7 1_555 -0.820 -0.254 -0.006 0.192 1.393 4.992 14 A_G10:C23_B A 10 ? B 23 ? 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 G 1 1_555 A C 16 1_555 A G 2 1_555 A C 15 1_555 0.345 0.093 4.128 0.442 20.342 33.889 -2.955 -0.445 3.622 31.614 -0.687 39.374 1 AA_G1G2:C15C16_AA A 1 ? A 16 ? A 2 ? A 15 ? 1 A G 2 1_555 A C 15 1_555 A A 3 1_555 A U 14 1_555 -1.026 1.013 3.807 -2.836 11.615 33.714 -0.414 1.168 4.000 19.288 4.710 35.714 2 AA_G2A3:U14C15_AA A 2 ? A 15 ? A 3 ? A 14 ? 1 A A 3 1_555 A U 14 1_555 A G 4 1_555 A C 13 1_555 -0.065 -0.232 3.656 -3.258 29.815 21.028 -4.939 -0.396 1.950 55.408 6.055 36.490 3 AA_A3G4:C13U14_AA A 3 ? A 14 ? A 4 ? A 13 ? 1 A G 4 1_555 A C 13 1_555 A C 5 1_555 A G 12 1_555 0.192 -0.589 3.607 -2.757 25.789 39.507 -3.009 -0.484 2.738 34.074 3.643 46.973 4 AA_G4C5:G12C13_AA A 4 ? A 13 ? A 5 ? A 12 ? 1 B C 1 1_555 B G 16 1_555 B A 2 1_555 B U 15 1_555 0.834 -1.129 3.257 -0.475 20.073 24.174 -5.420 -1.622 1.800 40.203 0.952 31.329 5 BB_C17A18:U31G32_BB B 17 ? B 32 ? B 18 ? B 31 ? 1 B A 2 1_555 B U 15 1_555 B C 3 1_555 B G 14 1_555 -0.954 -0.850 4.646 -3.548 -5.040 32.956 -0.267 0.805 4.793 -8.789 6.187 33.511 6 BB_A18C19:G30U31_BB B 18 ? B 31 ? B 19 ? B 30 ? 1 B C 3 1_555 B G 14 1_555 B G 4 1_555 B C 13 1_555 0.836 -0.760 3.337 2.672 31.132 35.692 -3.421 -0.834 2.120 42.224 -3.624 47.099 7 BB_C19G20:C29G30_BB B 19 ? B 30 ? B 20 ? B 29 ? 1 B G 4 1_555 B C 13 1_555 B G 5 1_555 B A 12 1_555 -0.580 -2.251 4.070 6.541 23.661 10.345 -9.773 2.610 -0.544 65.052 -17.985 26.608 8 BB_G20G21:A28C29_BB B 20 ? B 29 ? B 21 ? B 28 ? 1 B G 5 1_555 B A 12 1_555 A C 6 1_555 B G 11 1_555 -0.133 -0.516 4.934 5.122 -27.608 53.447 1.640 0.533 4.654 -28.590 -5.304 59.890 9 BA_G21C6:G27A28_BB B 21 ? B 28 ? A 6 ? B 27 ? 1 A G 8 1_555 B 10C 9 1_555 A G 9 1_555 B C 8 1_555 -0.110 -0.219 3.532 -1.677 21.466 22.024 -4.907 -0.143 2.403 44.733 3.495 30.707 10 AA_G8G9:C2410C25_BB A 8 ? B 25 ? A 9 ? B 24 ? 1 A G 9 1_555 B C 8 1_555 A G 10 1_555 B C 7 1_555 0.179 -0.731 3.741 -0.602 30.144 32.239 -4.075 -0.301 2.289 44.123 0.881 43.866 11 AA_G9G10:C23C24_BB A 9 ? B 24 ? A 10 ? B 23 ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model AVANCE _pdbx_nmr_spectrometer.field_strength 500 # _atom_sites.entry_id 2OOM _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_