data_2M4Q # _entry.id 2M4Q # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2M4Q RCSB RCSB103206 BMRB 19018 WWPDB D_1000103206 # _pdbx_database_related.content_type unspecified _pdbx_database_related.db_id 19018 _pdbx_database_related.db_name BMRB _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2M4Q _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2013-02-10 _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 # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Puglisi, J.D.' 1 'Tsai, A.' 2 'Marshall, R.' 3 'Viani, E.' 4 # _citation.id primary _citation.title 'The impact of aminoglycosides on the dynamics of translation elongation.' _citation.journal_abbrev 'Cell Rep' _citation.journal_volume 3 _citation.page_first 497 _citation.page_last 508 _citation.year 2013 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 2211-1247 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 23416053 _citation.pdbx_database_id_DOI 10.1016/j.celrep.2013.01.027 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Tsai, A.' 1 primary 'Uemura, S.' 2 primary 'Johansson, M.' 3 primary 'Puglisi, E.V.' 4 primary 'Marshall, R.A.' 5 primary 'Aitken, C.E.' 6 primary 'Korlach, J.' 7 primary 'Ehrenberg, M.' 8 primary 'Puglisi, J.D.' 9 # 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 'RNA (27-MER)' 8656.185 1 ? ? ? ? 2 non-polymer syn APRAMYCIN 539.577 1 ? ? ? ? # _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 GGCGUCACACCUUCGGGUGAAGUCGCC _entity_poly.pdbx_seq_one_letter_code_can GGCGUCACACCUUCGGGUGAAGUCGCC _entity_poly.pdbx_strand_id 1 _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 G n 1 5 U n 1 6 C n 1 7 A n 1 8 C n 1 9 A n 1 10 C n 1 11 C n 1 12 U n 1 13 U n 1 14 C n 1 15 G n 1 16 G n 1 17 G n 1 18 U n 1 19 G n 1 20 A n 1 21 A n 1 22 G n 1 23 U n 1 24 C n 1 25 G n 1 26 C 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 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 2M4Q _struct_ref.pdbx_db_accession 2M4Q _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 2M4Q _struct_ref_seq.pdbx_strand_id 1 _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 2M4Q _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 27 _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 27 # 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 AM2 non-polymer . APRAMYCIN ;NEBRAMYCIN II, 4-O-(3ALPHA-AMINO-6ALPHA-((4-AMINO-4-DEOXY-ALPHA-D-GLUCOPYRANOSYL)OXY)-2,3,4,5ABETA,6,7,8,8AALPHA-OCTAHYDRO-8BETA-HYDROXY-7BETA-(METHYLAMINO)PYRANO(3,2-B)PYRAN-2ALPHA-YL)-2-DEOXY-D-STREPTAMINE ; 'C21 H41 N5 O11' 539.577 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 2 '2D DQF-COSY' 1 2 2 '2D 1H-1H NOESY' 1 3 2 '2D 1H-1H TOCSY' 1 4 1 '2D 1H-15N HSQC' 1 5 1 '2D 1H-13C HSQC' 1 6 1 '2D 1H-13C HSQC aromatic' 1 7 1 '3D HCCH-COSY' 1 8 1 '3D 1H-13C NOESY aliphatic' 1 9 1 '3D 1H-13C NOESY aromatic' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength .05 _pdbx_nmr_exptl_sample_conditions.pH 6.5 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system '0.5-1 mM [U-100% 13C; U-100% 15N] RNA, 0.5-1 mM APRAMYCIN, 90% H2O/10% D2O' 1 '90% H2O/10% D2O' '0.5-1 mM RNA, 0.5-1 mM APRAMYCIN, 90% H2O/10% D2O' 2 '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 600 Varian INOVA 1 'Varian INOVA' 800 Varian INOVA 2 'Varian INOVA' # _pdbx_nmr_refine.entry_id 2M4Q _pdbx_nmr_refine.method '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 lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 50 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2M4Q _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 2M4Q _pdbx_nmr_representative.selection_criteria 'lowest energy' # _pdbx_nmr_software.authors Brunger _pdbx_nmr_software.classification refinement _pdbx_nmr_software.name X-PLOR _pdbx_nmr_software.version ? _pdbx_nmr_software.ordinal 1 # _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 2M4Q _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2M4Q _struct.title 'NMR structure of E. coli ribosomela decoding site with apramycin' _struct.pdbx_descriptor '27-MER RNA' _struct.pdbx_model_details 'lowest energy, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2M4Q _struct_keywords.pdbx_keywords RNA/antibiotic _struct_keywords.text 'RNA, antibiotic, decoding site, aminoglycoside, apramycin, RNA-antibiotic complex' # 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 ? # _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 hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 27 N3 ? ? 1 G 1 1 C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 27 O2 ? ? 1 G 1 1 C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 27 N4 ? ? 1 G 1 1 C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 26 N3 ? ? 1 G 2 1 C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 26 O2 ? ? 1 G 2 1 C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 26 N4 ? ? 1 G 2 1 C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 25 N1 ? ? 1 C 3 1 G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 25 O6 ? ? 1 C 3 1 G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 25 N2 ? ? 1 C 3 1 G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 24 N3 ? ? 1 G 4 1 C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 24 O2 ? ? 1 G 4 1 C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 24 N4 ? ? 1 G 4 1 C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? A U 5 N3 ? ? ? 1_555 A U 23 O4 ? ? 1 U 5 1 U 23 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? hydrog14 hydrog ? ? A C 6 N3 ? ? ? 1_555 A G 22 N1 ? ? 1 C 6 1 G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? A C 6 N4 ? ? ? 1_555 A G 22 O6 ? ? 1 C 6 1 G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? A C 6 O2 ? ? ? 1_555 A G 22 N2 ? ? 1 C 6 1 G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? A C 8 N3 ? ? ? 1_555 A G 19 N1 ? ? 1 C 8 1 G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? A C 8 N4 ? ? ? 1_555 A G 19 O6 ? ? 1 C 8 1 G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? A C 8 O2 ? ? ? 1_555 A G 19 N2 ? ? 1 C 8 1 G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? A A 9 N1 ? ? ? 1_555 A U 18 N3 ? ? 1 A 9 1 U 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? A A 9 N6 ? ? ? 1_555 A U 18 O4 ? ? 1 A 9 1 U 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? A C 10 N3 ? ? ? 1_555 A G 17 N1 ? ? 1 C 10 1 G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? A C 10 N4 ? ? ? 1_555 A G 17 O6 ? ? 1 C 10 1 G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? A C 10 O2 ? ? ? 1_555 A G 17 N2 ? ? 1 C 10 1 G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog25 hydrog ? ? A C 11 N3 ? ? ? 1_555 A G 16 N1 ? ? 1 C 11 1 G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog26 hydrog ? ? A C 11 N4 ? ? ? 1_555 A G 16 O6 ? ? 1 C 11 1 G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog27 hydrog ? ? A C 11 O2 ? ? ? 1_555 A G 16 N2 ? ? 1 C 11 1 G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog28 hydrog ? ? A U 12 O2 ? ? ? 1_555 A G 15 N1 ? ? 1 U 12 1 G 15 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id ? _struct_site.pdbx_auth_comp_id ? _struct_site.pdbx_auth_seq_id ? _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 7 _struct_site.details 'BINDING SITE FOR RESIDUE AM2 1 101' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 7 U A 5 ? U 1 5 . ? 1_555 ? 2 AC1 7 C A 6 ? C 1 6 . ? 1_555 ? 3 AC1 7 A A 7 ? A 1 7 . ? 1_555 ? 4 AC1 7 A A 20 ? A 1 20 . ? 1_555 ? 5 AC1 7 A A 21 ? A 1 21 . ? 1_555 ? 6 AC1 7 G A 22 ? G 1 22 . ? 1_555 ? 7 AC1 7 U A 23 ? U 1 23 . ? 1_555 ? # _atom_sites.entry_id 2M4Q _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 1 . n A 1 2 G 2 2 2 G G 1 . n A 1 3 C 3 3 3 C C 1 . n A 1 4 G 4 4 4 G G 1 . n A 1 5 U 5 5 5 U U 1 . n A 1 6 C 6 6 6 C C 1 . n A 1 7 A 7 7 7 A A 1 . n A 1 8 C 8 8 8 C C 1 . n A 1 9 A 9 9 9 A A 1 . n A 1 10 C 10 10 10 C C 1 . n A 1 11 C 11 11 11 C C 1 . n A 1 12 U 12 12 12 U U 1 . n A 1 13 U 13 13 13 U U 1 . n A 1 14 C 14 14 14 C C 1 . n A 1 15 G 15 15 15 G G 1 . n A 1 16 G 16 16 16 G G 1 . n A 1 17 G 17 17 17 G G 1 . n A 1 18 U 18 18 18 U U 1 . n A 1 19 G 19 19 19 G G 1 . n A 1 20 A 20 20 20 A A 1 . n A 1 21 A 21 21 21 A A 1 . n A 1 22 G 22 22 22 G G 1 . n A 1 23 U 23 23 23 U U 1 . n A 1 24 C 24 24 24 C C 1 . n A 1 25 G 25 25 25 G G 1 . n A 1 26 C 26 26 26 C C 1 . n A 1 27 C 27 27 27 C C 1 . n # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id AM2 _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 101 _pdbx_nonpoly_scheme.auth_seq_num 101 _pdbx_nonpoly_scheme.pdb_mon_id AM2 _pdbx_nonpoly_scheme.auth_mon_id AM2 _pdbx_nonpoly_scheme.pdb_strand_id 1 _pdbx_nonpoly_scheme.pdb_ins_code . # _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,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 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 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2013-03-20 # _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_nmr_ensemble_rms.atom_type ? _pdbx_nmr_ensemble_rms.bond_angle_rms_dev ? _pdbx_nmr_ensemble_rms.bond_angle_rms_dev_error ? _pdbx_nmr_ensemble_rms.chain_range_begin ? _pdbx_nmr_ensemble_rms.chain_range_end ? _pdbx_nmr_ensemble_rms.coord_average_rmsd_method ? _pdbx_nmr_ensemble_rms.covalent_bond_rms_dev ? _pdbx_nmr_ensemble_rms.covalent_bond_rms_dev_error ? _pdbx_nmr_ensemble_rms.dihedral_angles_rms_dev ? _pdbx_nmr_ensemble_rms.dihedral_angles_rms_dev_error ? _pdbx_nmr_ensemble_rms.distance_rms_dev 0.025 _pdbx_nmr_ensemble_rms.distance_rms_dev_error ? _pdbx_nmr_ensemble_rms.entry_id 2M4Q _pdbx_nmr_ensemble_rms.improper_torsion_angle_rms_dev ? _pdbx_nmr_ensemble_rms.improper_torsion_angle_rms_dev_error ? _pdbx_nmr_ensemble_rms.peptide_planarity_rms_dev ? _pdbx_nmr_ensemble_rms.peptide_planarity_rms_dev_error ? _pdbx_nmr_ensemble_rms.residue_range_begin ? _pdbx_nmr_ensemble_rms.residue_range_end ? # 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 RNA-1 ? 0.5-1 mM '[U-100% 13C; U-100% 15N]' 1 APRAMYCIN-2 ? 0.5-1 mM ? 1 RNA-3 ? 0.5-1 mM ? 2 APRAMYCIN-4 ? 0.5-1 mM ? 