data_5UZZ # _entry.id 5UZZ # _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 5UZZ pdb_00005uzz 10.2210/pdb5uzz/pdb WWPDB D_1000226681 ? ? BMRB 30258 ? ? # 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' 30258 unspecified PDB . 5UZT 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 5UZZ _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 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn pre-miR21 9912.896 1 ? ? ? ? 2 polymer syn '14-mer Peptide' 1812.225 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no GGUGUUGACUGUUGAAUCUCAUGGCAACACC GGUGUUGACUGUUGAAUCUCAUGGCAACACC A ? 2 'polypeptide(L)' no yes 'RVRTRGKRRIRR(DPR)P' RVRTRGKRRIRRPP B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 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 2 1 ARG n 2 2 VAL n 2 3 ARG n 2 4 THR n 2 5 ARG n 2 6 GLY n 2 7 LYS n 2 8 ARG n 2 9 ARG n 2 10 ILE n 2 11 ARG n 2 12 ARG n 2 13 DPR n 2 14 PRO n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? 'Homo sapiens' ? 9606 ? 2 1 sample ? ? 'synthetic construct' ? 32630 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 5UZZ 5UZZ ? 1 ? 1 2 PDB 5UZZ 5UZZ ? 2 ? 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 5UZZ A 1 ? 31 ? 5UZZ 22 ? 52 ? 22 52 2 2 5UZZ B 1 ? 14 ? 5UZZ 1 ? 14 ? 1 14 # 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 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 DPR 'D-peptide linking' . D-PROLINE ? 'C5 H9 N O2' 115.130 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # 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 TOCSY' 1 isotropic 2 1 1 '2D 1H-1H NOESY' 1 isotropic 3 1 1 '2D 1H-1H NOESY' 2 isotropic 4 2 2 '2D 1H-1H TOCSY' 1 isotropic 5 2 2 '2D 1H-1H NOESY' 1 isotropic 6 2 2 '2D 1H-15N HSQC' 1 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 1 310 atm 1 6.5 10 ;A 1:1 ratio of peptide to RNA was prepared and data collected at 37C. Preciptation was noted above 1:1 ratio and very broad lines below 37C. ; ? mM 'intermolecular NOEs' ? pH ? ? K 2 310 atm 1 6.5 10 'conditions for peptide assignments' ? mM 'free peptide' ? 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 ;0.8 mM pre-miR21, 0.8 mM ARG-VAL-ARG-THR-ARG-GLY-LYS-ARG-ARG-ILE-ARG-ARG-DPR-PRO, 10 mM potassium phosphate, 10 mM sodium chloride, 10 mM EDTA, 100% D2O ; '100% D2O' l50_miR_complex solution ? 2 '1 mM ARG-VAL-ARG-THR-ARG-GLY-LYS-ARG-ARG-ILE-ARG-ARG-DPR-PRO, 10 mM potassium phosphate, 10 mM sodium chloride, 95% H2O/5% D2O' '95% H2O/5% D2O' free_l50 solution ? # 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 'with tci cryoprobe' 2 'AVANCE III' ? Bruker 800 'with tci cryoprobe' # _pdbx_nmr_refine.entry_id 5UZZ _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 5UZZ _pdbx_nmr_ensemble.conformers_calculated_total_number 200 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the 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 5UZZ _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 1 refinement 'X-PLOR NIH' ? 'Schwieters, Kuszewski, Tjandra and Clore' 2 'structure calculation' 'X-PLOR NIH' ? 