data_2LJJ # _entry.id 2LJJ # _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 2LJJ pdb_00002ljj 10.2210/pdb2ljj/pdb RCSB RCSB102459 ? ? BMRB 17941 ? ? WWPDB D_1000102459 ? ? # _pdbx_database_related.db_id 17941 _pdbx_database_related.db_name BMRB _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2LJJ _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-09-15 _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.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 'Ihle, Y.' 1 'Zell, R.' 2 'Goerlach, M.' 3 # _citation.id primary _citation.title 'The Structure of Subdomain IV-B from the CVB-3 IRES' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # _citation_author.citation_id primary _citation_author.name 'Ihle, Y.' _citation_author.ordinal 1 _citation_author.identifier_ORCID ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description 'IV-B RNA' _entity.formula_weight 8600.159 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'subdomain IV-B' _entity.details 'CVB-3 Internal Ribosomal Entry Site' # _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 GGCCUCAGCACUACCCCAGUGUAGGUC _entity_poly.pdbx_seq_one_letter_code_can GGCCUCAGCACUACCCCAGUGUAGGUC _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 C n 1 4 C n 1 5 U n 1 6 C n 1 7 A n 1 8 G n 1 9 C n 1 10 A n 1 11 C n 1 12 U n 1 13 A n 1 14 C n 1 15 C n 1 16 C n 1 17 C n 1 18 A n 1 19 G n 1 20 U n 1 21 G n 1 22 U n 1 23 A n 1 24 G n 1 25 G n 1 26 U n 1 27 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 'in vitro transcription, T7 RNA polymerase' # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 2LJJ _struct_ref.pdbx_db_accession 2LJJ _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2LJJ _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 27 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2LJJ _struct_ref_seq.db_align_beg 290 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 316 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 290 _struct_ref_seq.pdbx_auth_seq_align_end 316 # 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.type _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id '3D 1H15N-NOESY-HSQC' 1 1 1 '2D TOCSY' 1 1 2 '2D HNN-COSY' 1 2 3 '2D 1H1H-NOESY watergate' 1 1 4 '2D 1H1H-NOESY watergate' 1 2 5 '2D 1H-1H NOESY' 1 1 6 '2D 15N-HSQC imino' 1 1 7 '2D 15N-HSQC imino' 1 2 8 '2D 15N-HSQC amino' 1 1 9 '2D 15N-HSQC amino' 1 2 10 '3D HCCH-TOCSY' 2 2 11 '3D HCCH-COSY' 2 2 12 '3D 1H13C-NOESY-HSQC aro' 2 2 13 '3D 1H13C-NOESY-HSQC ali' 2 2 14 '2D HcN ali' 2 2 15 '2D HcN aro' 2 2 16 '2D HccH-TOCSY ADE' 2 2 17 '2D H5(c5c4n)H ura' 2 2 18 '2D H5(c5c4n)H cyt' 2 1 19 '2D 13C-HSQC-CT ali' 2 2 20 '2D 13C-HSQC-CT aro' 2 2 21 '1D 31P' 2 2 22 '3D HCCH-TOCSY' 3 2 23 '3D HCCH-COSY' 3 2 24 '3D 1H1H13C-NOESY-HSQC 13C-filtered' 3 2 25 '3D 1H13C-NOESY-HSQC aro' 3 2 26 '3D 1H13C-NOESY-HSQC ali' 3 2 27 '2D 13C-HSQC ali' 3 2 28 '2D 13C-HSQC aro' 3 2 29 '3D HCCH-TOCSY' 4 2 30 '3D HCCH-COSY' 4 2 31 '3D 1H1H13C-NOESY-HSQC 13C-filtered' 4 2 32 '3D 1H13C-NOESY-HSQC aro' 4 2 33 '3D 1H13C-NOESY-HSQC ali' 4 2 34 '2D TOCSY(HSQC)' 4 2 35 '2D HcN ali' 4 2 36 '2D 1H-1H NOESY' 4 2 37 '2D 13C-HSQC ali' 4 1 38 '2D 13C-HSQC ali' 4 2 39 '2D 13C-HSQC aro' 4 1 40 '2D 13C-HSQC aro' 4 2 41 # 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 50 6.2 ambient ? 283 K 2 50 6.2 ambient ? 