data_1NAO # _entry.id 1NAO # _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 1NAO pdb_00001nao 10.2210/pdb1nao/pdb WWPDB D_1000175209 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1NAO _pdbx_database_status.recvd_initial_deposition_date 1996-03-29 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _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 'Nishizaki, T.' 1 'Iwai, S.' 2 'Ohtsuka, E.' 3 'Nakamura, H.' 4 # _citation.id primary _citation.title ;Solution structure of an RNA.2'-O-methylated RNA hybrid duplex containing an RNA.DNA hybrid segment at the center. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 36 _citation.page_first 2577 _citation.page_last 2585 _citation.year 1997 _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 9054564 _citation.pdbx_database_id_DOI 10.1021/bi962297c # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Nishizaki, T.' 1 ? primary 'Iwai, S.' 2 ? primary 'Ohtsuka, E.' 3 ? primary 'Nakamura, H.' 4 ? # _cell.entry_id 1NAO _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NAO _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # 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 (5'-R(*GP*GP*AP*GP*AP*UP*GP*AP*C)-3') ; 2934.831 1 ? ? ? 'A SUBSTRATE OF RNASE H' 2 polymer syn ;DNA/RNA (5'-R(*OMGP*OMUP*OMC)-D(P*AP*TP*CP*T)-R(P*OMCP*OMC)-3') ; 2802.865 1 ? ? ? 'A SUBSTRATE OF RNASE H' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no GGAGAUGAC GGAGAUGAC A ? 2 'polydeoxyribonucleotide/polyribonucleotide hybrid' no yes '(OMG)(OMU)(OMC)(DA)(DT)(DC)(DT)(OMC)(OMC)' GUCATCTCC B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 A n 1 4 G n 1 5 A n 1 6 U n 1 7 G n 1 8 A n 1 9 C n 2 1 OMG n 2 2 OMU n 2 3 OMC n 2 4 DA n 2 5 DT n 2 6 DC n 2 7 DT n 2 8 OMC n 2 9 OMC n # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 1NAO 1NAO ? ? ? 2 2 PDB 1NAO 1NAO ? ? ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1NAO A 1 ? 9 ? 1NAO 1 ? 9 ? 1 9 2 2 1NAO B 1 ? 9 ? 1NAO 10 ? 18 ? 10 18 # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 OMC 'RNA linking' n "O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE" ? 'C10 H16 N3 O8 P' 337.223 OMG 'RNA linking' n "O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O8 P' 377.247 OMU 'RNA linking' n ;O2'-METHYLURIDINE 5'-MONOPHOSPHATE ; ? 'C10 H15 N2 O9 P' 338.208 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 313 _pdbx_nmr_exptl_sample_conditions.pressure ? _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.pressure_units . _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model AMX600 _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.type ? # _pdbx_nmr_refine.entry_id 1NAO _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1NAO _pdbx_nmr_details.text '00MM NACL, 50MM NA PHOSPHATE, 3MM EDTA' # _pdbx_nmr_ensemble.entry_id 1NAO _pdbx_nmr_ensemble.conformers_calculated_total_number 10 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria AVERAGED _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 ? # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement 'X-PLOR 3.1F' 3.1F BRUNGER 1 'structure solution' X-PLOR ? ? 