'Schwieters, Kuszewski, Tjandra and Clore' 3 'chemical shift assignment' Sparky ? Goddard 4 'peak picking' Sparky ? Goddard # _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 5UZZ _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 5UZZ _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 5UZZ _struct_keywords.text 'microRNA miR-21 oncomiR pre-miRNA, TRANSPORT PROTEIN-RNA complex' _struct_keywords.pdbx_keywords 'TRANSPORT PROTEIN/RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? B ARG 12 C ? ? ? 1_555 B DPR 13 N ? ? B ARG 12 B DPR 13 1_555 ? ? ? ? ? ? ? 1.306 ? ? covale2 covale both ? B DPR 13 C ? ? ? 1_555 B PRO 14 N ? ? B DPR 13 B PRO 14 1_555 ? ? ? ? ? ? ? 1.313 ? ? 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 C 9 N3 ? ? ? 1_555 A U 22 N3 ? ? A C 30 A U 43 1_555 ? ? ? ? ? ? TYPE_18_PAIR ? ? ? hydrog20 hydrog ? ? A C 9 N4 ? ? ? 1_555 A U 22 O4 ? ? A C 30 A U 43 1_555 ? ? ? ? ? ? TYPE_18_PAIR ? ? ? hydrog21 hydrog ? ? A U 10 N3 ? ? ? 1_555 A A 21 N3 ? ? A U 31 A A 42 1_555 ? ? ? ? ? ? 'U-A PAIR' ? ? ? hydrog22 hydrog ? ? A G 11 N1 ? ? ? 1_555 A C 20 O2 ? ? A G 32 A C 41 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _struct_sheet.id AA1 _struct_sheet.type ? _struct_sheet.number_strands 2 _struct_sheet.details ? # _struct_sheet_order.sheet_id AA1 _struct_sheet_order.range_id_1 1 _struct_sheet_order.range_id_2 2 _struct_sheet_order.offset ? _struct_sheet_order.sense anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 VAL B 2 ? ARG B 5 ? VAL B 2 ARG B 5 AA1 2 ARG B 8 ? ARG B 11 ? ARG B 8 ARG B 11 # _pdbx_struct_sheet_hbond.sheet_id AA1 _pdbx_struct_sheet_hbond.range_id_1 1 _pdbx_struct_sheet_hbond.range_id_2 2 _pdbx_struct_sheet_hbond.range_1_label_atom_id N _pdbx_struct_sheet_hbond.range_1_label_comp_id ARG _pdbx_struct_sheet_hbond.range_1_label_asym_id B _pdbx_struct_sheet_hbond.range_1_label_seq_id 3 _pdbx_struct_sheet_hbond.range_1_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_1_auth_atom_id N _pdbx_struct_sheet_hbond.range_1_auth_comp_id ARG _pdbx_struct_sheet_hbond.range_1_auth_asym_id B _pdbx_struct_sheet_hbond.range_1_auth_seq_id 3 _pdbx_struct_sheet_hbond.range_2_label_atom_id O _pdbx_struct_sheet_hbond.range_2_label_comp_id ILE _pdbx_struct_sheet_hbond.range_2_label_asym_id B _pdbx_struct_sheet_hbond.range_2_label_seq_id 10 _pdbx_struct_sheet_hbond.range_2_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_2_auth_atom_id O _pdbx_struct_sheet_hbond.range_2_auth_comp_id ILE _pdbx_struct_sheet_hbond.range_2_auth_asym_id B _pdbx_struct_sheet_hbond.range_2_auth_seq_id 10 # _atom_sites.entry_id 5UZZ _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 B 2 1 ARG 1 1 1 ARG ARG B . n B 2 2 VAL 2 2 2 VAL VAL B . n B 2 3 ARG 3 3 3 ARG ARG B . n B 2 4 THR 4 4 4 THR THR B . n B 2 5 ARG 5 5 5 ARG ARG B . n B 2 6 GLY 6 6 6 GLY GLY B . n B 2 7 LYS 7 7 7 LYS LYS B . n B 2 8 ARG 8 8 8 ARG ARG B . n B 2 9 ARG 9 9 9 ARG ARG B . n B 2 10 ILE 10 10 10 ILE ILE B . n B 2 11 ARG 11 11 11 ARG ARG B . n B 2 12 ARG 12 12 12 ARG ARG B . n B 2 13 DPR 13 13 13 DPR DPR B . n B 2 14 PRO 14 14 14 PRO PRO B . