data_1TXS # _entry.id 1TXS # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.355 _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 1TXS pdb_00001txs 10.2210/pdb1txs/pdb RCSB RCSB023012 ? ? WWPDB D_1000023012 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1TXS _pdbx_database_status.recvd_initial_deposition_date 2004-07-06 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _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 'Du, Z.' 1 'Yu, J.' 2 'Ulyanov, N.B.' 3 'Andino, R.' 4 'James, T.L.' 5 # _citation.id primary _citation.title ;Solution Structure of a Consensus Stem-Loop D RNA Domain that Plays Important Roles in Regulating Translation and Replication in Enteroviruses and Rhinoviruses ; _citation.journal_abbrev Biochemistry _citation.journal_volume 43 _citation.page_first 11959 _citation.page_last 11972 _citation.year 2004 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15379536 _citation.pdbx_database_id_DOI 10.1021/bi048973p # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Du, Z.' 1 ? primary 'Yu, J.' 2 ? primary 'Ulyanov, N.B.' 3 ? primary 'Andino, R.' 4 ? primary 'James, T.L.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;Enteroviral 5'-UTR ; _entity.formula_weight 12123.159 _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 GGGCUAGCACUCUGGUAUUACGGUACCUUUGUGCGCCC _entity_poly.pdbx_seq_one_letter_code_can GGGCUAGCACUCUGGUAUUACGGUACCUUUGUGCGCCC _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 G n 1 4 C n 1 5 U n 1 6 A n 1 7 G n 1 8 C n 1 9 A n 1 10 C n 1 11 U n 1 12 C n 1 13 U n 1 14 G n 1 15 G n 1 16 U n 1 17 A n 1 18 U n 1 19 U n 1 20 A n 1 21 C n 1 22 G n 1 23 G n 1 24 U n 1 25 A n 1 26 C n 1 27 C n 1 28 U n 1 29 U n 1 30 U n 1 31 G n 1 32 U n 1 33 G n 1 34 C n 1 35 G n 1 36 C n 1 37 C n 1 38 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 WITH T7 RNA POLYMERASE' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1TXS _struct_ref.pdbx_db_accession 1TXS _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1TXS _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 38 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1TXS _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 38 _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 38 # 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.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 2 3 '2D NOESY' 3 2 3 DQF-COSY 4 2 3 '2D TOCSY' 5 4 3 3D_13C-separated_NOESY 6 3 1 '2D H(N)CO' 7 3 1 '2D HNN-COSY' 8 5 2 '2D CT nondecoupled 13C-HSQC' # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature_units 1 278 ambient 6.5 '25 mM sodium chloride, 25 mM sodium phosphate' ? K 2 298 ambient 6.5 '25 mM sodium chloride, 25 mM sodium phosphate' ? K 3 303 ambient 6.5 '25 mM sodium chloride, 25 mM sodium phosphate' ? K # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 ;1-2 mM unlabeled RNA, 25 mM sodium chloride, 25 mM sodium phosphate ; '90% H2O, 10% D20' 2 ;1-2 mM unlabeled RNA, 25 mM sodium chloride, 25 mM sodium phosphate ; D2O 3 ;1-2 mM 13C&15N-labeled RNA, 25 mM sodium chloride, 25 mM sodium phosphate ; '90% H2O, 10% D20' 4 ;1-2 mM 13C&15N-labeled RNA, 25 mM sodium chloride, 25 mM sodium phosphate ; D2O 5 ;1-2 mM 13C&15N-labeled RNA, 25 mM sodium chloride, 25 mM sodium phosphate, 2.5% (WEIGHT/VOLUME) OF