data_8Q4O # _entry.id 8Q4O # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 8Q4O pdb_00008q4o 10.2210/pdb8q4o/pdb WWPDB D_1292132415 ? ? BMRB 34843 ? ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2024-03-06 # _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_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr . _pdbx_database_status.entry_id 8Q4O _pdbx_database_status.recvd_initial_deposition_date 2023-08-07 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _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 ;RNA G-quadruplex from the 5'-UTR of human tyrosine kinase 2 (TYK2) ; _pdbx_database_related.db_id 34843 _pdbx_database_related.content_type unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email vojc.kocman@ki.si _pdbx_contact_author.name_first Vojc _pdbx_contact_author.name_last Kocman _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-5644-7245 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Toplishek, M.' 1 ? 'Kocman, V.' 2 0000-0002-5644-7245 # _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 'Acs Omega' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2470-1343 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 9 _citation.language ? _citation.page_first 7215 _citation.page_last 7229 _citation.title ;High-Resolution Structure of RNA G-Quadruplex Containing Unique Structural Motifs Originating from the 5'-UTR of Human Tyrosine Kinase 2 (TYK2). ; _citation.year 2024 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acsomega.3c09592 _citation.pdbx_database_id_PubMed 38371751 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Orehova, M.' 1 0009-0001-6294-9081 primary 'Plavec, J.' 2 0000-0003-1570-8602 primary 'Kocman, V.' 3 0000-0002-5644-7245 # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;RNA (5'-R(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3') ; _entity.formula_weight 7507.481 _entity.pdbx_number_of_molecules 1 _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 CGGUAGCGGGUAUGGGUCCGGGU _entity_poly.pdbx_seq_one_letter_code_can CGGUAGCGGGUAUGGGUCCGGGU _entity_poly.pdbx_strand_id A _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 C n 1 2 G n 1 3 G n 1 4 U n 1 5 A n 1 6 G n 1 7 C n 1 8 G n 1 9 G n 1 10 G n 1 11 U n 1 12 A n 1 13 U n 1 14 G n 1 15 G n 1 16 G n 1 17 U n 1 18 C n 1 19 C n 1 20 G n 1 21 G n 1 22 G n 1 23 U 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 23 _pdbx_entity_src_syn.organism_scientific Homo _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9605 _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 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 C 1 1 1 C C A . n A 1 2 G 2 2 2 G G A . n A 1 3 G 3 3 3 G G A . n A 1 4 U 4 4 4 U U A . n A 1 5 A 5 5 5 A A A . n A 1 6 G 6 6 6 G G A . n A 1 7 C 7 7 7 C C 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 U 11 11 11 U U A . n A 1 12 A 12 12 12 A A A . n A 1 13 U 13 13 13 U U A . n A 1 14 G 14 14 14 G G A . n A 1 15 G 15 15 15 G G A . n A 1 16 G 16 16 16 G G A . n A 1 17 U 17 17 17 U U A . n A 1 18 C 18 18 18 C C A . n A 1 19 C 19 19 19 C C A . n A 1 20 G 20 20 20 G G A . n A 1 21 G 21 21 21 G G A . n A 1 22 G 22 22 22 G G A . n A 1 23 U 23 23 23 U U A . 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 8Q4O _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 8Q4O _struct.title ;RNA G-quadruplex from the 5'-UTR of human tyrosine kinase 2 (TYK2) ; _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 8Q4O _struct_keywords.text 'G-quadruplex, TYK2, GA, bulge, RNA' _struct_keywords.pdbx_keywords RNA # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8Q4O _struct_ref.pdbx_db_accession 8Q4O _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8Q4O _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 23 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 8Q4O _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 23 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 23 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'native gel electrophoresis' _pdbx_struct_assembly_auth_evidence.details 'Native PAGE results indicate formation of a monomeric species.' # _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 2 N1 ? ? ? 1_555 A G 8 O6 ? ? A G 2 A G 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A G 2 N2 ? ? ? 1_555 A G 8 N7 ? ? A G 2 A G 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A G 2 N7 ? ? ? 1_555 A G 20 N2 ? ? A G 2 A G 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A G 2 O6 ? ? ? 1_555 A G 20 N1 ? ? A G 2 A G 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A G 3 N1 ? ? ? 1_555 A G 9 O6 ? ? A G 3 A G 9 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A G 3 N2 ? ? ? 1_555 A G 9 N7 ? ? A G 3 A G 9 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A G 3 N7 ? ? ? 1_555 A G 21 N2 ? ? A G 3 A G 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A G 3 O6 ? ? ? 1_555 A G 21 N1 ? ? A G 3 A G 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 23 O4 ? ? A A 5 A U 23 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog10 hydrog ? ? A A 5 N7 ? ? ? 1_555 A U 23 N3 ? ? A A 5 A U 23 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog11 hydrog ? ? A G 6 N1 ? ? ? 1_555 A G 10 O6 ? ? A G 6 A G 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A G 6 N2 ? ? ? 1_555 A G 10 N7 ? ? A G 6 A G 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A G 6 N7 ? ? ? 1_555 A G 22 N2 ? ? A G 6 A G 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A G 6 O6 ? ? ? 1_555 A G 22 N1 ? ? A G 6 A G 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A G 8 N1 ? ? ? 1_555 A G 14 O6 ? ? A G 8 A G 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A G 8 N2 ? ? ? 1_555 A G 14 N7 ? ? A G 8 A G 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A G 9 N2 ? ? ? 1_555 A A 12 N1 ? ? A G 9 A A 12 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog18 hydrog ? ? A G 9 N1 ? ? ? 1_555 A G 15 O6 ? ? A G 9 A G 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A G 9 N2 ? ? ? 1_555 A G 15 N7 ? ? A G 9 A G 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog20 hydrog ? ? A G 10 N1 ? ? ? 1_555 A G 16 O6 ? ? A G 10 A G 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A G 10 N2 ? ? ? 1_555 A G 16 N7 ? ? A G 10 A G 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A A 12 N6 ? ? ? 1_555 A G 15 N7 ? ? A A 12 A G 15 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog23 hydrog ? ? A G 14 N1 ? ? ? 1_555 A G 20 O6 ? ? A G 14 A G 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A G 14 N2 ? ? ? 1_555 A G 20 N7 ? ? A G 14 A G 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A G 15 N1 ? ? ? 1_555 A G 21 O6 ? ? A G 15 A G 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A G 15 N2 ? ? ? 1_555 A G 21 N7 ? ? A G 15 A G 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog27 hydrog ? ? A G 16 N1 ? ? ? 1_555 A G 22 O6 ? ? A G 16 A G 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog28 hydrog ? ? A G 16 N2 ? ? ? 1_555 A G 22 N7 ? ? A G 16 A G 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 3 "HO2'" A G 15 ? ? OP2 A G 16 ? ? 1.59 2 4 "HO2'" A G 14 ? ? OP2 A G 15 ? ? 1.58 3 4 "HO2'" A G 15 ? ? OP2 A G 16 ? ? 