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation ? _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 2017-06-14 2 'Structure model' 1 1 2017-06-28 3 'Structure model' 1 2 2017-09-13 4 'Structure model' 1 3 2020-01-01 5 'Structure model' 1 4 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' 'Author supporting evidence' 4 4 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 '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 3 'Structure model' pdbx_audit_support 3 4 'Structure model' pdbx_audit_support 4 4 'Structure model' pdbx_nmr_software 5 4 'Structure model' pdbx_nmr_spectrometer 6 5 'Structure model' database_2 7 5 'Structure model' pdbx_database_status # 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 3 'Structure model' '_pdbx_audit_support.funding_organization' 6 4 'Structure model' '_pdbx_audit_support.funding_organization' 7 4 'Structure model' '_pdbx_nmr_software.name' 8 4 'Structure model' '_pdbx_nmr_spectrometer.model' 9 5 'Structure model' '_database_2.pdbx_DOI' 10 5 'Structure model' '_database_2.pdbx_database_accession' 11 5 'Structure model' '_pdbx_database_status.status_code_nmr_data' # 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-miR21 0.8 ? mM 'natural abundance' 1 ARG-VAL-ARG-THR-ARG-GLY-LYS-ARG-ARG-ILE-ARG-ARG-DPR-PRO 0.8 ? mM 'natural abundance' 1 'potassium phosphate' 10 ? mM 'natural abundance' 1 'sodium chloride' 10 ? mM 'natural abundance' 1 EDTA 10 ? mM 'natural abundance' 2 ARG-VAL-ARG-THR-ARG-GLY-LYS-ARG-ARG-ILE-ARG-ARG-DPR-PRO 1 ? mM 'natural abundance' 2 'potassium phosphate' 10 ? mM 'natural abundance' 2 'sodium chloride' 10 ? mM '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 N B ARG 1 ? ? C B PRO 14 ? ? 1.33 2 1 "HO2'" A A 29 ? ? "O5'" A C 30 ? ? 1.54 3 1 "O2'" A A 29 ? ? H6 A C 30 ? ? 1.57 4 2 HH21 B ARG 3 ? ? H B THR 4 ? ? 1.19 5 2 N B ARG 1 ? ? C B PRO 14 ? ? 1.34 6 2 O B ARG 3 ? ? H B ILE 10 ? ? 1.57 7 2 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.58 8 2 "O2'" A G 28 ? ? H8 A A 29 ? ? 1.59 9 3 H62 A A 42 ? ? HH12 B ARG 1 ? ? 1.31 10 3 N B ARG 1 ? ? C B PRO 14 ? ? 1.33 11 3 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.53 12 3 O B ARG 3 ? ? H B ILE 10 ? ? 1.54 13 4 N B ARG 1 ? ? C B PRO 14 ? ? 1.32 14 4 "O2'" A U 40 ? ? H6 A C 41 ? ? 1.51 15 4 "HO2'" A G 45 ? ? "O4'" A C 46 ? ? 1.55 16 4 "O2'" A C 39 ? ? H6 A U 40 ? ? 1.56 17 5 N B ARG 1 ? ? C B PRO 14 ? ? 1.33 18 5 "O2'" A U 40 ? ? H6 A C 41 ? ? 1.53 19 5 "HO2'" A U 40 ? ? "O5'" A C 41 ? ? 1.58 20 5 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.59 21 5 "HO2'" A U 38 ? ? "O4'" A C 39 ? ? 1.59 22 5 "HO2'" A G 22 ? ? "O5'" A G 23 ? ? 1.59 23 6 N B ARG 1 ? ? C B PRO 14 ? ? 1.33 24 6 "HO2'" A G 32 ? ? "O5'" A U 33 ? ? 1.35 25 6 "O2'" A A 29 ? ? H6 A C 30 ? ? 1.56 26 6 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.57 27 7 N B ARG 1 ? ? C B PRO 14 ? ? 1.33 28 7 "HO2'" A G 45 ? ? "O5'" A C 46 ? ? 1.47 29 7 "HO2'" A U 40 ? ? "O5'" A C 41 ? ? 1.49 30 7 "O2'" A U 40 ? ? H6 A C 41 ? ? 1.51 31 7 "O2'" A A 36 ? ? "H5'" A A 37 ? ? 1.53 32 7 H22 A G 32 ? ? O6 A G 35 ? ? 1.53 33 7 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.57 34 7 O B ARG 3 ? ? H B ILE 10 ? ? 1.58 35 7 "O2'" A G 35 ? ? H8 A A 36 ? ? 1.58 36 8 H42 A C 30 ? ? HE B ARG 1 ? ? 1.25 37 8 HE B ARG 3 ? ? H B THR 4 ? ? 1.29 38 8 N B ARG 1 ? ? C B PRO 14 ? ? 1.34 39 8 O2 A U 34 ? ? H62 A A 36 ? ? 1.55 40 8 OP2 A U 38 ? ? H42 A C 41 ? ? 1.55 41 8 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.59 42 9 H42 A C 41 ? ? HH11 B ARG 9 ? ? 1.32 43 9 N B ARG 1 ? ? C B PRO 14 ? ? 1.34 44 9 "O2'" A C 39 ? ? H6 A U 40 ? ? 