data_9KAD # _entry.id 9KAD # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.399 _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 9KAD pdb_00009kad 10.2210/pdb9kad/pdb WWPDB D_1300053154 ? ? BMRB 36700 ? 10.13018/BMR36700 # 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 2025-01-22 2 'Structure model' 1 1 2025-01-29 3 'Structure model' 1 2 2025-02-12 # _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' 'Database references' 2 3 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation # 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.pdbx_database_id_PubMed' 2 2 'Structure model' '_citation.title' 3 3 'Structure model' '_citation.journal_volume' 4 3 'Structure model' '_citation.page_first' 5 3 'Structure model' '_citation.page_last' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr . _pdbx_database_status.entry_id 9KAD _pdbx_database_status.recvd_initial_deposition_date 2024-10-28 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _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 Y # _pdbx_database_related.db_name BMRB _pdbx_database_related.details 'Solution NMR structure of an RNA duplex containing pure CAG repeats' _pdbx_database_related.db_id 36700 _pdbx_database_related.content_type unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email guopei@ibmc.ac.cn _pdbx_contact_author.name_first Pei _pdbx_contact_author.name_last Guo _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0001-7760-5786 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Guo, P.' 1 0000-0001-7760-5786 'Wan, L.' 2 0000-0003-3663-2678 # _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 J.Am.Chem.Soc. _citation.journal_id_ASTM JACSAT _citation.journal_id_CSD ? _citation.journal_id_ISSN 1520-5126 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 147 _citation.language ? _citation.page_first 3813 _citation.page_last 3822 _citation.title 'Small CAG Repeat RNA Forms a Duplex Structure with Sticky Ends That Promote RNA Condensation.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/jacs.4c16886 _citation.pdbx_database_id_PubMed 39807887 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wan, L.' 1 ? primary 'Zhang, C.' 2 ? primary 'Liu, Y.' 3 ? primary 'Zhang, J.' 4 ? primary 'He, L.' 5 ? primary 'Zhang, Y.' 6 ? primary 'Chen, G.' 7 ? primary 'Guo, P.' 8 ? primary 'Han, D.' 9 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*C)-3') ; _entity.formula_weight 4523.804 _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 polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code GCAGCAGCAGCAGC _entity_poly.pdbx_seq_one_letter_code_can GCAGCAGCAGCAGC _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 G n 1 2 C n 1 3 A n 1 4 G n 1 5 C n 1 6 A n 1 7 G n 1 8 C n 1 9 A n 1 10 G n 1 11 C n 1 12 A n 1 13 G n 1 14 C 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 1 _pdbx_entity_src_syn.pdbx_end_seq_num 14 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # 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 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 # 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 C 2 2 2 C C 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 A 6 6 6 A A A . n A 1 7 G 7 7 7 G G A . n A 1 8 C 8 8 8 C C A . n A 1 9 A 9 9 9 A A A . n A 1 10 G 10 10 10 G G A . n A 1 11 C 11 11 11 C C A . n A 1 12 A 12 12 12 A A A . n A 1 13 G 13 13 13 G G A . n A 1 14 C 14 14 14 C C A . n B 1 1 G 1 15 15 G G B . n B 1 2 C 2 16 16 C C B . n B 1 3 A 3 17 17 A A B . n B 1 4 G 4 18 18 G G B . n