C12E6/N-HEXANOL MIXTURE (MOLAR RATIO 0.64) ; D2O # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model INOVA _pdbx_nmr_spectrometer.field_strength 600 # _pdbx_nmr_refine.entry_id 1TXS _pdbx_nmr_refine.method 'Torsion angle dynamics and restrained molecular dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1TXS _pdbx_nmr_details.text ;This structure was determined using 541 NOE restraints and 136 RDC restraints. ; # _pdbx_nmr_ensemble.entry_id 1TXS _pdbx_nmr_ensemble.conformers_calculated_total_number 25 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.conformer_selection_criteria 'LOWEST TOTAL ENERGY' _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 1TXS _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest total energy' # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal VNMR 6.1 collection Varian 1 NMRPipe 2.1 processing Delaglio 2 Sparky 3.1 'data analysis' 'Goddard, Kneller' 3 DYANA 1.5 refinement Guntert 4 XPLOR NIH refinement Brunger 5 # _exptl.entry_id 1TXS _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _struct.entry_id 1TXS _struct.title ;STEM-LOOP D OF THE CLOVERLEAF DOMAIN OF ENTEROVIRAL 5'UTR RNA ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1TXS _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'TETRALOOP UACG, CLOSING WOBBLE UG PAIR, PYRIMIDINE-PYRIMIDINE MISMATCHES, TWO-NUCLEOTIDE BULGE, 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 # 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 38 N3 ? ? A G 1 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 38 O2 ? ? A G 1 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 38 N4 ? ? A G 1 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 37 N3 ? ? A G 2 A C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 37 O2 ? ? A G 2 A C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 37 N4 ? ? A G 2 A C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 36 N3 ? ? A G 3 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 A C 36 O2 ? ? A G 3 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 A C 36 N4 ? ? A G 3 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 O2 ? ? ? 1_555 A A 6 N6 ? ? A C 4 A A 6 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog11 hydrog ? ? A C 4 N3 ? ? ? 1_555 A G 35 N1 ? ? A C 4 A G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 4 N4 ? ? ? 1_555 A G 35 O6 ? ? A C 4 A G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 4 O2 ? ? ? 1_555 A G 35 N2 ? ? A C 4 A G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 34 N3 ? ? A G 7 A C 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 34 O2 ? ? A G 7 A C 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 34 N4 ? ? A G 7 A C 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 8 N3 ? ? ? 1_555 A G 33 N1 ? ? A C 8 A G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 8 N4 ? ? ? 1_555 A G 33 O6 ? ? A C 8 A G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 8 O2 ? ? ? 1_555 A G 33 N2 ? ? A C 8 A G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 9 N1 ? ? ? 1_555 A U 32 N3 ? ? A A 9 A U 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A A 9 N6 ? ? ? 1_555 A U 32 O4 ? ? A A 9 A U 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 10 N3 ? ? ? 