1.49 45 9 "O2'" A C 41 ? ? H8 A A 42 ? ? 1.49 46 9 "HO2'" A C 39 ? ? "O5'" A U 40 ? ? 1.56 47 9 H22 A G 44 ? ? O6 A G 45 ? ? 1.58 48 9 O2 A C 30 ? ? H5 A U 31 ? ? 1.59 49 9 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.59 50 10 N B ARG 1 ? ? C B PRO 14 ? ? 1.33 51 10 "O2'" A C 41 ? ? H8 A A 42 ? ? 1.53 52 10 "O2'" A A 29 ? ? H6 A C 30 ? ? 1.57 53 10 "HO2'" A G 44 ? ? "O5'" A G 45 ? ? 1.59 54 10 "O2'" A G 22 ? ? H8 A G 23 ? ? 1.59 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 3 LYS B 7 ? ? 39.41 39.97 2 6 LYS B 7 ? ? 37.74 38.48 3 7 LYS B 7 ? ? 35.25 39.92 4 10 LYS B 7 ? ? -140.30 45.01 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5UZZ 'double helix' 5UZZ 'a-form double helix' 5UZZ 'hairpin loop' 5UZZ 'mismatched base pair' 5UZZ 'internal loop' # 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 -0.054 -0.285 -0.599 8.614 16.084 -5.573 1 A_G22:C52_A A 22 ? A 52 ? 19 1 1 A G 2 1_555 A C 30 1_555 -0.113 -0.183 -0.152 -0.727 -11.753 -0.612 2 A_G23:C51_A A 23 ? A 51 ? 19 1 1 A U 3 1_555 A A 29 1_555 0.096 -0.213 0.173 -1.679 -12.123 -0.096 3 A_U24:A50_A A 24 ? A 50 ? 20 1 1 A G 4 1_555 A C 28 1_555 -0.151 -0.193 -0.198 -0.515 -11.598 0.085 4 A_G25:C49_A A 25 ? A 49 ? 19 1 1 A U 5 1_555 A A 27 1_555 0.216 -0.236 -0.005 0.905 -13.326 1.496 5 A_U26:A48_A A 26 ? A 48 ? 20 1 1 A U 6 1_555 A A 26 1_555 0.343 -0.272 0.230 -1.934 -9.000 2.438 6 A_U27:A47_A A 27 ? A 47 ? 20 1 1 A G 7 1_555 A C 25 1_555 -0.061 -0.182 -0.185 10.667 9.056 -3.127 7 A_G28:C46_A A 28 ? A 46 ? 19 1 1 A C 9 1_555 A U 22 1_555 -0.110 -1.803 -0.327 12.983 -1.153 23.356 8 A_C30:U43_A A 30 ? A 43 ? 18 1 1 A U 10 1_555 A A 21 1_555 -3.120 -1.992 -2.148 -7.973 3.385 5.258 9 A_U31:A42_A A 31 ? A 42 ? ? 1 1 A G 11 1_555 A C 20 1_555 -2.229 0.542 -1.042 -22.340 1.451 4.098 10 A_G32:C41_A A 32 ? A 41 ? ? ? # 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 -0.088 -1.390 3.794 -7.037 -2.103 31.040 -2.081 -1.348 3.805 -3.863 12.923 31.876 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 0.021 -1.501 3.406 -1.459 6.127 32.852 -3.622 -0.278 3.080 10.711 2.551 33.434 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 -0.024 -1.591 3.078 1.531 11.268 29.051 -4.799 0.294 2.311 21.454 -2.915 31.153 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 0.136 -1.414 3.259 -0.691 8.914 32.117 -3.863 -0.346 2.775 15.735 1.220 33.307 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 0.104 -1.512 3.381 -1.087 11.815 31.171 -4.516 -0.354 2.644 21.055 1.937 33.300 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 -0.334 -1.461 3.112 3.482 17.355 26.226 -5.332 1.145 1.771 33.791 -6.779 31.553 6 AA_U27G28:C46A47_AA A 27 ? A 47 ? A 28 ? A 46 ? 1 A C 9 1_555 A U 22 1_555 A U 10 1_555 A A 21 1_555 -1.535 -2.616 4.111 5.932 14.114 17.844 -10.840 5.628 1.190 37.717 -15.853 23.471 7 AA_C30U31:A42U43_AA A 30 ? A 43 ? A 31 ? A 42 ? 1 A U 10 1_555 A A 21 1_555 A G 11 1_555 A C 20 1_555 -0.123 -1.668 4.355 -3.574 8.953 31.757 -4.831 -0.546 3.751 15.909 6.350 33.152 8 AA_U31G32:C41A42_AA A 31 ? A 42 ? A 32 ? A 41 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' 'United States' 'RO1 GM103834' 1 'American Cancer Society' 'United States' PF-13-056-01-RMC 2 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #