data_5UZT # _entry.id 5UZT # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.371 _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 5UZT pdb_00005uzt 10.2210/pdb5uzt/pdb WWPDB D_1000226629 ? ? BMRB 30257 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type BMRB 'Structure of wild type pre-miR21 apical loop' 30257 unspecified PDB . 5UZZ unspecified PDB . 5V29 unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _pdbx_database_status.entry_id 5UZT _pdbx_database_status.recvd_initial_deposition_date 2017-02-27 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Shortridge, M.D.' 1 ? 'Varani, G.' 2 ? # _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 Chem. Biol.' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1554-8937 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 12 _citation.language ? _citation.page_first 1611 _citation.page_last 1620 _citation.title 'A Macrocyclic Peptide Ligand Binds the Oncogenic MicroRNA-21 Precursor and Suppresses Dicer Processing.' _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acschembio.7b00180 _citation.pdbx_database_id_PubMed 28437065 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Shortridge, M.D.' 1 ? primary 'Walker, M.J.' 2 ? primary 'Pavelitz, T.' 3 ? primary 'Chen, Y.' 4 ? primary 'Yang, W.' 5 ? primary 'Varani, G.' 6 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description pre-miR-21 _entity.formula_weight 9912.896 _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 GGUGUUGACUGUUGAAUCUCAUGGCAACACC _entity_poly.pdbx_seq_one_letter_code_can GGUGUUGACUGUUGAAUCUCAUGGCAACACC _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 U n 1 4 G n 1 5 U n 1 6 U n 1 7 G n 1 8 A n 1 9 C n 1 10 U n 1 11 G n 1 12 U n 1 13 U n 1 14 G n 1 15 A n 1 16 A n 1 17 U n 1 18 C n 1 19 U n 1 20 C n 1 21 A n 1 22 U n 1 23 G n 1 24 G n 1 25 C n 1 26 A n 1 27 A n 1 28 C n 1 29 A n 1 30 C n 1 31 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 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5UZT _struct_ref.pdbx_db_accession 5UZT _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 5UZT _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 31 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 5UZT _struct_ref_seq.db_align_beg 22 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 52 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 22 _struct_ref_seq.pdbx_auth_seq_align_end 52 # 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.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 3 2 2 '2D 1H-1H TOCSY' 1 isotropic 6 2 2 '2D 1H-1H NOESY' 2 isotropic 2 2 3 '3D 1H-13C NOESY' 2 isotropic 4 1 4 '2D 1H-15N HSQC' 2 isotropic 5 1 4 '3D 1H-15N NOESY' 2 isotropic # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.details _pdbx_nmr_exptl_sample_conditions.ionic_strength_err _pdbx_nmr_exptl_sample_conditions.ionic_strength_units _pdbx_nmr_exptl_sample_conditions.label _pdbx_nmr_exptl_sample_conditions.pH_err _pdbx_nmr_exptl_sample_conditions.pH_units _pdbx_nmr_exptl_sample_conditions.pressure_err _pdbx_nmr_exptl_sample_conditions.temperature_err _pdbx_nmr_exptl_sample_conditions.temperature_units 1 278 atm 1 6.5 10 ;Sample conditions to identify exchangeable protons and 15N chemical shifts. Low temperatures were used to reduce base-pair breathing and exchange with solvent. The RNA sample was snapped cooled prior to NMR data collection (heated 95C for 4min then at -20C until frozen, sample was thawed on ice prior to data collection) ; ? mM conditions_1 ? pH ? ? K 2 310 atm 1 6.5 10 ;Sample conditions to identify non-exchangeable protons and 13C chemical shifts. The RNA sample was snapped cooled prior to NMR data collection (heated 95C for 4min then at -20C until frozen, sample was thawed on ice prior to data collection) ; ? mM conditions_2 ? pH ? ? K # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system _pdbx_nmr_sample_details.label _pdbx_nmr_sample_details.type _pdbx_nmr_sample_details.details 1 '1.1 mM pre-miR-21, 10 mM potassium phosphate, 10 mM sodium chloride, 0.01 mM EDTA, 95% H2O/5% D2O' '95% H2O/5% D2O' 'Exchangeable protons' solution 'standard nmr buffer for RNA hairpins' 2 '1.1 mM pre-miR-21, 10 mM potassium phosphate, 10 mM sodium chloride, 0.01 mM EDTA, 100% D2O' '100% D2O' 'Non-exchangeable protons' solution 'standard nmr buffer for RNA hairpins' 3 '0.5 mM [U-99% 13C; U-99% 15N] pre-miR-21, 10 mM potassium phosphate, 10 mM sodium chloride, 0.01 mM EDTA, 100% D2O' '100% D2O' 'Labeled RNA' solution 'uniformly labeled RNA sample' 4 '0.5 mM [U-99% 13C; U-99% 15N] pre-miR-21, 10 mM potassium phosphate, 10 mM sodium chloride, 0.01 g/L EDTA, 95% H2O/5% D2O' '95% H2O/5% D2O' 'Labeled RNA2' solution 'uniformly labeled RNA sample' # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.details 1 DRX ? Bruker 500 ? 2 'AVANCE III' ? Bruker 800 ? # _pdbx_nmr_refine.entry_id 5UZT _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 2 # _pdbx_nmr_ensemble.entry_id 5UZT _pdbx_nmr_ensemble.conformers_calculated_total_number 125 _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 5UZT _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 2 refinement 'X-PLOR NIH' ? 'Schwieters, Kuszewski, Tjandra and Clore' 3 'chemical shift assignment' Analysis ? CCPN 4 'chemical shift assignment' Sparky ? Goddard 6 processing NMRPipe ? 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' 7 processing TopSpin ? 'Bruker Biospin' # _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 5UZT _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 5UZT _struct.title 'Structure of wild type pre-miR21 apical loop' _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 5UZT _struct_keywords.text 'microRNA miR-21 oncomiR pre-miRNA, 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 ? # 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 31 N3 ? ? A G 22 A C 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 31 O2 ? ? A G 22 A C 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 31 N4 ? ? A G 22 A C 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 30 N3 ? ? A G 23 A C 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 30 O2 ? ? A G 23 A C 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 30 N4 ? ? A G 23 A C 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 3 N3 ? ? ? 