data_2GIO # _entry.id 2GIO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.356 _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 2GIO pdb_00002gio 10.2210/pdb2gio/pdb RCSB RCSB037166 ? ? WWPDB D_1000037166 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2GIO _pdbx_database_status.recvd_initial_deposition_date 2006-03-29 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _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 'Chowdhury, S.' 1 'Maris, C.' 2 'Allain, F.H.' 3 'Narberhaus, F.' 4 # _citation.id primary _citation.title 'Molecular basis for temperature sensing by an RNA thermometer.' _citation.journal_abbrev 'Embo J.' _citation.journal_volume 25 _citation.page_first 2487 _citation.page_last 2497 _citation.year 2006 _citation.journal_id_ASTM EMJODG _citation.country UK _citation.journal_id_ISSN 0261-4189 _citation.journal_id_CSD 0897 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16710302 _citation.pdbx_database_id_DOI 10.1038/sj.emboj.7601128 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chowdhury, S.' 1 ? primary 'Maris, C.' 2 ? primary 'Allain, F.H.' 3 ? primary 'Narberhaus, F.' 4 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description 29-MER _entity.formula_weight 9246.460 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details 'WT MicroROSE RNA' # _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 GGCCAUCUUGCUCUUCGGAGGAUUUGGCC _entity_poly.pdbx_seq_one_letter_code_can GGCCAUCUUGCUCUUCGGAGGAUUUGGCC _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 A n 1 6 U n 1 7 C n 1 8 U n 1 9 U n 1 10 G n 1 11 C n 1 12 U n 1 13 C n 1 14 U n 1 15 U n 1 16 C n 1 17 G n 1 18 G n 1 19 A n 1 20 G n 1 21 G n 1 22 A n 1 23 U n 1 24 U n 1 25 U n 1 26 G n 1 27 G n 1 28 C n 1 29 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 'the sequence for this RNA naturally occurs in BRADYRHIZOBIUM JAPONICUM.' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2GIO _struct_ref.pdbx_db_accession 2GIO _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 2GIO _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 29 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2GIO _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 29 _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 29 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 3D-NOESY-13CHSQC 1 2 1 2D-NOESY 1 3 1 2D-HSQC 1 4 1 TOCSY 1 5 1 HCcHTOCSY 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 303 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 6.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength '30mM NaCl' _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents RNA _pdbx_nmr_sample_details.solvent_system ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 'DRX AVANCE' Bruker 600 ? 2 'DRX AVANCE' Bruker 900 ? # _pdbx_nmr_refine.entry_id 2GIO _pdbx_nmr_refine.method NMR _pdbx_nmr_refine.details '20 structures' _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 2GIO _pdbx_nmr_ensemble.conformers_calculated_total_number 50 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest 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 2GIO _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement Amber 7 'David Case et al.' 1 processing DYANA ? ? 2 # _exptl.entry_id 2GIO _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 ? # _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.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _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 2GIO _struct.title ;Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2GIO _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'G-G non cannonical pair, 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 29 N3 ? ? A G 1 A C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 29 O2 ? ? A G 1 A C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 29 N4 ? ? A G 1 A C 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 28 N3 ? ? A G 2 A C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 28 O2 ? ? A G 2 A C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 28 N4 ? ? A G 2 A C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 27 N1 ? ? A C 3 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 27 O6 ? ? A C 3 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 27 N2 ? ? A C 3 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 N3 ? ? ? 1_555 A G 26 N1 ? ? A C 4 A G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 4 N4 ? ? ? 1_555 A G 26 O6 ? ? A C 4 A G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 4 O2 ? ? ? 1_555 A G 26 N2 ? ? A C 4 A G 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 25 N3 ? ? A A 5 A U 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 25 O4 ? ? A A 5 A U 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 N3 ? ? ? 1_555 A U 24 O4 ? ? A U 6 A U 24 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog16 hydrog ? ? A U 6 O2 ? ? ? 1_555 A U 24 N3 ? ? A U 6 A U 24 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog17 hydrog ? ? A C 7 N4 ? ? ? 1_555 A U 23 O4 ? ? A C 7 A U 23 1_555 ? ? ? ? ? ? 'C-U MISPAIR' ? ? ? hydrog18 hydrog ? ? A U 8 O4 ? ? ? 1_555 A A 22 N6 ? ? A U 8 A A 22 1_555 ? ? ? ? ? ? 'U-A PAIR' ? ? ? hydrog19 hydrog ? ? A U 8 N3 ? ? ? 1_555 A U 23 O2 ? ? A U 8 A U 23 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog20 hydrog ? ? A U 8 O4 ? ? ? 1_555 A U 23 N3 ? ? A U 8 A U 23 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog21 hydrog ? ? A U 9 N3 ? ? ? 1_555 A A 22 N1 ? ? A U 9 A A 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 9 O4 ? ? ? 1_555 A A 22 N6 ? ? A U 9 A A 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 10 N7 ? ? ? 1_555 A G 21 N2 ? ? A G 10 A G 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A G 10 O6 ? ? ? 1_555 A G 21 N1 ? ? A G 10 A G 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A C 11 N3 ? ? ? 1_555 A G 20 N1 ? ? A C 11 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 11 N4 ? ? ? 1_555 A G 20 O6 ? ? A C 11 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 11 O2 ? ? ? 1_555 A G 20 N2 ? ? A C 11 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A U 12 N3 ? ? ? 1_555 A A 19 N1 ? ? A U 12 A A 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A U 12 O4 ? ? ? 1_555 A A 19 N6 ? ? A U 12 A A 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 13 N3 ? ? ? 1_555 A G 18 N1 ? ? A C 13 A G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 13 N4 ? ? ? 1_555 A G 18 O6 ? ? A C 13 A G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 13 O2 ? ? ? 1_555 A G 18 N2 ? ? A C 13 A G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A U 14 O2 ? ? ? 