1_555 A G 31 N1 ? ? A C 10 A G 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 10 N4 ? ? ? 1_555 A G 31 O6 ? ? A C 10 A G 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 10 O2 ? ? ? 1_555 A G 31 N2 ? ? A C 10 A G 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A U 11 N3 ? ? ? 1_555 A U 30 O4 ? ? A U 11 A U 30 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog26 hydrog ? ? A U 11 O2 ? ? ? 1_555 A U 30 N3 ? ? A U 11 A U 30 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog27 hydrog ? ? A C 12 N3 ? ? ? 1_555 A U 29 N3 ? ? A C 12 A U 29 1_555 ? ? ? ? ? ? TYPE_18_PAIR ? ? ? hydrog28 hydrog ? ? A C 12 N4 ? ? ? 1_555 A U 29 O4 ? ? A C 12 A U 29 1_555 ? ? ? ? ? ? TYPE_18_PAIR ? ? ? hydrog29 hydrog ? ? A U 13 N3 ? ? ? 1_555 A U 28 O2 ? ? A U 13 A U 28 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog30 hydrog ? ? A U 13 O4 ? ? ? 1_555 A U 28 N3 ? ? A U 13 A U 28 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog31 hydrog ? ? A G 14 N1 ? ? ? 1_555 A C 27 N3 ? ? A G 14 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 14 N2 ? ? ? 1_555 A C 27 O2 ? ? A G 14 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 14 O6 ? ? ? 1_555 A C 27 N4 ? ? A G 14 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 15 N1 ? ? ? 1_555 A C 26 N3 ? ? A G 15 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 15 N2 ? ? ? 1_555 A C 26 O2 ? ? A G 15 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 15 O6 ? ? ? 1_555 A C 26 N4 ? ? A G 15 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A U 16 N3 ? ? ? 1_555 A A 25 N1 ? ? A U 16 A A 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A U 16 O4 ? ? ? 1_555 A A 25 N6 ? ? A U 16 A A 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A A 17 N1 ? ? ? 1_555 A U 24 N3 ? ? A A 17 A U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A A 17 N6 ? ? ? 1_555 A U 24 O4 ? ? A A 17 A U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A U 18 N3 ? ? ? 1_555 A G 23 O6 ? ? A U 18 A G 23 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog42 hydrog ? ? A U 18 O2 ? ? ? 1_555 A G 23 N1 ? ? A U 18 A G 23 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog43 hydrog ? ? A U 19 O2 ? ? ? 1_555 A G 22 N1 ? ? A U 19 A G 22 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 1TXS _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 1TXS _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 G 3 3 3 G G A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 A 6 6 6 A A A . n A 1 7 G 7 7 7 G G A . n A 1 8 C 8 8 8 C C A . n A 1 9 A 9 9 9 A A A . n A 1 10 C 10 10 10 C C A . n A 1 11 U 11 11 11 U U A . n A 1 12 C 12 12 12 C C 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 U 16 16 16 U U A . n A 1 17 A 17 17 17 A A A . n A 1 18 U 18 18 18 U U A . n A 1 19 U 19 19 19 U U 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 G 22 22 22 G G A . n A 1 23 G 23 23 23 G G A . n A 1 24 U 24 24 24 U U A . n A 1 25 A 25 25 25 A A A . n A 1 26 C 26 26 26 C C A . n A 1 27 C 27 27 27 C C A . n A 1 28 U 28 28 28 U U A . n A 1 29 U 29 29 29 U U A . n A 1 30 U 30 30 30 U U A . n A 1 31 G 31 31 31 G G A . n A 1 32 U 32 32 32 U U A . n A 1 33 G 33 33 33 G G A . n A 1 34 C 34 34 34 C C A . n A 1 35 G 35 35 35 G G A . n A 1 36 C 36 36 36 C C A . n A 1 37 C 37 37 37 C C A . n A 1 38 C 38 38 38 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 