1.59 4 8 "HO2'" A U 11 ? ? OP1 A A 12 ? ? 1.59 5 8 "HO2'" A G 9 ? ? OP2 A G 10 ? ? 1.60 # 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 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 117.19 121.90 -4.71 0.70 N 2 1 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.23 117.70 3.53 0.50 N 3 1 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.54 118.60 -5.06 0.60 N 4 1 "C1'" A C 7 ? ? "O4'" A C 7 ? ? "C4'" A C 7 ? ? 105.45 109.70 -4.25 0.70 N 5 1 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 115.51 108.50 7.01 0.70 N 6 1 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.37 121.90 -4.53 0.70 N 7 1 "O4'" A G 9 ? ? "C1'" A G 9 ? ? N9 A G 9 ? ? 112.78 108.50 4.28 0.70 N 8 1 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.81 117.00 -3.19 0.50 N 9 1 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.31 117.70 3.61 0.50 N 10 1 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 112.45 118.60 -6.15 0.60 N 11 1 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 116.73 121.90 -5.17 0.70 N 12 1 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.36 121.90 -4.54 0.70 N 13 1 N3 A G 21 ? ? C2 A G 21 ? ? N2 A G 21 ? ? 115.62 119.90 -4.28 0.70 N 14 2 "O4'" A C 1 ? ? "C1'" A C 1 ? ? N1 A C 1 ? ? 112.84 108.50 4.34 0.70 N 15 2 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 116.91 121.90 -4.99 0.70 N 16 2 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.22 117.70 3.52 0.50 N 17 2 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.67 118.60 -4.93 0.60 N 18 2 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.05 121.90 -4.85 0.70 N 19 2 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.68 117.00 -3.32 0.50 N 20 2 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.58 117.70 3.88 0.50 N 21 2 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 112.84 118.60 -5.76 0.60 N 22 2 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 112.71 108.50 4.21 0.70 N 23 2 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.51 121.90 -4.39 0.70 N 24 2 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 116.97 121.90 -4.93 0.70 N 25 3 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 116.89 121.90 -5.01 0.70 N 26 3 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.11 117.70 3.41 0.50 N 27 3 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.72 118.60 -4.88 0.60 N 28 3 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.44 121.90 -4.46 0.70 N 29 3 "O4'" A G 9 ? ? "C1'" A G 9 ? ? N9 A G 9 ? ? 112.89 108.50 4.39 0.70 N 30 3 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.78 117.00 -3.22 0.50 N 31 3 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.47 117.70 3.77 0.50 N 32 3 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 112.77 118.60 -5.83 0.60 N 33 3 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 113.99 108.50 5.49 0.70 N 34 3 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.38 121.90 -4.52 0.70 N 35 3 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.46 121.90 -4.44 0.70 N 36 3 "O4'" A G 21 ? ? "C1'" A G 21 ? ? N9 A G 21 ? ? 114.34 108.50 5.84 0.70 N 37 4 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 117.50 121.90 -4.40 0.70 N 38 4 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.21 117.70 3.51 0.50 N 39 4 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.23 118.60 -5.37 0.60 N 40 4 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.08 121.90 -4.82 0.70 N 41 4 "C1'" A G 9 ? ? "O4'" A G 9 ? ? "C4'" A G 9 ? ? 105.41 109.70 -4.29 0.70 N 42 4 "O4'" A G 9 ? ? "C1'" A G 9 ? ? N9 A G 9 ? ? 