B 1 5 C 5 19 19 C C B . n B 1 6 A 6 20 20 A A B . n B 1 7 G 7 21 21 G G B . n B 1 8 C 8 22 22 C C B . n B 1 9 A 9 23 23 A A B . n B 1 10 G 10 24 24 G G B . n B 1 11 C 11 25 25 C C B . n B 1 12 A 12 26 26 A A B . n B 1 13 G 13 27 27 G G B . n B 1 14 C 14 28 28 C C B . n # _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 9KAD _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 9KAD _struct.title 'Solution NMR structure of an RNA duplex containing pure CAG repeats' _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 9KAD _struct_keywords.text 'RNA, polyQ diseases' _struct_keywords.pdbx_keywords 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 1 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9KAD _struct_ref.pdbx_db_accession 9KAD _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 9KAD A 1 ? 14 ? 9KAD 1 ? 14 ? 1 14 2 1 9KAD B 1 ? 14 ? 9KAD 15 ? 28 ? 15 28 # _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_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 ? _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 # 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 G 1 N1 ? ? ? 1_555 B C 11 N3 ? ? A G 1 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 11 O2 ? ? A G 1 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 11 N4 ? ? A G 1 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 10 N1 ? ? A C 2 B G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 10 O6 ? ? A C 2 B G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 10 N2 ? ? A C 2 B G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N6 ? ? ? 1_555 B A 9 N1 ? ? A A 3 B A 23 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog8 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 4 B C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 4 B C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 4 B C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 5 B G 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 5 B G 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 5 B G 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 6 N1 ? ? ? 1_555 B A 6 N6 ? ? A A 6 B A 20 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog15 hydrog ? ? A G 7 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 7 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 7 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 7 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 8 B G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 8 B G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 8 B G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A A 9 N1 ? ? ? 1_555 B A 3 N6 ? ? A A 9 B A 17 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog22 hydrog ? ? A G 10 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 10 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 10 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 10 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 10 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 10 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 11 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 11 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 11 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 11 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 11 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_entry_details.entry_id 9KAD _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification N # 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 6 N3 A A 3 ? ? C4 A A 3 ? ? 