1_555 A A 29 N1 ? ? A U 24 A A 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A U 3 O4 ? ? ? 1_555 A A 29 N6 ? ? A U 24 A A 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 28 N3 ? ? A G 25 A C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 28 O2 ? ? A G 25 A C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 28 N4 ? ? A G 25 A C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 5 N3 ? ? ? 1_555 A A 27 N1 ? ? A U 26 A A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 O4 ? ? ? 1_555 A A 27 N6 ? ? A U 26 A A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 6 N3 ? ? ? 1_555 A A 26 N1 ? ? A U 27 A A 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 O4 ? ? ? 1_555 A A 26 N6 ? ? A U 27 A A 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 25 N3 ? ? A G 28 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 25 O2 ? ? A G 28 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 25 N4 ? ? A G 28 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 8 N6 ? ? ? 1_555 A C 25 N3 ? ? A A 29 A C 46 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog20 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 24 N1 ? ? A C 30 A G 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 24 O6 ? ? A C 30 A G 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 24 N2 ? ? A C 30 A G 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A U 10 N3 ? ? ? 1_555 A G 23 O6 ? ? A U 31 A G 44 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog24 hydrog ? ? A U 10 O2 ? ? ? 1_555 A G 23 N1 ? ? A U 31 A G 44 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog25 hydrog ? ? A G 11 N2 ? ? ? 1_555 A U 22 O2 ? ? A G 32 A U 43 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog26 hydrog ? ? A G 14 N2 ? ? ? 1_555 A A 16 N7 ? ? A G 35 A A 37 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 5UZT _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 22 22 G G A . n A 1 2 G 2 23 23 G G A . n A 1 3 U 3 24 24 U U A . n A 1 4 G 4 25 25 G G A . n A 1 5 U 5 26 26 U U A . n A 1 6 U 6 27 27 U U A . n A 1 7 G 7 28 28 G G A . n A 1 8 A 8 29 29 A A A . n A 1 9 C 9 30 30 C C A . n A 1 10 U 10 31 31 U U A . n A 1 11 G 11 32 32 G G A . n A 1 12 U 12 33 33 U U A . n A 1 13 U 13 34 34 U U A . n A 1 14 G 14 35 35 G G A . n A 1 15 A 15 36 36 A A A . n A 1 16 A 16 37 37 A A A . n A 1 17 U 17 38 38 U U A . n A 1 18 C 18 39 39 C C A . n A 1 19 U 19 40 40 U U A . n A 1 20 C 20 41 41 C C A . n A 1 21 A 21 42 42 A A A . n A 1 22 U 22 43 43 U U A . n A 1 23 G 23 44 44 G G A . n A 1 24 G 24 45 45 G G A . n A 1 25 C 25 46 46 C C A . n A 1 26 A 26 47 47 A A A . n A 1 27 A 27 48 48 A A A . n A 1 28 C 28 49 49 C C A . n A 1 29 A 29 50 50 A A A . n A 1 30 C 30 51 51 C C A . n A 1 31 C 31 52 52 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 ? _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 2017-05-10 2 'Structure model' 1 1 2017-06-28 3 'Structure model' 1 2 2017-09-27 4 'Structure model' 1 3 2023-06-14 # _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' 'Author supporting evidence' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' Other # 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' pdbx_audit_support 4 4 'Structure model' database_2 5 4 'Structure model' pdbx_database_status 6 4 'Structure model' pdbx_nmr_software 7 4 'Structure model' pdbx_nmr_spectrometer # 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.country' 2 2 'Structure model' '_citation.journal_volume' 3 2 'Structure model' '_citation.page_first' 4 2 'Structure model' '_citation.page_last' 5 2 'Structure model' '_citation.title' 6 4 'Structure model' '_database_2.pdbx_DOI' 7 4 'Structure model' '_database_2.pdbx_database_accession' 8 4 'Structure model' '_pdbx_database_status.status_code_nmr_data' 9 4 'Structure model' '_pdbx_nmr_software.name' 10 4 'Structure model' '_pdbx_nmr_spectrometer.model' # 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 pre-miR-21 1.1 ? mM 'natural abundance' 1 'potassium phosphate' 10 ? mM 'natural abundance' 1 'sodium chloride' 10 ? mM 'natural abundance' 1 EDTA 0.01 ? mM 'natural abundance' 2 pre-miR-21 1.1 ? mM 'natural abundance' 2 'potassium phosphate' 10 ? mM 'natural abundance' 2 'sodium chloride' 10 ? mM 'natural abundance' 2 EDTA 0.01 ? mM 'natural abundance' 3 pre-miR-21 0.5 ? mM '[U-99% 13C; U-99% 15N]' 3 'potassium phosphate' 10 ? mM 'natural abundance' 3 'sodium chloride' 10 ? mM 'natural abundance' 3 EDTA 0.01 ? mM 'natural abundance' 4 pre-miR-21 0.5 ? mM '[U-99% 13C; U-99% 15N]' 4 'potassium phosphate' 10 ? mM 'natural abundance' 4 'sodium chloride' 10 ? mM 'natural abundance' 4 EDTA 0.01 ? g/L 'natural abundance' # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 "O2'" A U 34 ? ? H8 A G 35 ? ? 1.52 2 1 "HO2'" A A 29 ? ? "O5'" A C 30 ? ? 1.52 3 1 "HO2'" A G 22 ? ? "O5'" A G 23 ? ? 1.54 4 1 N3 A C 30 ? ? H1 A G 45 ? ? 1.55 5 2 N3 A C 30 ? ? H1 A G 45 ? ? 1.53 6 2 "O2'" A U 43 ? ? H8 A G 44 ? ? 1.54 7 2 H1 A G 35 ? ? OP2 A U 38 ? ? 1.56 8 2 "O2'" A A 29 ? ? H6 A C 30 ? ? 1.59 9 2 "HO2'" A G 22 ? ? "O5'" A G 23 ? ? 1.60 10 3 N3 A C 30 ? ? H1 A G 45 ? ? 1.52 11 3 "HO2'" A A 29 ? ? "O5'" A C 30 ? ? 1.53 12 3 "O2'" A U 43 ? ? H8 A G 44 ? ? 1.58 13 4 N3 A C 30 ? ? H1 A G 45 ? ? 1.48 14 4 "O2'" A A 42 ? ? "H5'" A U 43 ? ? 1.56 15 5 "O2'" A A 36 ? ? H8 A A 37 ? ? 1.49 16 5 N3 A C 30 ? ? H1 A G 45 ? ? 1.50 17 5 "O2'" A U 34 ? ? H8 A G 35 ? ? 1.54 18 5 "O2'" A A 42 ? ? "H5'" A U 43 ? ? 1.56 19 6 N3 A C 30 ? ? H1 A G 45 ? ? 1.50 20 6 "O2'" A U 43 ? ? H8 A G 44 ? ? 1.51 21 6 H1 A G 35 ? ? OP2 A U 38 ? ? 1.51 22 7 "O2'" A U 43 ? ? H8 A G 44 ? ? 1.50 23 7 "HO2'" A A 29 ? ? "O5'" A C 30 ? ? 1.50 24 7 H1 A G 35 ? ? OP2 A U 38 ? ? 1.54 25 7 N3 A C 30 ? ? H1 A G 45 ? ? 1.54 26 7 "HO2'" A C 41 ? ? "O5'" A A 42 ? ? 1.59 27 8 "O2'" A A 42 ? ? "H5'" A U 43 ? ? 1.55 28 8 N3 A C 30 ? ? H1 A G 45 ? ? 1.57 29 9 H1 A G 35 ? ? OP2 A U 38 ? ? 1.44 30 9 N3 A C 30 ? ? H1 A G 45 ? ? 1.53 31 9 "O2'" A G 32 ? ? H6 A U 33 ? ? 1.56 32 10 "O2'" A A 37 ? ? H6 A U 38 ? ? 1.46 33 10 N3 A C 30 ? ? H1 A G 45 ? ? 1.54 34 10 "HO2'" A G 22 ? ? "O5'" A G 23 ? ? 