2004-10-05 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 # _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' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 '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 4 'Structure model' database_2 2 4 'Structure model' pdbx_nmr_software 3 4 'Structure model' pdbx_struct_assembly 4 4 '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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_nmr_software.name' # 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 5 "HO2'" A C 37 ? ? "O5'" A C 38 ? ? 1.58 2 13 "HO2'" A C 37 ? ? "O5'" A C 38 ? ? 1.55 3 20 "HO2'" A U 28 ? ? "O5'" A U 29 ? ? 1.52 4 20 "HO2'" A C 37 ? ? "O5'" A C 38 ? ? 1.58 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.596 1.527 0.069 0.011 N 2 2 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.600 1.527 0.073 0.011 N 3 3 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.597 1.527 0.070 0.011 N 4 4 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.595 1.527 0.068 0.011 N 5 6 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.594 1.527 0.067 0.011 N 6 10 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.601 1.527 0.074 0.011 N 7 12 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.599 1.527 0.072 0.011 N 8 13 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.597 1.527 0.070 0.011 N 9 14 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.603 1.527 0.076 0.011 N 10 17 "C4'" A G 33 ? ? "C3'" A G 33 ? ? 1.593 1.527 0.066 0.011 N 11 18 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.603 1.527 0.076 0.011 N 12 19 "C4'" A G 33 ? ? "C3'" A G 33 ? ? 1.594 1.527 0.067 0.011 N 13 20 "C4'" A C 21 ? ? "C3'" A C 21 ? ? 1.596 1.527 0.069 0.011 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1TXS 'double helix' 1TXS 'a-form double helix' 1TXS tetraloop 1TXS '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 38 1_555 -0.070 -0.274 0.673 -0.746 3.530 -0.984 1 A_G1:C38_A A 1 ? A 38 ? 19 1 1 A G 2 1_555 A C 37 1_555 -0.085 -0.153 0.187 14.531 0.793 -2.195 2 A_G2:C37_A A 2 ? A 37 ? 19 1 1 A G 3 1_555 A C 36 1_555 -0.053 -0.196 0.423 6.240 -4.713 -2.828 3 A_G3:C36_A A 3 ? A 36 ? 19 1 1 A C 4 1_555 A G 35 1_555 0.083 -0.168 -0.013 5.375 3.173 -1.556 4 A_C4:G35_A A 4 ? A 35 ? 19 1 1 A G 7 1_555 A C 34 1_555 -0.104 -0.166 -0.027 -3.750 -3.765 -1.798 5 A_G7:C34_A A 7 ? A 34 ? 19 1 1 A C 8 1_555 A G 33 1_555 0.060 -0.186 0.392 -8.968 -4.437 -2.398 6 A_C8:G33_A A 8 ? A 33 ? 19 1 1 A A 9 1_555 A U 32 1_555 0.034 -0.080 0.134 7.617 -4.755 -2.620 7 A_A9:U32_A A 9 ? A 32 ? 20 1 1 A C 10 1_555 A G 31 1_555 0.095 -0.167 -0.001 -5.455 4.324 -1.913 8 A_C10:G31_A A 10 ? A 31 ? 19 1 1 A U 11 1_555 A U 30 1_555 2.303 -1.689 -0.144 0.184 18.596 12.721 9 A_U11:U30_A A 11 ? A 30 ? 16 1 1 A C 12 1_555 A U 29 1_555 0.680 -1.700 0.013 5.734 -16.437 13.751 10 A_C12:U29_A A 12 ? A 29 ? 18 1 1 A U 13 1_555 A U 28 1_555 -2.075 -1.736 -0.588 -0.150 4.015 12.643 11 A_U13:U28_A A 13 ? A 28 ? 16 1 1 A G 14 1_555 A C 27 1_555 -0.098 -0.164 -0.020 5.591 2.760 -1.587 12 A_G14:C27_A A 14 ? A 27 ? 19 1 1 A G 15 1_555 A C 26 1_555 -0.040 -0.187 0.227 -1.310 -6.504 -2.876 13 A_G15:C26_A A 15 ? A 26 ? 19 1 1 A U 16 1_555 A A 25 1_555 -0.004 -0.119 0.365 -1.861 -5.378 -2.482 14 A_U16:A25_A A 16 ? A 25 ? 