1.380 1.344 0.036 0.006 N 2 8 N3 A A 3 ? ? C4 A A 3 ? ? 1.382 1.344 0.038 0.006 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 C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.38 108.50 4.88 0.70 N 2 1 "O4'" A A 9 ? ? "C1'" A A 9 ? ? N9 A A 9 ? ? 112.91 108.50 4.41 0.70 N 3 1 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 113.03 108.50 4.53 0.70 N 4 1 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 112.73 108.50 4.23 0.70 N 5 1 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 116.73 109.80 6.93 0.90 N 6 1 "O4'" B A 20 ? ? "C1'" B A 20 ? ? N9 B A 20 ? ? 113.95 108.50 5.45 0.70 N 7 1 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 113.92 108.50 5.42 0.70 N 8 2 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 113.09 108.50 4.59 0.70 N 9 2 "C5'" A A 6 ? ? "C4'" A A 6 ? ? "O4'" A A 6 ? ? 115.46 109.80 5.66 0.90 N 10 2 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 114.00 108.50 5.50 0.70 N 11 2 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.69 108.50 5.19 0.70 N 12 2 "O4'" A A 9 ? ? "C1'" A A 9 ? ? N9 A A 9 ? ? 114.59 108.50 6.09 0.70 N 13 2 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 113.59 108.50 5.09 0.70 N 14 2 "C5'" B C 16 ? ? "C4'" B C 16 ? ? "O4'" B C 16 ? ? 115.38 109.80 5.58 0.90 N 15 2 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 113.49 108.50 4.99 0.70 N 16 2 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 115.87 109.80 6.07 0.90 N 17 2 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 114.26 108.50 5.76 0.70 N 18 3 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 113.17 108.50 4.67 0.70 N 19 3 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 112.99 108.50 4.49 0.70 N 20 3 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 116.40 109.80 6.60 0.90 N 21 3 "O4'" B A 20 ? ? "C1'" B A 20 ? ? N9 B A 20 ? ? 113.61 108.50 5.11 0.70 N 22 3 "C3'" B G 21 ? ? "C2'" B G 21 ? ? "C1'" B G 21 ? ? 96.67 101.30 -4.63 0.70 N 23 3 "C3'" B A 23 ? ? "C2'" B A 23 ? ? "C1'" B A 23 ? ? 96.28 101.30 -5.02 0.70 N 24 3 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 113.10 108.50 4.60 0.70 N 25 4 "O4'" A C 2 ? ? "C1'" A C 2 ? ? N1 A C 2 ? ? 114.40 108.50 5.90 0.70 N 26 4 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 112.88 108.50 4.38 0.70 N 27 4 "C5'" A A 6 ? ? "C4'" A A 6 ? ? "O4'" A A 6 ? ? 115.68 109.80 5.88 0.90 N 28 4 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 114.27 108.50 5.77 0.70 N 29 4 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.34 108.50 4.84 0.70 N 30 4 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 114.58 108.50 6.08 0.70 N 31 4 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 112.91 108.50 4.41 0.70 N 32 4 "O4'" B C 22 ? ? "C1'" B C 22 ? ? N1 B C 22 ? ? 112.99 108.50 4.49 0.70 N 33 4 "C5'" B A 23 ? ? "C4'" B A 23 ? ? "O4'" B A 23 ? ? 116.41 109.80 6.61 0.90 N 34 4 "O4'" B A 23 ? ? "C1'" B A 23 ? ? N9 B A 23 ? ? 115.87 108.50 7.37 0.70 N 35 4 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 113.93 108.50 5.43 0.70 N 36 5 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 112.95 108.50 4.45 0.70 N 37 5 "C5'" A A 6 ? ? "C4'" A A 6 ? ? "O4'" A A 6 ? ? 115.69 109.80 5.89 0.90 N 38 5 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 114.48 108.50 5.98 0.70 N 39 5 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.29 108.50 4.79 0.70 N 40 5 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 114.17 108.50 5.67 0.70 N 41 5 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 113.34 108.50 4.84 0.70 N 42 5 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 117.18 109.80 7.38 0.90 N 43 5 "C3'" B A 23 ? ? "C2'" B A 23 ? ? "C1'" B A 23 ? ? 