293 K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system '1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA, 90% H2O/10% D2O' 1 '90% H2O/10% D2O' '1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA, 100% D2O' 2 '100% D2O' '1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA, 100% D2O' 3 '100% D2O' '1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA, 100% D2O' 4 '100% D2O' # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 600 Bruker AVANCE 1 'Bruker Avance' 750 Bruker AVANCE 2 'Bruker Avance' # _pdbx_nmr_refine.entry_id 2LJJ _pdbx_nmr_refine.method 'distance geometry, simulated annealing' _pdbx_nmr_refine.details ? _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 least restraint violations' _pdbx_nmr_ensemble.conformers_calculated_total_number 200 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2LJJ _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 2LJJ _pdbx_nmr_representative.selection_criteria 'fewest violations' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Guntert, Mumenthaler and Wuthrich' 'structure solution' CYANA 1.1 1 'Bruker Biospin' collection TopSpin 2.1 2 'Bruker Biospin' processing TopSpin 2.1 3 'Rochus Keller' 'chemical shift assignment' CARA 1.5.5 4 'Rochus Keller' 'peak picking' CARA 1.5.5 5 'Brunger, Adams, Clore, Gros, Nilges and Read' refinement CNS 1.3 6 'Guntert, Mumenthaler and Wuthrich' refinement CYANA 1.1 7 # _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 2LJJ _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2LJJ _struct.title 'The structure of subdomain IV-B from the CVB-3 IRES' _struct.pdbx_model_details 'fewest violations, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2LJJ _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'hairpin, RNA, Coxsackievirus B3, Internal Ribosomal Entry Site' # _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 27 N3 ? ? A G 290 A C 316 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 27 O2 ? ? A G 290 A C 316 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 27 N4 ? ? A G 290 A C 316 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A U 26 O2 ? ? A G 291 A U 315 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog5 hydrog ? ? A G 2 O6 ? ? ? 1_555 A U 26 N3 ? ? A G 291 A U 315 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog6 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 25 N1 ? ? A C 292 A G 314 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 25 O6 ? ? A C 292 A G 314 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 25 N2 ? ? A C 292 A G 314 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 N3 ? ? ? 1_555 A G 24 N1 ? ? A C 293 A G 313 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 N4 ? ? ? 1_555 A G 24 O6 ? ? A C 293 A G 313 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 4 O2 ? ? ? 1_555 A G 24 N2 ? ? A C 293 A G 313 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 8 N1 ? ? ? 1_555 A U 22 O2 ? ? A G 297 A U 311 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog13 hydrog ? ? A G 8 O6 ? ? ? 1_555 A U 22 N3 ? ? A G 297 A U 311 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog14 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 21 N1 ? ? A C 298 A G 310 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 21 O6 ? ? A C 298 A G 310 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 21 N2 ? ? A C 298 A G 310 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 10 N1 ? ? ? 1_555 A U 20 N3 ? ? A A 299 A U 309 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 10 N6 ? ? ? 