2 # _exptl.entry_id 1NAO _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1NAO _struct.title ;SOLUTION STRUCTURE OF AN RNA 2'-O-METHYLATED RNA DUPLEX CONTAINING AN RNA/DNA HYBRID SEGMENT AT THE CENTER, NMR, MINIMIZED AVERAGE STRUCTURE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1NAO _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' _struct_keywords.text 'DNA/RNA DUPLEX, DNA-RNA HYBRID' # 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 _struct_conn.pdbx_role covale1 covale both ? B OMG 1 "O3'" ? ? ? 1_555 B OMU 2 P ? ? B OMG 10 B OMU 11 1_555 ? ? ? ? ? ? ? 1.618 ? ? covale2 covale both ? B OMU 2 "O3'" ? ? ? 1_555 B OMC 3 P ? ? B OMU 11 B OMC 12 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale3 covale both ? B OMC 3 "O3'" ? ? ? 1_555 B DA 4 P ? ? B OMC 12 B DA 13 1_555 ? ? ? ? ? ? ? 1.617 ? ? covale4 covale both ? B DT 7 "O3'" ? ? ? 1_555 B OMC 8 P ? ? B DT 16 B OMC 17 1_555 ? ? ? ? ? ? ? 1.621 ? ? covale5 covale both ? B OMC 8 "O3'" ? ? ? 1_555 B OMC 9 P ? ? B OMC 17 B OMC 18 1_555 ? ? ? ? ? ? ? 1.615 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B OMC 9 N3 ? ? A G 1 B OMC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B OMC 9 O2 ? ? A G 1 B OMC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B OMC 9 N4 ? ? A G 1 B OMC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B OMC 8 N3 ? ? A G 2 B OMC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B OMC 8 O2 ? ? A G 2 B OMC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B OMC 8 N4 ? ? A G 2 B OMC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 B DT 7 N3 ? ? A A 3 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 B DT 7 O4 ? ? A A 3 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 B DC 6 N3 ? ? A G 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 B DC 6 O2 ? ? A G 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 B DC 6 N4 ? ? A G 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 B DT 5 N3 ? ? A A 5 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 B DT 5 O4 ? ? A A 5 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 6 N3 ? ? ? 1_555 B DA 4 N1 ? ? A U 6 B DA 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 O4 ? ? ? 1_555 B DA 4 N6 ? ? A U 6 B DA 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N1 ? ? ? 1_555 B OMC 3 N3 ? ? A G 7 B OMC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N2 ? ? ? 1_555 B OMC 3 O2 ? ? A G 7 B OMC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 O6 ? ? ? 1_555 B OMC 3 N4 ? ? A G 7 B OMC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 8 N1 ? ? ? 1_555 B OMU 2 N3 ? ? A A 8 B OMU 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 8 N6 ? ? ? 1_555 B OMU 2 O4 ? ? A A 8 B OMU 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 9 N3 ? ? ? 1_555 B OMG 1 N1 ? ? A C 9 B OMG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 9 N4 ? ? ? 1_555 B OMG 1 O6 ? ? A C 9 B OMG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 9 O2 ? ? ? 