96.87 101.30 -4.43 0.70 N 44 5 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 113.89 108.50 5.39 0.70 N 45 6 "O4'" A A 9 ? ? "C1'" A A 9 ? ? N9 A A 9 ? ? 112.77 108.50 4.27 0.70 N 46 6 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 114.13 108.50 5.63 0.70 N 47 6 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 112.93 108.50 4.43 0.70 N 48 6 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 117.00 109.80 7.20 0.90 N 49 6 "O4'" B A 20 ? ? "C1'" B A 20 ? ? N9 B A 20 ? ? 114.55 108.50 6.05 0.70 N 50 6 "O4'" B C 25 ? ? "C1'" B C 25 ? ? N1 B C 25 ? ? 112.83 108.50 4.33 0.70 N 51 6 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 113.90 108.50 5.40 0.70 N 52 7 "O4'" A C 2 ? ? "C1'" A C 2 ? ? N1 A C 2 ? ? 113.05 108.50 4.55 0.70 N 53 7 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 113.06 108.50 4.56 0.70 N 54 7 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 113.13 108.50 4.63 0.70 N 55 7 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 113.82 108.50 5.32 0.70 N 56 7 "C5'" B C 16 ? ? "C4'" B C 16 ? ? "O4'" B C 16 ? ? 115.27 109.80 5.47 0.90 N 57 7 "O4'" B C 22 ? ? "C1'" B C 22 ? ? N1 B C 22 ? ? 113.23 108.50 4.73 0.70 N 58 7 "C5'" B A 23 ? ? "C4'" B A 23 ? ? "O4'" B A 23 ? ? 115.97 109.80 6.17 0.90 N 59 7 "O4'" B A 23 ? ? "C1'" B A 23 ? ? N9 B A 23 ? ? 113.69 108.50 5.19 0.70 N 60 7 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 113.50 108.50 5.00 0.70 N 61 8 "O4'" A A 3 ? ? "C1'" A A 3 ? ? N9 A A 3 ? ? 113.04 108.50 4.54 0.70 N 62 8 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 113.60 108.50 5.10 0.70 N 63 8 "C5'" A A 6 ? ? "C4'" A A 6 ? ? "O4'" A A 6 ? ? 115.38 109.80 5.58 0.90 N 64 8 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.10 108.50 4.60 0.70 N 65 8 "O4'" A C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 112.91 108.50 4.41 0.70 N 66 8 "C5'" A A 12 ? ? "C4'" A A 12 ? ? "O4'" A A 12 ? ? 115.50 109.80 5.70 0.90 N 67 8 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 114.16 108.50 5.66 0.70 N 68 8 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 112.92 108.50 4.42 0.70 N 69 8 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 116.47 109.80 6.67 0.90 N 70 8 "O4'" B A 20 ? ? "C1'" B A 20 ? ? N9 B A 20 ? ? 113.64 108.50 5.14 0.70 N 71 8 "C3'" B G 21 ? ? "C2'" B G 21 ? ? "C1'" B G 21 ? ? 96.63 101.30 -4.67 0.70 N 72 8 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 114.66 108.50 6.16 0.70 N 73 9 N1 A A 3 ? ? C2 A A 3 ? ? N3 A A 3 ? ? 126.23 129.30 -3.07 0.50 N 74 9 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 113.11 108.50 4.61 0.70 N 75 9 "C5'" A A 6 ? ? "C4'" A A 6 ? ? "O4'" A A 6 ? ? 116.06 109.80 6.26 0.90 N 76 9 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 112.72 108.50 4.22 0.70 N 77 9 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 112.99 108.50 4.49 0.70 N 78 9 "C5'" B C 16 ? ? "C4'" B C 16 ? ? "O4'" B C 16 ? ? 115.43 109.80 5.63 0.90 N 79 9 "O4'" B C 19 ? ? "C1'" B C 19 ? ? N1 B C 19 ? ? 113.08 108.50 4.58 0.70 N 80 9 "C5'" B A 20 ? ? "C4'" B A 20 ? ? "O4'" B A 20 ? ? 115.32 109.80 5.52 0.90 N 81 9 "C3'" B G 21 ? ? "C2'" B G 21 ? ? "C1'" B G 21 ? ? 96.87 101.30 -4.43 0.70 N 82 9 "C3'" B A 23 ? ? "C2'" B A 23 ? ? "C1'" B A 23 ? ? 96.59 101.30 -4.71 0.70 N 83 10 "O4'" A C 5 ? ? "C1'" A C 5 ? ? N1 A C 5 ? ? 112.86 108.50 4.36 0.70 N 84 10 "C5'" A A 6 ? ? "C4'" A A 6 ? ? "O4'" A A 6 ? ? 