1_555 A U 20 O4 ? ? A A 299 A U 309 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 11 N3 ? ? ? 1_555 A G 19 N1 ? ? A C 300 A G 308 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 11 N4 ? ? ? 1_555 A G 19 O6 ? ? A C 300 A G 308 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 11 O2 ? ? ? 1_555 A G 19 N2 ? ? A C 300 A G 308 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 12 N3 ? ? ? 1_555 A A 18 N1 ? ? A U 301 A A 307 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A U 12 O4 ? ? ? 1_555 A A 18 N6 ? ? A U 301 A A 307 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 2LJJ _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 1 290 290 G G A . n A 1 2 G 2 291 291 G G A . n A 1 3 C 3 292 292 C C A . n A 1 4 C 4 293 293 C C A . n A 1 5 U 5 294 294 U U A . n A 1 6 C 6 295 295 C C A . n A 1 7 A 7 296 296 A A A . n A 1 8 G 8 297 297 G G A . n A 1 9 C 9 298 298 C C A . n A 1 10 A 10 299 299 A A A . n A 1 11 C 11 300 300 C C A . n A 1 12 U 12 301 301 U U A . n A 1 13 A 13 302 302 A A A . n A 1 14 C 14 303 303 C C A . n A 1 15 C 15 304 304 C C A . n A 1 16 C 16 305 305 C C A . n A 1 17 C 17 306 306 C C A . n A 1 18 A 18 307 307 A A A . n A 1 19 G 19 308 308 G G A . n A 1 20 U 20 309 309 U U A . n A 1 21 G 21 310 310 G G A . n A 1 22 U 22 311 311 U U A . n A 1 23 A 23 312 312 A A A . n A 1 24 G 24 313 313 G G A . n A 1 25 G 25 314 314 G G A . n A 1 26 U 26 315 315 U U A . n A 1 27 C 27 316 316 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 2012-09-19 2 'Structure model' 1 1 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' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 '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' database_2 2 2 'Structure model' pdbx_database_status 3 2 'Structure model' pdbx_nmr_software 4 2 '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' '_database_2.pdbx_DOI' 2 2 'Structure model' '_database_2.pdbx_database_accession' 3 2 'Structure model' '_pdbx_database_status.status_code_nmr_data' 4 2 'Structure model' '_pdbx_nmr_software.name' 5 2 'Structure model' '_pdbx_nmr_spectrometer.model' # loop_ _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 _pdbx_nmr_exptl_sample.solution_id 'IV-B RNA-1' 1 ? mM '[U-100% 15N]' 1 'potassium phosphate-2' 10 ? mM ? 1 'potassium chloride-3' 40 ? mM ? 1 EDTA-4 200 ? uM ? 1 'IV-B RNA-5' 1 ? mM '[U-100% 13C; U-100% 15N]' 2 'potassium phosphate-6' 10 ? mM ? 2 'potassium chloride-7' 40 ? mM ? 2 EDTA-8 200 ? uM ? 2 'IV-B RNA-9' 1 ? mM '[U-13C; U-15N]-Ade,Cyt' 3 'potassium phosphate-10' 10 ? mM ? 3 'potassium chloride-11' 40 ? mM ? 3 EDTA-12 200 ? uM ? 3 'IV-B RNA-13' 1 ? mM '[U-13C; U-15N]-Gua,Ura' 4 'potassium phosphate-14' 10 ? mM ? 4 'potassium chloride-15' 40 ? mM ? 4 EDTA-16 200 ? uM ? 4 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2LJJ _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count 76 _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count 26 _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count 26 _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count 27 _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count 27 _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count 26 _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count 27 _pdbx_nmr_constraints.NA_other-angle_constraints_total_count 79 _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count 19 _pdbx_nmr_constraints.NOE_constraints_total 792 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 364 _pdbx_nmr_constraints.NOE_long_range_total_count 82 _pdbx_nmr_constraints.NOE_medium_range_total_count 14 _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count 332 _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 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 3 "HO2'" A A 307 ? ? "O4'" A G 308 ? ? 