data_2JXV # _entry.id 2JXV # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.356 _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 2JXV pdb_00002jxv 10.2210/pdb2jxv/pdb RCSB RCSB100426 ? ? WWPDB D_1000100426 ? ? # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2JXV _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2007-11-30 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _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 'Cevec, M.' 1 'Thibaudeau, C.' 2 'Plavec, J.' 3 # _citation.id primary _citation.title 'Solution structure of a let-7 miRNA:lin-41 mRNA complex from C. elegans.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 36 _citation.page_first 2330 _citation.page_last 2337 _citation.year 2008 _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 18296482 _citation.pdbx_database_id_DOI 10.1093/nar/gkn088 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Cevec, M.' 1 ? primary 'Thibaudeau, C.' 2 ? primary 'Plavec, J.' 3 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description 'RNA (33-MER)' _entity.formula_weight 10625.362 _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 GGAGGUAGUAGGUCGAAAGACCAUUCUGCCUCC _entity_poly.pdbx_seq_one_letter_code_can GGAGGUAGUAGGUCGAAAGACCAUUCUGCCUCC _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 G n 1 2 G n 1 3 A n 1 4 G n 1 5 G n 1 6 U n 1 7 A n 1 8 G n 1 9 U n 1 10 A n 1 11 G n 1 12 G n 1 13 U n 1 14 C n 1 15 G n 1 16 A n 1 17 A n 1 18 A n 1 19 G n 1 20 A n 1 21 C n 1 22 C n 1 23 A n 1 24 U n 1 25 U n 1 26 C n 1 27 U n 1 28 G n 1 29 C n 1 30 C n 1 31 U n 1 32 C n 1 33 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 ? _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 'RNA was prepared by in vitro transcription using T7 RNA polymerase and DNA oligonucleotide template.' # _struct_ref.id 1 _struct_ref.db_code 2JXV _struct_ref.db_name PDB _struct_ref.entity_id 1 _struct_ref.pdbx_db_accession 2JXV _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_seq_one_letter_code GGAGGUAGUAGGUCGAAAGACCAUUCUGCCUCC _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2JXV _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 33 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2JXV _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 33 _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 33 # 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_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 1 2 1 '2D 15N-HSQC' 1 3 1 '2D 13C-HSQC' 1 4 1 '2D DQF-COSY' 1 5 1 '2D HNN-COSY' 1 6 1 '2D TOSCY' 1 7 1 '2D 1H-31P COSY' 1 8 1 '2D 15N-IPAP-HSQC' 1 9 1 '3D HCCH-TOCSY' 1 10 1 '3D HCCH-COSY' 1 11 1 '3D 13C-SEPARATED NOESY' # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.temperature_units 1 '20 mM NaCl' 6.7 ambient ? 298 K 2 '20 mM NaCl' 6.7 ambient ? 278 K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system '2 mM [U-13C; U-15N] RNA, 10 mM sodium phosphate, 20 mM NaCl, 95% H2O/5% D2O' 1 '95% H2O/5% D2O' '2 mM [U-13C; U-15N] RNA, 10 mM sodium phosphate, 20 mM NaCl, 100% D2O' 2 '100% D2O' '1 mM [U-13C; U-15N] RNA, 10 mM sodium phosphate, 20 mM NaCl, 17 mg/mL Pf1 phage, 90% H2O/10% D2O' 3 '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 800 Varian 'NMR System' 1 'Varian NMR System' 600 Varian INOVA 2 'Varian INOVA' # _pdbx_nmr_refine.entry_id 2JXV _pdbx_nmr_refine.method 'simulated annealing, energy minimization' _pdbx_nmr_refine.details ;693 NOE-derived distance restraints, 130 torsion angle restraints, 51 residual dipolar coupling restraints, 32 hydrogen bond restraints and 22 planarity restraints. ; _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy and least restraint violations' _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2JXV _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2JXV _pdbx_nmr_representative.selection_criteria 'closest to the average' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, Kollman' refinement Amber 9 1 'Accelrys Software Inc.' processing Felix 2002 2 Varian collection VnmrJ 2.1B 3 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2JXV _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2JXV _struct.title 'Solution structure of a let-7 miRNA:lin-41 mRNA complex from C. elegans' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2JXV _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'ASYMMETRIC INTERNAL LOOP, stem-loop, GAAA TETRALOOP, GU MISMATCH, RESIDUAL DIPOLAR COUPLINGS, 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_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 33 N3 ? ? A G 1 A C 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 33 O2 ? ? A G 1 A C 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 33 N4 ? ? A G 1 A C 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 32 N3 ? ? A G 2 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 32 O2 ? ? A G 2 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 32 N4 ? ? A G 2 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 A U 31 N3 ? ? A A 3 A U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 A U 31 O4 ? ? A A 3 A U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 30 N3 ? ? A G 4 A C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 30 O2 ? ? A G 4 A C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 30 N4 ? ? A G 4 A C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 29 N3 ? ? A G 5 A C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 29 O2 ? ? A G 5 A C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 29 N4 ? ? A G 5 A C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 N3 ? ? ? 1_555 A G 28 O6 ? ? A U 6 A G 28 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog16 hydrog ? ? A U 6 O2 ? ? ? 1_555 A G 28 N1 ? ? A U 6 A G 28 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog17 hydrog ? ? A A 7 N1 ? ? ? 1_555 A U 27 N3 ? ? A A 7 A U 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 7 N6 ? ? ? 1_555 A U 27 O4 ? ? A A 7 A U 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 8 N1 ? ? ? 1_555 A C 26 N3 ? ? A G 8 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 8 N2 ? ? ? 1_555 A C 26 O2 ? ? A G 8 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 8 O6 ? ? ? 1_555 A C 26 N4 ? ? A G 8 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 9 N3 ? ? ? 1_555 A U 25 O4 ? ? A U 9 A U 25 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog23 hydrog ? ? A A 10 N6 ? ? ? 1_555 A A 23 N1 ? ? A A 10 A A 23 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog24 hydrog ? ? A G 11 N1 ? ? ? 1_555 A C 22 N3 ? ? A G 11 A C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 11 N2 ? ? ? 1_555 A C 22 O2 ? ? A G 11 A C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 11 O6 ? ? ? 1_555 A C 22 N4 ? ? A G 11 A C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 12 N1 ? ? ? 1_555 A C 21 N3 ? ? A G 12 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 12 N2 ? ? ? 1_555 A C 21 O2 ? ? A G 12 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 12 O6 ? ? ? 1_555 A C 21 N4 ? ? A G 12 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A U 13 N3 ? ? ? 1_555 A A 20 N1 ? ? A U 13 A A 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A U 13 O4 ? ? ? 1_555 A A 20 N6 ? ? A U 13 A A 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 14 N3 ? ? ? 1_555 A G 19 N1 ? ? A C 14 A G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 14 N4 ? ? ? 1_555 A G 19 O6 ? ? A C 14 A G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 14 O2 ? ? ? 