20 1 1 A A 17 1_555 A U 24 1_555 0.022 -0.095 0.233 -1.230 -5.391 -3.185 15 A_A17:U24_A A 17 ? A 24 ? 20 1 1 A U 18 1_555 A G 23 1_555 2.091 -0.400 -0.163 3.850 1.427 -3.820 16 A_U18:G23_A A 18 ? A 23 ? 28 ? 1 A U 19 1_555 A G 22 1_555 0.402 -5.490 1.131 -19.441 5.250 -119.472 17 A_U19:G22_A A 19 ? A 22 ? ? 2 # 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 38 1_555 A G 2 1_555 A C 37 1_555 1.071 -1.489 3.122 2.900 6.614 35.201 -3.292 -1.352 2.880 10.797 -4.734 35.911 1 AA_G1G2:C37C38_AA A 1 ? A 38 ? A 2 ? A 37 ? 1 A G 2 1_555 A C 37 1_555 A G 3 1_555 A C 36 1_555 -0.305 -1.217 4.094 0.811 20.611 28.503 -5.561 0.646 2.638 36.444 -1.434 35.058 2 AA_G2G3:C36C37_AA A 2 ? A 37 ? A 3 ? A 36 ? 1 A G 3 1_555 A C 36 1_555 A C 4 1_555 A G 35 1_555 0.672 -0.955 4.292 0.305 6.198 33.565 -2.893 -1.083 4.062 10.619 -0.523 34.117 3 AA_G3C4:G35C36_AA A 3 ? A 36 ? A 4 ? A 35 ? 1 A C 4 1_555 A G 35 1_555 A G 7 1_555 A C 34 1_555 -3.723 -0.692 4.380 5.047 21.434 52.697 -2.235 4.269 3.537 23.041 -5.425 56.808 4 AA_C4G7:C34G35_AA A 4 ? A 35 ? A 7 ? A 34 ? 1 A G 7 1_555 A C 34 1_555 A C 8 1_555 A G 33 1_555 -0.359 -2.455 2.999 -4.033 13.090 39.400 -4.575 0.160 2.138 18.741 5.774 41.623 5 AA_G7C8:G33C34_AA A 7 ? A 34 ? A 8 ? A 33 ? 1 A C 8 1_555 A G 33 1_555 A A 9 1_555 A U 32 1_555 0.229 -2.007 2.752 0.768 0.168 29.858 -3.923 -0.311 2.746 0.327 -1.491 29.868 6 AA_C8A9:U32G33_AA A 8 ? A 33 ? A 9 ? A 32 ? 1 A A 9 1_555 A U 32 1_555 A C 10 1_555 A G 31 1_555 0.171 -1.866 4.399 -0.062 10.339 30.349 -5.723 -0.325 3.586 19.066 0.113 32.023 7 AA_A9C10:G31U32_AA A 9 ? A 32 ? A 10 ? A 31 ? 1 A C 10 1_555 A G 31 1_555 A U 11 1_555 A U 30 1_555 1.238 -1.462 3.612 -3.156 9.119 38.848 -3.229 -2.188 3.099 13.459 4.657 39.983 8 AA_C10U11:U30G31_AA A 10 ? A 31 ? A 11 ? A 30 ? 1 A U 11 1_555 A U 30 1_555 A C 12 1_555 A U 29 1_555 -0.321 -2.431 3.242 10.657 5.129 25.649 -6.073 2.909 2.400 10.849 -22.540 28.203 9 AA_U11C12:U29U30_AA A 11 ? A 30 ? A 12 ? A 29 ? 1 A C 12 1_555 A U 29 1_555 A U 13 1_555 A U 28 1_555 0.976 -1.725 3.566 0.443 17.542 23.516 -6.933 -1.842 1.872 37.128 -0.938 29.267 10 AA_C12U13:U28U29_AA A 12 ? A 29 ? A 13 ? A 28 ? 1 A U 13 1_555 A U 28 1_555 A G 14 1_555 A C 27 1_555 -2.297 -1.485 4.042 -5.388 9.758 33.029 -4.311 2.830 3.782 16.587 9.159 34.809 11 AA_U13G14:C27U28_AA A 13 ? A 28 ? A 14 ? A 27 ? 1 A G 14 1_555 A C 27 1_555 A G 15 1_555 A C 26 1_555 0.033 -1.620 4.150 -2.505 2.910 27.017 -4.336 -0.847 3.937 6.189 5.327 27.284 12 AA_G14G15:C26C27_AA A 14 ? A 27 ? A 15 ? A 26 ? 1 A G 15 1_555 A C 26 1_555 A U 16 1_555 A A 25 1_555 0.033 -1.644 3.755 -2.175 1.678 33.977 -3.107 -0.449 3.663 2.866 3.715 34.084 13 AA_G15U16:A25C26_AA A 15 ? A 26 ? A 16 ? A 25 ? 1 A U 16 1_555 A A 25 1_555 A A 17 1_555 A U 24 1_555 0.158 -1.317 3.629 1.738 9.268 30.854 -4.114 0.041 3.116 16.931 -3.175 32.230 14 AA_U16A17:U24A25_AA A 16 ? A 25 ? A 17 ? A 24 ? 1 A A 17 1_555 A U 24 1_555 A U 18 1_555 A G 23 1_555 0.293 -1.768 3.378 7.271 13.539 37.387 -4.025 0.359 2.620 20.113 -10.801 40.318 15 AA_A17U18:G23U24_AA A 17 ? A 24 ? A 18 ? A 23 ? 1 A U 18 1_555 A G 23 1_555 A U 19 1_555 A G 22 1_555 -2.414 -0.963 3.603 19.821 15.894 80.236 -1.112 2.298 2.858 12.063 -15.043 83.510 16 AA_U18U19:G22G23_AA A 18 ? A 23 ? A 19 ? A 22 ? #