1_555 B OMG 1 N2 ? ? A C 9 B OMG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _database_PDB_matrix.entry_id 1NAO _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 1NAO _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 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 A 3 3 3 A A A . n A 1 4 G 4 4 4 G G 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 G 7 7 7 G G A . n A 1 8 A 8 8 8 A A A . n A 1 9 C 9 9 9 C C A . n B 2 1 OMG 1 10 10 OMG OMG B . n B 2 2 OMU 2 11 11 OMU OMU B . n B 2 3 OMC 3 12 12 OMC OMC B . n B 2 4 DA 4 13 13 DA A B . n B 2 5 DT 5 14 14 DT T B . n B 2 6 DC 6 15 15 DC C B . n B 2 7 DT 7 16 16 DT T B . n B 2 8 OMC 8 17 17 OMC OMC B . n B 2 9 OMC 9 18 18 OMC OMC B . n # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 B OMG 1 B OMG 10 ? G "O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE" 2 B OMU 2 B OMU 11 ? U ;O2'-METHYLURIDINE 5'-MONOPHOSPHATE ; 3 B OMC 3 B OMC 12 ? C "O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE" 4 B OMC 8 B OMC 17 ? C "O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE" 5 B OMC 9 B OMC 18 ? C "O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE" # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation 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 1997-01-27 2 'Structure model' 1 1 2008-03-10 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-23 # _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' 'Database references' 4 4 'Structure model' 'Derived calculations' 5 4 '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 4 'Structure model' database_2 2 4 'Structure model' pdbx_database_status 3 4 'Structure model' pdbx_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list 5 4 'Structure model' struct_conn # 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_database_status.process_site' 4 4 'Structure model' '_struct_conn.pdbx_dist_value' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 9 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 10 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 11 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 12 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 13 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 14 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 15 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.1 ? 1 X-PLOR refinement 3.1 ? 2 X-PLOR phasing 3.1 ? 3 # 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 "C3'" A G 1 ? ? "C2'" A G 1 ? ? "C1'" A G 1 ? ? 106.67 101.50 5.17 0.80 N 2 1 N7 A G 1 ? ? C8 A G 1 ? ? N9 A G 1 ? ? 117.47 113.10 4.37 0.50 N 3 1 C8 A G 1 ? ? N9 A G 1 ? ? C4 A G 1 ? ? 103.93 106.40 -2.47 0.40 N 4 1 N7 A G 2 ? ? C8 A G 2 ? ? N9 A G 2 ? ? 117.66 113.10 4.56 0.50 N 5 1 N7 A A 3 ? ? C8 A A 3 ? ? N9 A A 3 ? ? 117.62 113.80 3.82 0.50 N 6 1 N7 A G 4 ? ? C8 A G 4 ? ? N9 A G 4 ? ? 117.62 113.10 4.52 0.50 N 7 1 C8 A G 4 ? ? N9 A G 4 ? ? C4 A G 4 ? ? 103.81 106.40 -2.59 0.40 N 8 1 N7 A A 5 ? ? C8 A A 5 ? ? N9 A A 5 ? ? 118.05 113.80 4.25 0.50 N 9 1 "C3'" A U 6 ? ? "C2'" A U 6 ? ? "C1'" A U 6 ? ? 106.78 101.50 5.28 0.80 N 10 1 "O4'" A U 6 ? ? "C1'" A U 6 ? ? N1 A U 6 ? ? 113.43 108.50 4.93 0.70 N 11 1 "C3'" A G 7 ? ? "C2'" A G 7 ? ? "C1'" A G 7 ? ? 