1.59 2 11 "HO2'" A A 307 ? ? "O4'" A G 308 ? ? 1.54 3 15 "HO2'" A A 307 ? ? "O4'" A G 308 ? ? 1.59 4 17 "H4'" A C 305 ? ? "H1'" A A 307 ? ? 1.05 5 17 "HO2'" A C 303 ? ? OP2 A C 305 ? ? 1.59 6 18 "HO2'" A A 307 ? ? "O4'" A G 308 ? ? 1.55 7 19 "H5''" A C 305 ? ? "H5''" A C 306 ? ? 1.30 # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 13 _pdbx_validate_planes.auth_comp_id C _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 293 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.058 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2LJJ 'double helix' 2LJJ 'a-form double helix' 2LJJ 'hairpin loop' 2LJJ 'mismatched base pair' 2LJJ '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 27 1_555 -0.114 -0.200 0.447 12.135 11.534 -0.124 1 A_G290:C316_A A 290 ? A 316 ? 19 1 1 A G 2 1_555 A U 26 1_555 -1.819 -0.380 -0.005 12.364 -15.186 8.137 2 A_G291:U315_A A 291 ? A 315 ? 28 1 1 A C 3 1_555 A G 25 1_555 0.323 -0.274 -0.636 14.854 -22.705 5.180 3 A_C292:G314_A A 292 ? A 314 ? 19 1 1 A C 4 1_555 A G 24 1_555 0.172 -0.163 -0.123 -5.450 -12.912 0.990 4 A_C293:G313_A A 293 ? A 313 ? 19 1 1 A G 8 1_555 A U 22 1_555 -2.632 -0.473 0.442 29.314 -40.657 -3.461 5 A_G297:U311_A A 297 ? A 311 ? 28 1 1 A C 9 1_555 A G 21 1_555 -0.301 -0.105 0.086 11.866 -25.082 0.877 6 A_C298:G310_A A 298 ? A 310 ? 19 1 1 A A 10 1_555 A U 20 1_555 -0.139 -0.188 0.052 2.387 -18.288 1.325 7 A_A299:U309_A A 299 ? A 309 ? 20 1 1 A C 11 1_555 A G 19 1_555 -0.060 -0.182 0.334 -7.472 -1.479 -2.094 8 A_C300:G308_A A 300 ? A 308 ? 19 1 1 A U 12 1_555 A A 18 1_555 -0.219 -0.113 1.020 -11.736 -20.689 -5.277 9 A_U301:A307_A A 301 ? A 307 ? 20 1 # 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 27 1_555 A G 2 1_555 A U 26 1_555 1.047 -1.612 3.301 3.509 3.520 27.592 -4.159 -1.333 3.181 7.305 -7.283 28.028 1 AA_G290G291:U315C316_AA A 290 ? A 316 ? A 291 ? A 315 ? 1 A G 2 1_555 A U 26 1_555 A C 3 1_555 A G 25 1_555 -0.453 -0.475 3.129 2.316 1.743 43.781 -0.792 0.815 3.082 2.335 -3.102 43.873 2 AA_G291C292:G314U315_AA A 291 ? A 315 ? A 292 ? A 314 ? 1 A C 3 1_555 A G 25 1_555 A C 4 1_555 A G 24 1_555 0.879 -1.040 3.580 6.336 14.048 46.871 -2.378 -0.546 3.247 17.126 -7.725 49.204 3 AA_C292C293:G313G314_AA A 292 ? A 314 ? A 293 ? A 313 ? 1 A G 8 1_555 A U 22 1_555 A C 9 1_555 A G 21 1_555 0.160 -0.246 3.796 -2.257 2.138 54.885 -0.413 -0.329 3.776 2.317 2.447 54.966 4 AA_G297C298:G310U311_AA A 297 ? A 311 ? A 298 ? A 310 ? 1 A C 9 1_555 A G 21 1_555 A A 10 1_555 A U 20 1_555 -0.740 -0.645 3.381 -2.993 13.939 33.551 -2.992 0.765 2.945 22.904 4.917 36.374 5 AA_C298A299:U309G310_AA A 298 ? A 310 ? A 299 ? A 309 ? 1 A A 10 1_555 A U 20 1_555 A C 11 1_555 A G 19 1_555 -0.037 -2.066 3.597 -3.287 -4.824 35.331 -2.569 -0.480 3.825 -7.882 5.370 35.795 6 AA_A299C300:G308U309_AA A 299 ? A 309 ? A 300 ? A 308 ? 1 A C 11 1_555 A G 19 1_555 A U 12 1_555 A A 18 1_555 0.097 -2.129 3.683 5.517 -17.683 21.863 1.171 1.513 4.149 -38.846 -12.119 28.582 7 AA_C300U301:A307G308_AA A 300 ? A 308 ? A 301 ? A 307 ? #