1_555 A G 19 N2 ? ? A C 14 A G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 15 N2 ? ? ? 1_555 A A 18 N7 ? ? A G 15 A A 18 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 2JXV _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_ _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 G 5 5 5 G G A . n A 1 6 U 6 6 6 U U A . n A 1 7 A 7 7 7 A A A . n A 1 8 G 8 8 8 G G A . n A 1 9 U 9 9 9 U U A . n A 1 10 A 10 10 10 A A A . n A 1 11 G 11 11 11 G G A . n A 1 12 G 12 12 12 G G A . n A 1 13 U 13 13 13 U U A . n A 1 14 C 14 14 14 C C A . n A 1 15 G 15 15 15 G G A . n A 1 16 A 16 16 16 A A A . n A 1 17 A 17 17 17 A A A . n A 1 18 A 18 18 18 A A A . n A 1 19 G 19 19 19 G G A . n A 1 20 A 20 20 20 A A A . n A 1 21 C 21 21 21 C C A . n A 1 22 C 22 22 22 C C A . n A 1 23 A 23 23 23 A A A . n A 1 24 U 24 24 24 U U A . n A 1 25 U 25 25 25 U U A . n A 1 26 C 26 26 26 C C A . n A 1 27 U 27 27 27 U U A . n A 1 28 G 28 28 28 G G A . n A 1 29 C 29 29 29 C C A . n A 1 30 C 30 30 30 C C A . n A 1 31 U 31 31 31 U U A . n A 1 32 C 32 32 32 C C A . n A 1 33 C 33 33 33 C C A . n # _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_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 # 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 2008-04-29 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-03-16 # _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' # 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_software 3 3 'Structure model' pdbx_struct_assembly 4 3 'Structure model' pdbx_struct_oper_list # 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_software.name' # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id RNA 2 mM '[U-13C; U-15N]' 1 'sodium phosphate' 10 mM ? 1 NaCl 20 mM ? 1 RNA 2 mM '[U-13C; U-15N]' 2 'sodium phosphate' 10 mM ? 2 NaCl 20 mM ? 2 RNA 1 mM '[U-13C; U-15N]' 3 'sodium phosphate' 10 mM ? 3 NaCl 20 mM ? 3 'Pf1 phage' 17 mg/mL ? 3 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2JXV _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count ? _pdbx_nmr_constraints.NOE_constraints_total 697 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 370 _pdbx_nmr_constraints.NOE_long_range_total_count ? _pdbx_nmr_constraints.NOE_medium_range_total_count 57 _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count 270 _pdbx_nmr_constraints.protein_chi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_other_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_phi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_psi_angle_constraints_total_count ? # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 6 _pdbx_validate_rmsd_angle.auth_atom_id_1 "C3'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 U _pdbx_validate_rmsd_angle.auth_seq_id_1 24 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C2'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 U _pdbx_validate_rmsd_angle.auth_seq_id_2 24 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 U _pdbx_validate_rmsd_angle.auth_seq_id_3 24 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 106.39 _pdbx_validate_rmsd_angle.angle_target_value 101.50 _pdbx_validate_rmsd_angle.angle_deviation 4.89 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.80 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2JXV 'double helix' 2JXV 'a-form double helix' 2JXV tetraloop 2JXV 'bulge loop' 2JXV '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 33 1_555 -0.422 -0.117 -0.599 -14.985 -13.832 1.740 1 A_G1:C33_A A 1 ? A 33 ? 19 1 1 A G 2 1_555 A C 32 1_555 -0.547 -0.147 -0.027 -9.749 -5.244 0.375 2 A_G2:C32_A A 2 ? A 32 ? 19 1 1 A A 3 1_555 A U 31 1_555 -0.003 -0.067 0.186 -4.683 -14.467 -0.904 3 A_A3:U31_A A 3 ? A 31 ? 