114.13 108.50 5.63 0.70 N 43 4 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.76 117.00 -3.24 0.50 N 44 4 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.58 117.70 3.88 0.50 N 45 4 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 113.28 118.60 -5.32 0.60 N 46 4 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 113.13 108.50 4.63 0.70 N 47 4 "O4'" A C 18 ? ? "C1'" A C 18 ? ? N1 A C 18 ? ? 113.13 108.50 4.63 0.70 N 48 4 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.22 121.90 -4.68 0.70 N 49 4 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.32 121.90 -4.58 0.70 N 50 4 "O4'" A U 23 ? ? "C1'" A U 23 ? ? N1 A U 23 ? ? 113.37 108.50 4.87 0.70 N 51 5 "O4'" A C 1 ? ? "C1'" A C 1 ? ? N1 A C 1 ? ? 112.81 108.50 4.31 0.70 N 52 5 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 116.86 121.90 -5.04 0.70 N 53 5 C4 A A 5 ? ? C5 A A 5 ? ? C6 A A 5 ? ? 113.68 117.00 -3.32 0.50 N 54 5 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.49 117.70 3.79 0.50 N 55 5 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 112.65 118.60 -5.95 0.60 N 56 5 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 114.22 108.50 5.72 0.70 N 57 5 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.02 121.90 -4.88 0.70 N 58 5 "O4'" A G 9 ? ? "C1'" A G 9 ? ? N9 A G 9 ? ? 113.85 108.50 5.35 0.70 N 59 5 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.87 117.00 -3.13 0.50 N 60 5 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.43 117.70 3.73 0.50 N 61 5 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 113.12 118.60 -5.48 0.60 N 62 5 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 112.90 108.50 4.40 0.70 N 63 5 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.15 121.90 -4.75 0.70 N 64 5 "O4'" A C 19 ? ? "C1'" A C 19 ? ? N1 A C 19 ? ? 113.34 108.50 4.84 0.70 N 65 5 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.22 121.90 -4.68 0.70 N 66 6 N1 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 122.81 118.90 3.91 0.60 N 67 6 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 116.06 121.90 -5.84 0.70 N 68 6 C4 A A 5 ? ? C5 A A 5 ? ? C6 A A 5 ? ? 113.96 117.00 -3.04 0.50 N 69 6 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.26 117.70 3.56 0.50 N 70 6 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.15 118.60 -5.45 0.60 N 71 6 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 116.61 121.90 -5.29 0.70 N 72 6 "C1'" A G 9 ? ? "O4'" A G 9 ? ? "C4'" A G 9 ? ? 105.30 109.70 -4.40 0.70 N 73 6 "O4'" A G 9 ? ? "C1'" A G 9 ? ? N9 A G 9 ? ? 114.22 108.50 5.72 0.70 N 74 6 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.75 117.00 -3.25 0.50 N 75 6 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.48 117.70 3.78 0.50 N 76 6 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 113.56 118.60 -5.04 0.60 N 77 6 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 113.06 108.50 4.56 0.70 N 78 6 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.07 121.90 -4.83 0.70 N 79 6 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.18 121.90 -4.72 0.70 N 80 6 "C1'" A U 23 ? ? "O4'" A U 23 ? ? "C4'" A U 23 ? ? 105.39 109.70 -4.31 0.70 N 81 6 "O4'" A U 23 ? ? "C1'" A U 23 ? ? N1 A U 23 ? ? 114.63 108.50 6.13 0.70 N 82 7 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 117.59 121.90 -4.31 0.70 N 83 7 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.28 117.70 3.58 0.50 N 84 7 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.45 118.60 -5.15 0.60 N 85 7 "C1'" A C 7 ? ? "O4'" A C 7 ? ? "C4'" A C 7 ? ? 