1_555 A G 17 N1 ? ? A U 14 A G 17 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 2GIO _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 2GIO _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 C 3 3 3 C C A . n A 1 4 C 4 4 4 C C A . n A 1 5 A 5 5 5 A A A . n A 1 6 U 6 6 6 U U A . n A 1 7 C 7 7 7 C C A . n A 1 8 U 8 8 8 U U A . n A 1 9 U 9 9 9 U U A . n A 1 10 G 10 10 10 G G A . n A 1 11 C 11 11 11 C C A . n A 1 12 U 12 12 12 U U A . n A 1 13 C 13 13 13 C C A . n A 1 14 U 14 14 14 U U A . n A 1 15 U 15 15 15 U U A . n A 1 16 C 16 16 16 C C A . n A 1 17 G 17 17 17 G G A . n A 1 18 G 18 18 18 G G A . n A 1 19 A 19 19 19 A A A . n A 1 20 G 20 20 20 G G A . n A 1 21 G 21 21 21 G G A . n A 1 22 A 22 22 22 A A A . n A 1 23 U 23 23 23 U U A . n A 1 24 U 24 24 24 U U A . n A 1 25 U 25 25 25 U U A . n A 1 26 G 26 26 26 G G A . n A 1 27 G 27 27 27 G G A . n A 1 28 C 28 28 28 C C A . n A 1 29 C 29 29 29 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 2006-06-20 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-09 # _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' # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 5 _pdbx_validate_close_contact.auth_atom_id_1 "HO2'" _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 C _pdbx_validate_close_contact.auth_seq_id_1 16 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 OP2 _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 G _pdbx_validate_close_contact.auth_seq_id_2 17 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.55 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.56 115.20 -8.64 1.40 N 2 2 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.30 115.20 -8.90 1.40 N 3 2 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.73 108.50 5.23 0.70 N 4 3 "O4'" A G 10 ? ? "C1'" A G 10 ? ? N9 A G 10 ? ? 113.77 108.50 5.27 0.70 N 5 3 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.23 115.20 -8.97 1.40 N 6 3 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.76 108.50 5.26 0.70 N 7 4 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.09 115.20 -9.11 1.40 N 8 4 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 114.07 108.50 5.57 0.70 N 9 5 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.46 108.50 4.96 0.70 N 10 6 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.05 115.20 -9.15 1.40 N 11 6 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.92 108.50 5.42 0.70 N 12 7 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.41 108.50 4.91 0.70 N 13 9 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.47 108.50 4.97 0.70 N 14 10 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.48 108.50 4.98 0.70 N 15 11 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.45 108.50 4.95 0.70 N 16 12 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.39 115.20 -8.81 1.40 N 17 12 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 114.11 108.50 5.61 0.70 N 18 13 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.36 108.50 4.86 0.70 N 19 14 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.48 108.50 4.98 0.70 N 20 16 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.58 108.50 5.08 0.70 N 21 17 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.40 108.50 4.90 0.70 N 22 19 "C5'" A U 15 ? ? "C4'" A U 15 ? ? "C3'" A U 15 ? ? 106.22 115.20 -8.98 1.40 N 23 19 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 113.96 108.50 5.46 0.70 N 24 20 "O4'" A G 17 ? ? "C1'" A G 17 ? ? N9 A G 17 ? ? 112.85 108.50 4.35 0.70 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2GIO 'double helix' 2GIO 'a-form double helix' 2GIO 'mismatched base pair' 2GIO 'triple helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 1 1_555 A C 29 1_555 -0.556 -0.204 0.098 -0.642 -9.613 -0.834 1 A_G1:C29_A A 1 ? A 29 ? 