106.44 101.50 4.94 0.80 N 12 1 N7 A G 7 ? ? C8 A G 7 ? ? N9 A G 7 ? ? 117.53 113.10 4.43 0.50 N 13 1 N7 A A 8 ? ? C8 A A 8 ? ? N9 A A 8 ? ? 117.53 113.80 3.73 0.50 N 14 1 "O4'" B DA 13 ? ? "C1'" B DA 13 ? ? N9 B DA 13 ? ? 110.81 108.30 2.51 0.30 N 15 1 N7 B DA 13 ? ? C8 B DA 13 ? ? N9 B DA 13 ? ? 117.85 113.80 4.05 0.50 N 16 1 "O4'" B DT 14 ? ? "C1'" B DT 14 ? ? N1 B DT 14 ? ? 111.61 108.30 3.31 0.30 N 17 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 111.70 108.30 3.40 0.30 N 18 1 "O4'" B DT 16 ? ? "C1'" B DT 16 ? ? N1 B DT 16 ? ? 111.46 108.30 3.16 0.30 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1NAO 'double helix' 1NAO 'a-form double 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 B OMC 9 1_555 -0.633 -0.327 -0.094 -2.528 0.759 0.259 1 A_G1:OMC18_B A 1 ? B 18 ? 19 1 1 A G 2 1_555 B OMC 8 1_555 -0.895 -0.376 0.036 -1.293 -12.662 2.598 2 A_G2:OMC17_B A 2 ? B 17 ? 19 1 1 A A 3 1_555 B DT 7 1_555 -0.219 -0.212 -0.326 0.589 0.971 -3.118 3 A_A3:DT16_B A 3 ? B 16 ? 20 1 1 A G 4 1_555 B DC 6 1_555 -0.360 -0.267 0.149 2.800 -5.671 -0.586 4 A_G4:DC15_B A 4 ? B 15 ? 19 1 1 A A 5 1_555 B DT 5 1_555 0.057 -0.123 -0.170 -5.205 -5.529 -3.545 5 A_A5:DT14_B A 5 ? B 14 ? 20 1 1 A U 6 1_555 B DA 4 1_555 0.581 -0.276 -0.225 8.351 -6.664 -0.610 6 A_U6:DA13_B A 6 ? B 13 ? 20 1 1 A G 7 1_555 B OMC 3 1_555 -1.023 -0.395 -0.543 -6.473 -8.654 6.064 7 A_G7:OMC12_B A 7 ? B 12 ? 19 1 1 A A 8 1_555 B OMU 2 1_555 1.480 -0.158 -0.061 2.847 -4.469 -14.621 8 A_A8:OMU11_B A 8 ? B 11 ? 20 1 1 A C 9 1_555 B OMG 1 1_555 0.684 -0.140 -0.274 6.487 0.254 2.063 9 A_C9:OMG10_B A 9 ? B 10 ? 19 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 B OMC 9 1_555 A G 2 1_555 B OMC 8 1_555 -1.260 -0.522 3.528 -5.407 -3.227 41.028 -0.356 1.141 3.687 -4.571 7.660 41.487 1 AA_G1G2:OMC17OMC18_BB A 1 ? B 18 ? A 2 ? B 17 ? 1 A G 2 1_555 B OMC 8 1_555 A A 3 1_555 B DT 7 1_555 -1.237 0.190 4.061 -2.496 -16.207 37.995 2.449 1.419 3.752 -23.597 3.634 41.262 2 AA_G2A3:DT16OMC17_BB A 2 ? B 17 ? A 3 ? B 16 ? 1 A A 3 1_555 B DT 7 1_555 A G 4 1_555 B DC 6 1_555 0.470 0.080 4.092 0.615 9.606 28.877 -2.271 -0.740 3.925 18.620 -1.191 30.406 3 AA_A3G4:DC15DT16_BB A 3 ? B 16 ? A 4 ? B 15 ? 1 A G 4 1_555 B DC 6 1_555 A A 5 1_555 B DT 5 1_555 -1.454 0.118 3.812 -3.769 23.815 36.588 -2.620 1.519 3.406 33.810 5.352 43.590 4 AA_G4A5:DT14DC15_BB A 4 ? B 15 ? A 5 ? B 14 ? 1 A A 5 1_555 B DT 5 1_555 A U 6 1_555 B DA 4 1_555 0.753 -1.575 2.851 -1.179 -1.778 26.967 -2.969 -1.874 2.911 -3.806 2.523 27.049 5 AA_A5U6:DA13DT14_BB A 5 ? B 14 ? A 6 ? B 13 ? 1 A U 6 1_555 B DA 4 1_555 A G 7 1_555 B OMC 3 1_555 0.815 -1.759 3.473 -2.073 20.254 30.293 -5.370 -1.568 1.906 34.320 3.512 36.366 6 AA_U6G7:OMC12DA13_BB A 6 ? B 13 ? A 7 ? B 12 ? 1 A G 7 1_555 B OMC 3 1_555 A A 8 1_555 B OMU 2 1_555 -2.589 -0.567 3.018 -2.905 2.929 44.361 -1.002 3.164 3.132 3.869 3.838 44.543 7 AA_G7A8:OMU11OMC12_BB A 7 ? B 12 ? A 8 ? B 11 ? 1 A A 8 1_555 B OMU 2 1_555 A C 9 1_555 B OMG 1 1_555 2.319 -2.049 3.219 3.660 -3.693 28.126 -3.252 -3.808 3.717 -7.517 -7.450 28.593 8 AA_A8C9:OMG10OMU11_BB A 8 ? B 11 ? A 9 ? B 10 ? #