105.48 109.70 -4.22 0.70 N 86 7 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 115.74 108.50 7.24 0.70 N 87 7 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.34 121.90 -4.56 0.70 N 88 7 "O4'" A G 10 ? ? "C1'" A G 10 ? ? N9 A G 10 ? ? 112.95 108.50 4.45 0.70 N 89 7 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.70 117.00 -3.30 0.50 N 90 7 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.30 117.70 3.60 0.50 N 91 7 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 112.92 118.60 -5.68 0.60 N 92 7 "O4'" A G 14 ? ? "C1'" A G 14 ? ? N9 A G 14 ? ? 114.52 108.50 6.02 0.70 N 93 7 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 114.26 108.50 5.76 0.70 N 94 7 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.27 121.90 -4.63 0.70 N 95 7 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 116.66 121.90 -5.24 0.70 N 96 7 "O4'" A G 21 ? ? "C1'" A G 21 ? ? N9 A G 21 ? ? 112.90 108.50 4.40 0.70 N 97 8 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 116.92 121.90 -4.98 0.70 N 98 8 C4 A A 5 ? ? C5 A A 5 ? ? C6 A A 5 ? ? 113.98 117.00 -3.02 0.50 N 99 8 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.29 117.70 3.59 0.50 N 100 8 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 112.97 118.60 -5.63 0.60 N 101 8 "O4'" A C 7 ? ? "C1'" A C 7 ? ? N1 A C 7 ? ? 113.20 108.50 4.70 0.70 N 102 8 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 117.26 121.90 -4.64 0.70 N 103 8 "O4'" A G 9 ? ? "C1'" A G 9 ? ? N9 A G 9 ? ? 113.33 108.50 4.83 0.70 N 104 8 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.35 117.70 3.65 0.50 N 105 8 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 113.47 118.60 -5.13 0.60 N 106 8 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.25 121.90 -4.65 0.70 N 107 8 N1 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 122.74 118.90 3.84 0.60 N 108 8 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 116.18 121.90 -5.72 0.70 N 109 9 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 116.96 121.90 -4.94 0.70 N 110 9 "O4'" A U 4 ? ? "C1'" A U 4 ? ? N1 A U 4 ? ? 112.72 108.50 4.22 0.70 N 111 9 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.07 117.70 3.37 0.50 N 112 9 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 114.00 118.60 -4.60 0.60 N 113 9 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 116.79 121.90 -5.11 0.70 N 114 9 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.72 117.00 -3.28 0.50 N 115 9 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.46 117.70 3.76 0.50 N 116 9 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 113.01 118.60 -5.59 0.60 N 117 9 "C3'" A G 14 ? ? "O3'" A G 14 ? ? P A G 15 ? ? 127.12 119.70 7.42 1.20 Y 118 9 "O4'" A G 15 ? ? "C1'" A G 15 ? ? N9 A G 15 ? ? 113.05 108.50 4.55 0.70 N 119 9 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 117.12 121.90 -4.78 0.70 N 120 9 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.41 121.90 -4.49 0.70 N 121 9 "O4'" A G 21 ? ? "C1'" A G 21 ? ? N9 A G 21 ? ? 112.91 108.50 4.41 0.70 N 122 10 N3 A C 1 ? ? C2 A C 1 ? ? O2 A C 1 ? ? 117.12 121.90 -4.78 0.70 N 123 10 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 121.17 117.70 3.47 0.50 N 124 10 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 113.34 118.60 -5.26 0.60 N 125 10 N3 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 116.71 121.90 -5.19 0.70 N 126 10 C4 A A 12 ? ? C5 A A 12 ? ? C6 A A 12 ? ? 113.61 117.00 -3.39 0.50 N 127 10 C5 A A 12 ? ? C6 A A 12 ? ? N1 A A 12 ? ? 121.35 117.70 3.65 0.50 N 128 10 N1 A A 12 ? ? C6 A A 12 ? ? N6 A A 12 ? ? 113.03 118.60 -5.57 0.60 N 129 10 "O4'" A C 18 ? ? "C1'" A C 18 ? ? N1 A C 18 ? ? 