115.73 109.80 5.93 0.90 N 85 10 "O4'" A A 6 ? ? "C1'" A A 6 ? ? N9 A A 6 ? ? 114.17 108.50 5.67 0.70 N 86 10 "O4'" A C 8 ? ? "C1'" A C 8 ? ? N1 A C 8 ? ? 113.67 108.50 5.17 0.70 N 87 10 "O4'" A G 13 ? ? "C1'" A G 13 ? ? N9 A G 13 ? ? 113.12 108.50 4.62 0.70 N 88 10 "O4'" A C 14 ? ? "C1'" A C 14 ? ? N1 A C 14 ? ? 113.59 108.50 5.09 0.70 N 89 10 "C5'" B C 16 ? ? "C4'" B C 16 ? ? "O4'" B C 16 ? ? 115.32 109.80 5.52 0.90 N 90 10 "O4'" B C 28 ? ? "C1'" B C 28 ? ? N1 B C 28 ? ? 114.03 108.50 5.53 0.70 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 A A 3 ? ? 0.053 'SIDE CHAIN' 2 1 G A 7 ? ? 0.059 'SIDE CHAIN' 3 1 C A 14 ? ? 0.114 'SIDE CHAIN' 4 1 A B 17 ? ? 0.094 'SIDE CHAIN' 5 1 A B 20 ? ? 0.077 'SIDE CHAIN' 6 1 G B 27 ? ? 0.059 'SIDE CHAIN' 7 2 A A 9 ? ? 0.060 'SIDE CHAIN' 8 2 G A 13 ? ? 0.058 'SIDE CHAIN' 9 2 G B 15 ? ? 0.060 'SIDE CHAIN' 10 2 A B 17 ? ? 0.073 'SIDE CHAIN' 11 2 A B 23 ? ? 0.077 'SIDE CHAIN' 12 3 G A 4 ? ? 0.104 'SIDE CHAIN' 13 3 G A 7 ? ? 0.061 'SIDE CHAIN' 14 3 A B 17 ? ? 0.082 'SIDE CHAIN' 15 4 A A 3 ? ? 0.062 'SIDE CHAIN' 16 4 G A 4 ? ? 0.100 'SIDE CHAIN' 17 4 G B 15 ? ? 0.077 'SIDE CHAIN' 18 4 A B 17 ? ? 0.092 'SIDE CHAIN' 19 5 A A 3 ? ? 0.079 'SIDE CHAIN' 20 5 G A 4 ? ? 0.106 'SIDE CHAIN' 21 5 G B 15 ? ? 0.064 'SIDE CHAIN' 22 5 A B 17 ? ? 0.097 'SIDE CHAIN' 23 5 A B 20 ? ? 0.058 'SIDE CHAIN' 24 6 G A 7 ? ? 0.075 'SIDE CHAIN' 25 6 G B 15 ? ? 0.070 'SIDE CHAIN' 26 6 A B 17 ? ? 0.094 'SIDE CHAIN' 27 6 G B 18 ? ? 0.085 'SIDE CHAIN' 28 6 A B 20 ? ? 0.055 'SIDE CHAIN' 29 7 A A 3 ? ? 0.095 'SIDE CHAIN' 30 7 G A 13 ? ? 0.050 'SIDE CHAIN' 31 7 G B 15 ? ? 0.063 'SIDE CHAIN' 32 7 A B 23 ? ? 0.051 'SIDE CHAIN' 33 8 A A 3 ? ? 0.088 'SIDE CHAIN' 34 8 G A 13 ? ? 0.068 'SIDE CHAIN' 35 8 G B 15 ? ? 0.081 'SIDE CHAIN' 36 8 A B 17 ? ? 0.118 'SIDE CHAIN' 37 8 G B 24 ? ? 0.073 'SIDE CHAIN' 38 8 G B 27 ? ? 0.052 'SIDE CHAIN' 39 9 A A 3 ? ? 0.106 'SIDE CHAIN' 40 9 G B 15 ? ? 0.063 'SIDE CHAIN' 41 10 G A 13 ? ? 0.054 'SIDE CHAIN' 42 10 G B 15 ? ? 0.070 'SIDE CHAIN' 43 10 A B 17 ? ? 0.073 'SIDE CHAIN' 44 10 A B 23 ? ? 0.065 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 9KAD _pdbx_nmr_ensemble.conformers_calculated_total_number 200 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations' _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 9KAD _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'fewest violations' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents ;0.4 mM RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*C)-3'), 0.02 mM DSS, 1 mM sodium phosphate, 5 mM magnesium chloride, 0.1 mM EDTA, 99.96% D2O ; _pdbx_nmr_sample_details.solvent_system '99.96% D2O' _pdbx_nmr_sample_details.label 1 _pdbx_nmr_sample_details.type solution _pdbx_nmr_sample_details.details ? # 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 ;RNA (5'-R(*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*CP*AP*GP*C)-3') ; 0.4 ? mM 'natural abundance' 1 DSS 0.02 ? mM 'natural abundance' 1 'sodium phosphate' 1 ? mM 'natural abundance' 1 'magnesium chloride' 5 ? mM 'natural abundance' 1 EDTA 0.1 ? mM 'natural abundance' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 288 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7 _pdbx_nmr_exptl_sample_conditions.ionic_strength 10 _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 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 1 '2D 1H-1H COSY' 1 isotropic 3 1 1 '2D 1H-1H TOCSY' 1 isotropic # _pdbx_nmr_refine.entry_id 9KAD _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 'chemical shift assignment' TopSpin ? 