1.57 35 10 "O2'" A A 29 ? ? H6 A C 30 ? ? 1.59 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5UZT 'double helix' 5UZT 'a-form double helix' 5UZT 'bulge loop' 5UZT 'triple 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 A C 31 1_555 -0.076 -0.213 -0.253 5.478 14.466 -3.514 1 A_G22:C52_A A 22 ? A 52 ? 19 1 1 A G 2 1_555 A C 30 1_555 -0.107 -0.184 -0.053 0.398 -13.080 -0.893 2 A_G23:C51_A A 23 ? A 51 ? 19 1 1 A U 3 1_555 A A 29 1_555 0.141 -0.247 0.260 -1.860 -15.430 -0.681 3 A_U24:A50_A A 24 ? A 50 ? 20 1 1 A G 4 1_555 A C 28 1_555 -0.135 -0.192 -0.042 -1.598 -12.479 -0.873 4 A_G25:C49_A A 25 ? A 49 ? 19 1 1 A U 5 1_555 A A 27 1_555 0.175 -0.242 0.083 1.036 -15.917 0.257 5 A_U26:A48_A A 26 ? A 48 ? 20 1 1 A U 6 1_555 A A 26 1_555 0.111 -0.233 0.173 -1.174 -14.318 0.136 6 A_U27:A47_A A 27 ? A 47 ? 20 1 1 A G 7 1_555 A C 25 1_555 -0.057 -0.184 -0.086 -0.020 -3.010 -2.563 7 A_G28:C46_A A 28 ? A 46 ? 19 1 1 A C 9 1_555 A G 24 1_555 0.276 -0.541 -0.292 -8.535 -20.572 7.298 8 A_C30:G45_A A 30 ? A 45 ? 19 1 1 A U 10 1_555 A G 23 1_555 2.051 -0.481 -0.372 -9.221 -6.157 4.542 9 A_U31:G44_A A 31 ? A 44 ? 28 1 1 A G 11 1_555 A U 22 1_555 -1.044 0.036 -2.314 -11.728 16.400 -1.096 10 A_G32:U43_A A 32 ? A 43 ? ? 1 1 A G 14 1_555 A A 16 1_555 6.730 -6.263 -1.483 41.633 13.521 -98.734 11 A_G35:A37_A A 35 ? A 37 ? ? ? # 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 31 1_555 A G 2 1_555 A C 30 1_555 -0.184 -1.377 3.571 -5.477 -2.605 31.162 -1.985 -0.785 3.650 -4.792 10.076 31.732 1 AA_G22G23:C51C52_AA A 22 ? A 52 ? A 23 ? A 51 ? 1 A G 2 1_555 A C 30 1_555 A U 3 1_555 A A 29 1_555 -0.019 -1.490 3.416 -1.295 6.708 33.145 -3.645 -0.177 3.063 11.605 2.241 33.823 2 AA_G23U24:A50C51_AA A 23 ? A 51 ? A 24 ? A 50 ? 1 A U 3 1_555 A A 29 1_555 A G 4 1_555 A C 28 1_555 -0.032 -1.609 3.085 0.907 10.804 28.928 -4.828 0.212 2.344 20.731 -1.740 30.852 3 AA_U24G25:C49A50_AA A 24 ? A 50 ? A 25 ? A 49 ? 1 A G 4 1_555 A C 28 1_555 A U 5 1_555 A A 27 1_555 0.091 -1.417 3.207 -0.426 6.911 32.348 -3.584 -0.227 2.850 12.230 0.754 33.062 4 AA_G25U26:A48C49_AA A 25 ? A 49 ? A 26 ? A 48 ? 1 A U 5 1_555 A A 27 1_555 A U 6 1_555 A A 26 1_555 0.013 -1.503 3.359 -0.106 8.601 31.319 -4.151 -0.041 2.856 15.568 0.192 32.451 5 AA_U26U27:A47A48_AA A 26 ? A 48 ? A 27 ? A 47 ? 1 A U 6 1_555 A A 26 1_555 A G 7 1_555 A C 25 1_555 -0.065 -1.657 3.266 0.387 10.761 29.273 -4.959 0.188 2.513 20.441 -0.736 31.150 6 AA_U27G28:C46A47_AA A 27 ? A 47 ? A 28 ? A 46 ? 1 A G 7 1_555 A C 25 1_555 A C 9 1_555 A G 24 1_555 -1.382 -1.558 5.908 19.679 -5.175 49.691 -1.154 3.735 5.185 -5.882 -22.367 53.451 7 AA_G28C30:G45C46_AA A 28 ? A 46 ? A 30 ? A 45 ? 1 A C 9 1_555 A G 24 1_555 A U 10 1_555 A G 23 1_555 -0.033 -1.349 3.588 2.148 4.571 35.215 -2.922 0.390 3.384 7.507 -3.529 35.564 8 AA_C30U31:G44G45_AA A 30 ? A 45 ? A 31 ? A 44 ? 1 A U 10 1_555 A G 23 1_555 A G 11 1_555 A U 22 1_555 0.516 -1.804 3.899 18.433 2.332 17.154 -4.972 5.494 2.870 5.980 -47.268 25.237 9 AA_U31G32:U43G44_AA A 31 ? A 44 ? A 32 ? A 43 ? # _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 ? #