115.03 108.50 6.53 0.70 N 130 10 N3 A C 18 ? ? C2 A C 18 ? ? O2 A C 18 ? ? 116.70 121.90 -5.20 0.70 N 131 10 N3 A C 19 ? ? C2 A C 19 ? ? O2 A C 19 ? ? 117.05 121.90 -4.85 0.70 N 132 10 "O4'" A G 21 ? ? "C1'" A G 21 ? ? N9 A G 21 ? ? 112.96 108.50 4.46 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 C A 1 ? ? 0.122 'SIDE CHAIN' 2 1 G A 2 ? ? 0.076 'SIDE CHAIN' 3 1 G A 10 ? ? 0.069 'SIDE CHAIN' 4 1 G A 21 ? ? 0.082 'SIDE CHAIN' 5 1 G A 22 ? ? 0.063 'SIDE CHAIN' 6 1 U A 23 ? ? 0.089 'SIDE CHAIN' 7 2 G A 2 ? ? 0.069 'SIDE CHAIN' 8 2 G A 3 ? ? 0.104 'SIDE CHAIN' 9 2 G A 9 ? ? 0.061 'SIDE CHAIN' 10 3 G A 2 ? ? 0.070 'SIDE CHAIN' 11 3 G A 9 ? ? 0.074 'SIDE CHAIN' 12 3 G A 16 ? ? 0.082 'SIDE CHAIN' 13 3 G A 20 ? ? 0.068 'SIDE CHAIN' 14 3 G A 21 ? ? 0.058 'SIDE CHAIN' 15 3 U A 23 ? ? 0.085 'SIDE CHAIN' 16 4 G A 3 ? ? 0.052 'SIDE CHAIN' 17 4 G A 9 ? ? 0.081 'SIDE CHAIN' 18 4 G A 10 ? ? 0.074 'SIDE CHAIN' 19 5 C A 1 ? ? 0.078 'SIDE CHAIN' 20 5 G A 2 ? ? 0.092 'SIDE CHAIN' 21 5 G A 15 ? ? 0.087 'SIDE CHAIN' 22 5 G A 21 ? ? 0.083 'SIDE CHAIN' 23 6 C A 1 ? ? 0.082 'SIDE CHAIN' 24 6 G A 2 ? ? 0.070 'SIDE CHAIN' 25 6 G A 9 ? ? 0.064 'SIDE CHAIN' 26 6 G A 10 ? ? 0.079 'SIDE CHAIN' 27 6 U A 13 ? ? 0.099 'SIDE CHAIN' 28 7 C A 1 ? ? 0.114 'SIDE CHAIN' 29 7 G A 3 ? ? 0.065 'SIDE CHAIN' 30 7 C A 7 ? ? 0.081 'SIDE CHAIN' 31 7 G A 10 ? ? 0.077 'SIDE CHAIN' 32 7 G A 14 ? ? 0.056 'SIDE CHAIN' 33 7 U A 23 ? ? 0.107 'SIDE CHAIN' 34 8 C A 1 ? ? 0.068 'SIDE CHAIN' 35 8 G A 2 ? ? 0.067 'SIDE CHAIN' 36 8 G A 3 ? ? 0.100 'SIDE CHAIN' 37 8 G A 15 ? ? 0.131 'SIDE CHAIN' 38 8 G A 16 ? ? 0.054 'SIDE CHAIN' 39 8 G A 20 ? ? 0.101 'SIDE CHAIN' 40 8 U A 23 ? ? 0.064 'SIDE CHAIN' 41 9 C A 1 ? ? 0.061 'SIDE CHAIN' 42 9 G A 3 ? ? 0.107 'SIDE CHAIN' 43 9 A A 5 ? ? 0.056 'SIDE CHAIN' 44 10 G A 2 ? ? 0.065 'SIDE CHAIN' 45 10 G A 6 ? ? 0.087 'SIDE CHAIN' 46 10 G A 15 ? ? 0.078 'SIDE CHAIN' 47 10 G A 22 ? ? 0.060 'SIDE CHAIN' 48 10 U A 23 ? ? 0.060 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 8Q4O _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _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 8Q4O _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 ;0.5 mM RNA (5'-R(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3'), 10 mM potassium phosphate, 10 mM potassium chloride, 90% H2O/10% D2O ; '90% H2O/10% D2O' Imino solution ? 2 ;1.0 mM RNA (5'-R(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3'), 10 mM potassium phosphate, 10 mM potassium chloride, 100% D2O ; '100% D2O' 'NonEx and Puckers' solution ? 3 ;0.8 mM RNA (5'-R(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3'), 10 mM potassium phosphate, 10 mM potassium chloride, 17 mg/mL Pf1 phage, 90% H2O/10% D2O ; '90% H2O/10% D2O' RDC 'filamentous virus' ? # 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(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3') ; 0.5 ? mM 'natural abundance' 1 'potassium phosphate' 10 ? mM 'natural abundance' 1 'potassium chloride' 10 ? mM 'natural abundance' 2 ;RNA (5'-R(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3') ; 1.0 ? mM 'natural abundance' 2 'potassium phosphate' 10 ? mM 'natural abundance' 2 'potassium chloride' 10 ? mM 'natural abundance' 3 ;RNA (5'-R(*CP*GP*GP*UP*AP*GP*CP*GP*GP*GP*UP*AP*UP*GP*GP*GP*UP*CP*CP*GP*GP*GP*U)-3') ; 0.8 ? mM 'natural abundance' 3 'potassium phosphate' 10 ? mM 'natural abundance' 3 'potassium chloride' 10 ? mM 'natural abundance' 3 'Pf1 phage' 17 ? mg/mL 'natural abundance' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength 20 _pdbx_nmr_exptl_sample_conditions.details ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_err 2 _pdbx_nmr_exptl_sample_conditions.ionic_strength_units mM _pdbx_nmr_exptl_sample_conditions.label Standard _pdbx_nmr_exptl_sample_conditions.pH_err 0.1 _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-1H NOESY' 1 isotropic 3 1 2 '2D 1H-1H COSY' 1 isotropic 4 1 3 'IPAP-edited HSQC' 1 anisotropic # loop_ _pdbx_nmr_refine.entry_id _pdbx_nmr_refine.method _pdbx_nmr_refine.details _pdbx_nmr_refine.software_ordinal 8Q4O 'simulated annealing' ? 