19 1 1 A G 2 1_555 A C 28 1_555 -0.324 -0.142 0.251 -3.088 -9.121 -1.349 2 A_G2:C28_A A 2 ? A 28 ? 19 1 1 A C 3 1_555 A G 27 1_555 0.332 -0.173 0.372 -2.693 -8.106 -2.519 3 A_C3:G27_A A 3 ? A 27 ? 19 1 1 A C 4 1_555 A G 26 1_555 0.547 -0.183 0.146 5.259 -10.152 -0.703 4 A_C4:G26_A A 4 ? A 26 ? 19 1 1 A A 5 1_555 A U 25 1_555 0.202 -0.116 -0.237 -3.294 -19.883 5.250 5 A_A5:U25_A A 5 ? A 25 ? 20 1 1 A U 6 1_555 A U 24 1_555 2.555 -1.787 0.390 0.725 -18.922 7.212 6 A_U6:U24_A A 6 ? A 24 ? 16 1 1 A C 7 1_555 A U 23 1_555 -0.665 -0.710 -0.785 -9.207 -15.613 -8.089 7 A_C7:U23_A A 7 ? A 23 ? ? ? 1 A U 9 1_555 A A 22 1_555 -0.560 -0.057 0.766 -0.313 -10.773 2.333 8 A_U9:A22_A A 9 ? A 22 ? 20 1 1 A G 10 1_555 A G 21 1_555 -2.250 -3.170 -0.468 19.808 2.263 83.933 9 A_G10:G21_A A 10 ? A 21 ? 6 ? 1 A C 11 1_555 A G 20 1_555 0.450 -0.208 0.437 -0.719 -12.438 -4.373 10 A_C11:G20_A A 11 ? A 20 ? 19 1 1 A U 12 1_555 A A 19 1_555 -0.165 -0.026 0.050 -1.940 -2.017 -3.819 11 A_U12:A19_A A 12 ? A 19 ? 20 1 1 A C 13 1_555 A G 18 1_555 0.730 -0.196 -0.074 3.642 5.070 -0.670 12 A_C13:G18_A A 13 ? A 18 ? 19 1 1 A U 14 1_555 A G 17 1_555 0.659 -5.780 0.327 7.629 -10.443 -96.248 13 A_U14:G17_A A 14 ? A 17 ? ? 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 29 1_555 A G 2 1_555 A C 28 1_555 -0.163 -1.791 3.232 -1.632 3.778 33.932 -3.621 0.029 3.025 6.445 2.784 34.173 1 AA_G1G2:C28C29_AA A 1 ? A 29 ? A 2 ? A 28 ? 1 A G 2 1_555 A C 28 1_555 A C 3 1_555 A G 27 1_555 -0.079 -1.588 3.266 -0.220 0.599 33.766 -2.830 0.101 3.239 1.031 0.378 33.772 2 AA_G2C3:G27C28_AA A 2 ? A 28 ? A 3 ? A 27 ? 1 A C 3 1_555 A G 27 1_555 A C 4 1_555 A G 26 1_555 0.262 -1.550 2.995 3.136 2.703 31.654 -3.260 0.037 2.868 4.929 -5.719 31.917 3 AA_C3C4:G26G27_AA A 3 ? A 27 ? A 4 ? A 26 ? 1 A C 4 1_555 A G 26 1_555 A A 5 1_555 A U 25 1_555 0.464 -1.572 3.433 3.067 9.471 29.036 -4.810 -0.283 2.825 18.226 -5.902 30.660 4 AA_C4A5:U25G26_AA A 4 ? A 26 ? A 5 ? A 25 ? 1 A A 5 1_555 A U 25 1_555 A U 6 1_555 A U 24 1_555 0.346 -1.427 3.113 -2.894 2.866 44.685 -2.113 -0.699 2.994 3.760 3.796 44.860 5 AA_A5U6:U24U25_AA A 5 ? A 25 ? A 6 ? A 24 ? 1 A U 6 1_555 A U 24 1_555 A C 7 1_555 A U 23 1_555 -1.358 -2.138 3.220 9.041 10.243 23.922 -6.479 4.606 1.583 22.513 -19.871 27.499 6 AA_U6C7:U23U24_AA A 6 ? A 24 ? A 7 ? A 23 ? 1 A C 7 1_555 A U 23 1_555 A U 9 1_555 A A 22 1_555 -1.290 -2.353 4.300 12.912 -2.382 49.146 -2.529 2.672 3.967 -2.806 -15.213 50.764 7 AA_C7U9:A22U23_AA A 7 ? A 23 ? A 9 ? A 22 ? 1 A U 9 1_555 A A 22 1_555 A G 10 1_555 A G 21 1_555 -0.043 -3.224 -0.821 -169.762 35.004 103.735 -1.549 0.333 -1.021 17.645 85.577 175.885 8 AA_U9G10:G21A22_AA A 9 ? A 22 ? A 10 ? A 21 ? 1 A G 10 1_555 A G 21 1_555 A C 11 1_555 A G 20 1_555 -2.675 -1.733 -3.147 121.155 -118.366 21.523 -2.155 0.028 -1.280 -62.199 -63.665 169.566 9 AA_G10C11:G20G21_AA A 10 ? A 21 ? A 11 ? A 20 ? 1 A C 11 1_555 A G 20 1_555 A U 12 1_555 A A 19 1_555 -0.184 -2.081 3.243 2.161 -0.183 29.371 -4.054 0.819 3.234 -0.360 -4.255 29.450 10 AA_C11U12:A19G20_AA A 11 ? A 20 ? A 12 ? A 19 ? 1 A U 12 1_555 A A 19 1_555 A C 13 1_555 A G 18 1_555 0.149 -1.820 3.158 -0.004 3.913 30.884 -4.089 -0.279 2.911 7.311 0.008 31.125 11 AA_U12C13:G18A19_AA A 12 ? A 19 ? A 13 ? A 18 ? 1 A C 13 1_555 A G 18 1_555 A U 14 1_555 A G 17 1_555 1.120 -1.731 3.037 4.803 7.723 107.413 -1.164 -0.636 2.980 4.786 -2.976 107.678 12 AA_C13U14:G17G18_AA A 13 ? A 18 ? A 14 ? A 17 ? #