20 1 1 A G 4 1_555 A C 30 1_555 -0.161 -0.048 0.190 -4.949 -13.086 -0.273 4 A_G4:C30_A A 4 ? A 30 ? 19 1 1 A G 5 1_555 A C 29 1_555 -0.418 -0.163 0.084 -8.156 -13.486 -3.385 5 A_G5:C29_A A 5 ? A 29 ? 19 1 1 A U 6 1_555 A G 28 1_555 2.772 -0.661 -0.316 4.955 -11.498 -2.424 6 A_U6:G28_A A 6 ? A 28 ? 28 ? 1 A A 7 1_555 A U 27 1_555 -0.169 0.002 0.080 -5.795 -4.536 3.586 7 A_A7:U27_A A 7 ? A 27 ? 20 1 1 A G 8 1_555 A C 26 1_555 -0.034 -0.123 0.140 1.380 -14.502 1.181 8 A_G8:C26_A A 8 ? A 26 ? 19 1 1 A U 9 1_555 A U 25 1_555 3.356 -1.779 0.304 0.249 -13.549 -6.840 9 A_U9:U25_A A 9 ? A 25 ? ? ? 1 A A 10 1_555 A A 23 1_555 -2.755 1.671 -0.542 21.264 -6.470 8.981 10 A_A10:A23_A A 10 ? A 23 ? ? 1 1 A G 11 1_555 A C 22 1_555 -0.165 -0.012 0.111 -10.314 -2.523 0.424 11 A_G11:C22_A A 11 ? A 22 ? 19 1 1 A G 12 1_555 A C 21 1_555 -0.067 -0.133 0.180 -5.161 -12.545 0.249 12 A_G12:C21_A A 12 ? A 21 ? 19 1 1 A U 13 1_555 A A 20 1_555 0.071 -0.035 0.099 -3.220 -15.837 5.245 13 A_U13:A20_A A 13 ? A 20 ? 20 1 1 A C 14 1_555 A G 19 1_555 0.707 -0.216 -0.113 11.270 -3.142 -2.698 14 A_C14:G19_A A 14 ? A 19 ? 19 1 1 A G 15 1_555 A A 18 1_555 7.297 -5.240 0.072 10.622 0.441 -24.215 15 A_G15:A18_A A 15 ? A 18 ? ? 10 # 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 33 1_555 A G 2 1_555 A C 32 1_555 0.369 -1.470 3.104 -5.826 14.253 30.391 -4.444 -1.419 2.120 25.255 10.322 33.987 1 AA_G1G2:C32C33_AA A 1 ? A 33 ? A 2 ? A 32 ? 1 A G 2 1_555 A C 32 1_555 A A 3 1_555 A U 31 1_555 0.669 -2.120 3.044 2.603 4.572 31.928 -4.528 -0.789 2.766 8.242 -4.693 32.347 2 AA_G2A3:U31C32_AA A 2 ? A 32 ? A 3 ? A 31 ? 1 A A 3 1_555 A U 31 1_555 A G 4 1_555 A C 30 1_555 -0.488 -1.939 3.133 -0.042 5.947 29.494 -4.833 0.933 2.699 11.534 0.081 30.075 3 AA_A3G4:C30U31_AA A 3 ? A 31 ? A 4 ? A 30 ? 1 A G 4 1_555 A C 30 1_555 A G 5 1_555 A C 29 1_555 0.165 -1.832 3.278 -1.101 5.340 28.799 -4.718 -0.553 2.891 10.616 2.189 29.300 4 AA_G4G5:C29C30_AA A 4 ? A 30 ? A 5 ? A 29 ? 1 A G 5 1_555 A C 29 1_555 A U 6 1_555 A G 28 1_555 -0.081 -1.523 3.032 2.723 -4.007 46.893 -1.594 0.312 3.135 -5.019 -3.411 47.128 5 AA_G5U6:G28C29_AA A 5 ? A 29 ? A 6 ? A 28 ? 1 A U 6 1_555 A G 28 1_555 A A 7 1_555 A U 27 1_555 0.341 -1.867 3.074 4.191 13.945 24.537 -6.361 0.077 1.806 29.703 -8.928 28.475 6 AA_U6A7:U27G28_AA A 6 ? A 28 ? A 7 ? A 27 ? 1 A A 7 1_555 A U 27 1_555 A G 8 1_555 A C 26 1_555 0.012 -1.678 3.162 -0.056 1.467 28.985 -3.657 -0.036 3.075 2.929 0.111 29.021 7 AA_A7G8:C26U27_AA A 7 ? A 27 ? A 8 ? A 26 ? 1 A G 8 1_555 A C 26 1_555 A U 9 1_555 A U 25 1_555 0.173 -1.359 3.265 -1.449 4.311 56.327 -1.674 -0.263 3.157 4.559 1.532 56.495 8 AA_G8U9:U25C26_AA A 8 ? A 26 ? A 9 ? A 25 ? 1 A U 9 1_555 A U 25 1_555 A A 10 1_555 A A 23 1_555 1.923 -4.050 3.651 -8.330 -12.843 9.600 -1.714 -13.386 3.936 -48.739 31.612 18.054 9 AA_U9A10:A23U25_AA A 9 ? A 25 ? A 10 ? A 23 ? 1 A A 10 1_555 A A 23 1_555 A G 11 1_555 A C 22 1_555 -0.279 -2.528 4.124 -8.763 3.572 37.800 -4.330 -0.896 3.846 5.410 13.273 38.924 10 AA_A10G11:C22A23_AA A 10 ? A 23 ? A 11 ? A 22 ? 1 A G 11 1_555 A C 22 1_555 A G 12 1_555 A C 21 1_555 -1.266 -2.238 3.061 0.522 -0.758 30.368 -4.128 2.515 3.093 -1.446 -0.997 30.382 11 AA_G11G12:C21C22_AA A 11 ? A 22 ? A 12 ? A 21 ? 1 A G 12 1_555 A C 21 1_555 A U 13 1_555 A A 20 1_555 0.368 -1.421 3.196 0.812 7.772 32.899 -3.614 -0.510 2.805 13.487 -1.409 33.790 12 AA_G12U13:A20C21_AA A 12 ? A 21 ? A 13 ? A 20 ? 1 A U 13 1_555 A A 20 1_555 A C 14 1_555 A G 19 1_555 -0.226 -1.447 3.049 -2.848 -0.017 34.843 -2.406 -0.026 3.058 -0.029 4.747 34.955 13 AA_U13C14:G19A20_AA A 13 ? A 20 ? A 14 ? A 19 ? 1 A C 14 1_555 A G 19 1_555 A G 15 1_555 A A 18 1_555 -1.753 -1.642 3.425 2.476 6.402 55.857 -2.109 2.001 3.160 6.805 -2.632 56.244 14 AA_C14G15:A18G19_AA A 14 ? A 19 ? A 15 ? A 18 ? #