3 8Q4O 'energy minimization' '100 structures obtained from simulated annealing were subjected to energy minimization with applied restraints.' 4 # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 1 collection TopSpin ? 'Bruker Biospin' 2 'chemical shift assignment' NMRFAM-SPARKY ? 'National Magnetic Resonance Facility at Madison' 3 '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 U OP3 O N N 111 U P P N N 112 U OP1 O N N 113 U OP2 O N N 114 U "O5'" O N N 115 U "C5'" C N N 116 U "C4'" C N R 117 U "O4'" O N N 118 U "C3'" C N S 119 U "O3'" O N N 120 U "C2'" C N R 121 U "O2'" O N N 122 U "C1'" C N R 123 U N1 N N N 124 U C2 C N N 125 U O2 O N N 126 U N3 N N N 127 U C4 C N N 128 U O4 O N N 129 U C5 C N N 130 U C6 C N N 131 U HOP3 H N N 132 U HOP2 H N N 133 U "H5'" H N N 134 U "H5''" H N N 135 U "H4'" H N N 136 U "H3'" H N N 137 U "HO3'" H N N 138 U "H2'" H N N 139 U "HO2'" H N N 140 U "H1'" H N N 141 U H3 H N N 142 U H5 H N N 143 U H6 H N N 144 # 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 U OP3 P sing N N 116 U OP3 HOP3 sing N N 117 U P OP1 doub N N 118 U P OP2 sing N N 119 U P "O5'" sing N N 120 U OP2 HOP2 sing N N 121 U "O5'" "C5'" sing N N 122 U "C5'" "C4'" sing N N 123 U "C5'" "H5'" sing N N 124 U "C5'" "H5''" sing N N 125 U "C4'" "O4'" sing N N 126 U "C4'" "C3'" sing N N 127 U "C4'" "H4'" sing N N 128 U "O4'" "C1'" sing N N 129 U "C3'" "O3'" sing N N 130 U "C3'" "C2'" sing N N 131 U "C3'" "H3'" sing N N 132 U "O3'" "HO3'" sing N N 133 U "C2'" "O2'" sing N N 134 U "C2'" "C1'" sing N N 135 U "C2'" "H2'" sing N N 136 U "O2'" "HO2'" sing N N 137 U "C1'" N1 sing N N 138 U "C1'" "H1'" sing N N 139 U N1 C2 sing N N 140 U N1 C6 sing N N 141 U C2 O2 doub N N 142 U C2 N3 sing N N 143 U N3 C4 sing N N 144 U N3 H3 sing N N 145 U C4 O4 doub N N 146 U C4 C5 sing N N 147 U C5 C6 doub N N 148 U C5 H5 sing N N 149 U C6 H6 sing N N 150 # _ndb_struct_conf_na.entry_id 8Q4O _ndb_struct_conf_na.feature '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 A 5 1_555 A U 23 1_555 0.130 -3.893 0.872 -12.817 5.945 58.225 1 A_A5:U23_A A 5 ? A 23 ? 23 3 1 A G 10 1_555 A G 16 1_555 2.699 2.567 -0.017 3.584 -4.964 -89.066 2 A_G10:G16_A A 10 ? A 16 ? 6 3 1 A G 6 1_555 A G 22 1_555 -2.710 -2.478 0.201 0.153 0.071 88.637 3 A_G6:G22_A A 6 ? A 22 ? 6 3 # 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 A 5 1_555 A U 23 1_555 A G 10 1_555 A G 16 1_555 0.171 -1.574 -3.029 -6.687 10.423 171.193 -0.779 -0.079 -3.041 5.227 3.353 171.245 1 AA_A5G10:G16U23_AA A 5 ? A 23 ? A 10 ? A 16 ? 1 A G 10 1_555 A G 16 1_555 A G 6 1_555 A G 22 1_555 1.885 3.254 0.246 1.869 -4.286 -179.398 -1.627 0.942 0.247 2.143 0.934 -179.398 2 AA_G10G6:G22G16_AA A 10 ? A 16 ? A 6 ? A 22 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Slovenian Research Agency' Slovenia P1-0242 1 'Slovenian Research Agency' Slovenia Z1-3192 2 # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model 'AVANCE NEO' _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.details 'HCNP cryoprobe' # _atom_sites.entry_id 8Q4O _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_