'Bruker Biospin' 2 'structure calculation' Amber ? 'Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman' # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 9KAD 'double helix' 9KAD 'a-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 G 1 1_555 B C 11 1_555 -0.095 -0.041 0.231 -10.595 -6.714 -1.415 1 A_G1:C25_B A 1 ? B 25 ? 19 1 1 A C 2 1_555 B G 10 1_555 0.113 -0.122 0.328 -6.028 -8.631 -5.468 2 A_C2:G24_B A 2 ? B 24 ? 19 1 1 A A 3 1_555 B A 9 1_555 -1.507 1.510 0.062 4.741 -4.069 -6.560 3 A_A3:A23_B A 3 ? B 23 ? ? 1 1 A G 4 1_555 B C 8 1_555 -0.122 -0.006 0.455 14.229 -1.517 -2.681 4 A_G4:C22_B A 4 ? B 22 ? 19 1 1 A C 5 1_555 B G 7 1_555 0.144 -0.086 0.040 0.129 -5.530 -3.721 5 A_C5:G21_B A 5 ? B 21 ? 19 1 1 A A 6 1_555 B A 6 1_555 1.318 1.520 0.153 0.551 -7.309 -5.885 6 A_A6:A20_B A 6 ? B 20 ? ? 1 1 A G 7 1_555 B C 5 1_555 -0.142 -0.109 0.081 3.128 -10.561 -3.817 7 A_G7:C19_B A 7 ? B 19 ? 19 1 1 A C 8 1_555 B G 4 1_555 0.143 -0.036 0.257 -8.449 -8.394 -2.357 8 A_C8:G18_B A 8 ? B 18 ? 19 1 1 A A 9 1_555 B A 3 1_555 1.339 1.476 0.172 -3.910 -4.741 -12.621 9 A_A9:A17_B A 9 ? B 17 ? ? 1 1 A G 10 1_555 B C 2 1_555 -0.078 -0.090 0.443 15.249 0.625 -5.646 10 A_G10:C16_B A 10 ? B 16 ? 19 1 1 A C 11 1_555 B G 1 1_555 0.093 -0.027 -0.277 11.251 -5.549 -3.314 11 A_C11:G15_B A 11 ? B 15 ? 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 B C 11 1_555 A C 2 1_555 B G 10 1_555 -0.565 -1.650 3.140 3.031 0.827 37.232 -2.679 1.261 3.050 1.292 -4.738 37.360 1 AA_G1C2:G24C25_BB A 1 ? B 25 ? A 2 ? B 24 ? 1 A C 2 1_555 B G 10 1_555 A A 3 1_555 B A 9 1_555 0.428 -1.967 2.733 3.195 8.587 19.774 -7.648 -0.224 1.779 23.445 -8.723 21.774 2 AA_C2A3:A23G24_BB A 2 ? B 24 ? A 3 ? B 23 ? 1 A A 3 1_555 B A 9 1_555 A G 4 1_555 B C 8 1_555 0.273 -1.498 2.881 -5.199 6.271 31.966 -3.528 -1.217 2.476 11.162 9.254 32.961 3 AA_A3G4:C22A23_BB A 3 ? B 23 ? A 4 ? B 22 ? 1 A G 4 1_555 B C 8 1_555 A C 5 1_555 B G 7 1_555 -0.082 -2.521 3.475 1.503 6.441 35.068 -5.045 0.350 2.974 10.573 -2.467 35.667 4 AA_G4C5:G21C22_BB A 4 ? B 22 ? A 5 ? B 21 ? 1 A C 5 1_555 B G 7 1_555 A A 6 1_555 B A 6 1_555 -0.123 -1.599 3.110 1.054 9.796 35.248 -3.747 0.325 2.584 15.799 -1.700 36.556 5 AA_C5A6:A20G21_BB A 5 ? B 21 ? A 6 ? B 20 ? 1 A A 6 1_555 B A 6 1_555 A G 7 1_555 B C 5 1_555 -0.305 -2.047 2.873 -1.316 11.417 22.628 -7.098 0.414 1.675 26.976 3.108 25.346 6 AA_A6G7:C19A20_BB A 6 ? B 20 ? A 7 ? B 19 ? 1 A G 7 1_555 B C 5 1_555 A C 8 1_555 B G 4 1_555 0.156 -2.154 3.383 -1.126 6.179 35.251 -4.375 -0.412 2.969 10.104 1.842 35.789 7 AA_G7C8:G18C19_BB A 7 ? B 19 ? A 8 ? B 18 ? 1 A C 8 1_555 B G 4 1_555 A A 9 1_555 B A 3 1_555 -0.353 -1.507 3.034 2.298 10.040 31.828 -4.045 0.941 2.429 17.736 -4.059 33.411 8 AA_C8A9:A17G18_BB A 8 ? B 18 ? A 9 ? B 17 ? 1 A A 9 1_555 B A 3 1_555 A G 10 1_555 B C 2 1_555 -0.207 -2.010 2.525 -5.020 6.448 20.609 -6.917 -0.774 1.819 17.175 13.373 22.154 9 AA_A9G10:C16A17_BB A 9 ? B 17 ? A 10 ? B 16 ? 1 A G 10 1_555 B C 2 1_555 A C 11 1_555 B G 1 1_555 0.479 -2.409 3.314 0.550 5.523 35.745 -4.628 -0.697 2.928 8.931 -0.890 36.159 10 AA_G10C11:G15C16_BB A 10 ? B 16 ? A 11 ? B 15 ? # _pdbx_audit_support.funding_organization 'Not funded' _pdbx_audit_support.country ? _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model AVANCE _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 700 _pdbx_nmr_spectrometer.details ? # _atom_sites.entry_id 9KAD _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 H N O P # loop_ #