2 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2M4Q _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count 16 _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count 27 _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count 19 _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count 26 _pdbx_nmr_constraints.NOE_constraints_total 626 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 190 _pdbx_nmr_constraints.NOE_long_range_total_count ? _pdbx_nmr_constraints.NOE_medium_range_total_count ? _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count ? _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_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2M4Q 'double helix' 2M4Q 'a-form double helix' 2M4Q tetraloop 2M4Q 'mismatched base pair' 2M4Q '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 -0.427 -0.173 -0.222 -14.141 -10.280 -2.546 1 1_G1:C27_1 1 1 ? 1 27 ? 19 1 1 A G 2 1_555 A C 26 1_555 -0.776 -0.477 -0.976 -18.577 -29.906 8.266 2 1_G2:C26_1 1 2 ? 1 26 ? 19 1 1 A C 3 1_555 A G 25 1_555 0.528 -0.410 -0.380 1.575 -25.430 0.191 3 1_C3:G25_1 1 3 ? 1 25 ? 19 1 1 A G 4 1_555 A C 24 1_555 -0.152 -0.140 -0.701 -15.492 -15.611 -0.729 4 1_G4:C24_1 1 4 ? 1 24 ? 19 1 1 A U 5 1_555 A U 23 1_555 0.960 -0.964 -0.137 -10.566 -19.326 -11.376 5 1_U5:U23_1 1 5 ? 1 23 ? ? ? 1 A C 6 1_555 A G 22 1_555 0.227 -0.314 -0.730 -6.350 10.397 -4.763 6 1_C6:G22_1 1 6 ? 1 22 ? 19 1 1 A C 8 1_555 A G 19 1_555 0.156 -0.086 0.171 -19.856 2.416 -7.677 7 1_C8:G19_1 1 8 ? 1 19 ? 19 1 1 A A 9 1_555 A U 18 1_555 -0.123 -0.428 0.809 -3.605 -15.813 -15.625 8 1_A9:U18_1 1 9 ? 1 18 ? 20 1 1 A C 10 1_555 A G 17 1_555 0.507 -0.243 -0.080 10.679 -14.463 -1.709 9 1_C10:G17_1 1 10 ? 1 17 ? 19 1 1 A C 11 1_555 A G 16 1_555 0.101 -0.092 -0.670 28.473 -9.149 -2.626 10 1_C11:G16_1 1 11 ? 1 16 ? 19 1 1 A U 12 1_555 A G 15 1_555 1.543 -5.644 0.953 -9.146 -34.439 -86.748 11 1_U12:G15_1 1 12 ? 1 15 ? ? 6 # 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 C 26 1_555 0.705 -0.625 3.548 3.953 11.935 30.191 -3.319 -0.523 3.148 21.765 -7.209 32.648 1 11_G1G2:C26C27_11 1 1 ? 1 27 ? 1 2 ? 1 26 ? 1 A G 2 1_555 A C 26 1_555 A C 3 1_555 A G 25 1_555 -0.333 -0.015 2.598 -5.183 2.416 47.634 -0.171 0.082 2.615 2.979 6.390 47.956 2 11_G2C3:G25C26_11 1 2 ? 1 26 ? 1 3 ? 1 25 ? 1 A C 3 1_555 A G 25 1_555 A G 4 1_555 A C 24 1_555 0.196 -1.563 3.554 3.678 26.155 23.314 -6.101 0.168 1.253 48.791 -6.861 35.092 3 11_C3G4:C24G25_11 1 3 ? 1 25 ? 1 4 ? 1 24 ? 1 A G 4 1_555 A C 24 1_555 A U 5 1_555 A U 23 1_555 -0.414 -1.439 3.131 -3.673 3.825 38.713 -2.586 0.202 3.006 5.738 5.508 39.061 4 11_G4U5:U23C24_11 1 4 ? 1 24 ? 1 5 ? 1 23 ? 1 A U 5 1_555 A U 23 1_555 A C 6 1_555 A G 22 1_555 0.037 -1.808 3.712 -0.928 -18.458 30.680 0.509 -0.234 4.115 -31.551 1.587 35.702 5 11_U5C6:G22U23_11 1 5 ? 1 23 ? 1 6 ? 1 22 ? 1 A C 8 1_555 A G 19 1_555 A A 9 1_555 A U 18 1_555 -0.779 -1.668 2.678 -2.213 -3.927 29.043 -2.563 1.127 2.923 -7.771 4.379 29.384 6 11_C8A9:U18G19_11 1 8 ? 1 19 ? 1 9 ? 1 18 ? 1 A A 9 1_555 A U 18 1_555 A C 10 1_555 A G 17 1_555 0.646 -0.604 2.975 6.361 -9.235 43.249 0.004 -0.301 3.095 -12.285 -8.462 44.612 7 11_A9C10:G17U18_11 1 9 ? 1 18 ? 1 10 ? 1 17 ? 1 A C 10 1_555 A G 17 1_555 A C 11 1_555 A G 16 1_555 0.540 -0.843 2.803 2.416 1.617 26.125 -2.227 -0.631 2.784 3.564 -5.324 26.283 8 11_C10C11:G16G17_11 1 10 ? 1 17 ? 1 11 ? 1 16 ? 1 A C 11 1_555 A G 16 1_555 A U 12 1_555 A G 15 1_555 0.143 -1.144 3.465 4.267 16.833 103.351 -0.971 -0.028 3.313 10.678 -2.707 104.385 9 11_C11U12:G15G16_11 1 11 ? 1 16 ? 1 12 ? 1 15 ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name APRAMYCIN _pdbx_entity_nonpoly.comp_id AM2 #