data_1BDZ # _entry.id 1BDZ # _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 1BDZ pdb_00001bdz 10.2210/pdb1bdz/pdb WWPDB D_1000171641 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1BDZ _pdbx_database_status.recvd_initial_deposition_date 1998-05-12 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Radha, P.K.' 1 'Patel, P.K.' 2 'Hosur, R.V.' 3 # _citation.id primary _citation.title 'NMR structure of the extended Myb cognate sequence and modeling studies on specific DNA-Myb complexes.' _citation.journal_abbrev Biochemistry _citation.journal_volume 37 _citation.page_first 9952 _citation.page_last 9963 _citation.year 1998 _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 9665700 _citation.pdbx_database_id_DOI 10.1021/bi9806753 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Radha, P.K.' 1 ? primary 'Patel, P.K.' 2 ? primary 'Hosur, R.V.' 3 ? # _cell.entry_id 1BDZ _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 1BDZ _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*AP*CP*AP*AP*CP*TP*GP*CP*AP*GP*TP*TP*GP*T)-3') ; _entity.formula_weight 4279.804 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DA)(DC)(DA)(DA)(DC)(DT)(DG)(DC)(DA)(DG)(DT)(DT)(DG)(DT)' _entity_poly.pdbx_seq_one_letter_code_can ACAACTGCAGTTGT _entity_poly.pdbx_strand_id A,B _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 DA n 1 2 DC n 1 3 DA n 1 4 DA n 1 5 DC n 1 6 DT n 1 7 DG n 1 8 DC n 1 9 DA n 1 10 DG n 1 11 DT n 1 12 DT n 1 13 DG n 1 14 DT 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 'CONTAINS C-MYB COGNATE SITE' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1BDZ _struct_ref.pdbx_db_accession 1BDZ _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1BDZ A 1 ? 14 ? 1BDZ 1 ? 14 ? 1 14 2 1 1BDZ B 1 ? 14 ? 1BDZ 1 ? 14 ? 1 14 # 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 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 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 NOESY 1 2 1 TOCSY 1 3 1 ECOSY 1 4 1 HMQC 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure 0.1 _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _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 H2O # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model 'AMX 500' _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 500 # _pdbx_nmr_refine.entry_id 1BDZ _pdbx_nmr_refine.method 'RELAXATION MATRIX AND RESTRAINED MOLECULAR DYNAMICS CALCULATION' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1BDZ _pdbx_nmr_details.text ;THE STRUCTURE WAS DETERMINED USING NOESY, CLEAN TOCSY, ECOSY AND 2D HETERONUCLEAR INVERSE DETECTED 13C-1H HMQC SPECTRUM AT NATURAL ABUNDANCE. ; # _pdbx_nmr_ensemble.entry_id 1BDZ _pdbx_nmr_ensemble.conformers_calculated_total_number 24 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'GOOD R FACTOR (<0.21) AND LEAST DEVIATION IN COVALENT GEOMETRY' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement X-PLOR 3.0 BRUNGER 1 'structure solution' UXNMR ? ? 2 # _exptl.entry_id 1BDZ _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1BDZ _struct.title ;NMR STRUCTURE OF A 14 MER EXTENDED C-MYB COGNATE DNA SEQUENCE 5'D(APCPAPAP CPTPGPCP APGPTPTP GPT)3', MINIMIZED AVERAGE STRUCTURE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1BDZ _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DEOXYRIBONUCLEIC ACID, DUPLEX DNA, C-MYB COGNATE SITE, DNA' # 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 1 ? # _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 DA 1 N1 ? ? ? 1_555 B DT 14 N3 ? ? A DA 1 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 14 O4 ? ? A DA 1 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 13 N1 ? ? A DC 2 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 13 O6 ? ? A DC 2 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 13 N2 ? ? A DC 2 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DA 3 N1 ? ? ? 1_555 B DT 12 N3 ? ? A DA 3 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N6 ? ? ? 1_555 B DT 12 O4 ? ? A DA 3 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 11 N3 ? ? A DA 4 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 11 O4 ? ? A DA 4 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 5 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 5 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 5 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 9 N1 ? ? A DT 6 B DA 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 9 N6 ? ? A DT 6 B DA 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 7 B DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 7 B DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 7 B DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 7 N1 ? ? A DC 8 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 7 O6 ? ? A DC 8 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 7 N2 ? ? A DC 8 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DA 9 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 9 B DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DA 9 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 9 B DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 10 B DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 10 B DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 10 B DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DT 11 N3 ? ? ? 1_555 B DA 4 N1 ? ? A DT 11 B DA 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DT 11 O4 ? ? ? 1_555 B DA 4 N6 ? ? A DT 11 B DA 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DT 12 N3 ? ? ? 1_555 B DA 3 N1 ? ? A DT 12 B DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DT 12 O4 ? ? ? 1_555 B DA 3 N6 ? ? A DT 12 B DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 13 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 13 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 13 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 13 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 13 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 13 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A DT 14 N3 ? ? ? 1_555 B DA 1 N1 ? ? A DT 14 B DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A DT 14 O4 ? ? ? 1_555 B DA 1 N6 ? ? A DT 14 B DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 1BDZ _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 1BDZ _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 DA 1 1 1 DA A A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DC 8 8 8 DC C A . n A 1 9 DA 9 9 9 DA A A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DT 11 11 11 DT T A . n A 1 12 DT 12 12 12 DT T A . n A 1 13 DG 13 13 13 DG G A . n A 1 14 DT 14 14 14 DT T A . n B 1 1 DA 1 1 1 DA A B . n B 1 2 DC 2 2 2 DC C B . n B 1 3 DA 3 3 3 DA A B . n B 1 4 DA 4 4 4 DA A B . n B 1 5 DC 5 5 5 DC C B . n B 1 6 DT 6 6 6 DT T B . n B 1 7 DG 7 7 7 DG G B . n B 1 8 DC 8 8 8 DC C B . n B 1 9 DA 9 9 9 DA A B . n B 1 10 DG 10 10 10 DG G B . n B 1 11 DT 11 11 11 DT T B . n B 1 12 DT 12 12 12 DT T B . n B 1 13 DG 13 13 13 DG G B . n B 1 14 DT 14 14 14 DT T B . n # _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 1998-12-02 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-16 # _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 # 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' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.0 ? 1 X-PLOR refinement 3.0 ? 2 X-PLOR phasing 3.0 ? 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 C4 A DA 1 ? ? C5 A DA 1 ? ? C6 A DA 1 ? ? 113.94 117.00 -3.06 0.50 N 2 1 C5 A DA 1 ? ? C6 A DA 1 ? ? N1 A DA 1 ? ? 121.14 117.70 3.44 0.50 N 3 1 N1 A DA 1 ? ? C6 A DA 1 ? ? N6 A DA 1 ? ? 114.57 118.60 -4.03 0.60 N 4 1 N3 A DC 2 ? ? C2 A DC 2 ? ? O2 A DC 2 ? ? 117.43 121.90 -4.47 0.70 N 5 1 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 111.87 108.30 3.57 0.30 N 6 1 C4 A DA 3 ? ? C5 A DA 3 ? ? C6 A DA 3 ? ? 113.71 117.00 -3.29 0.50 N 7 1 C5 A DA 3 ? ? C6 A DA 3 ? ? N1 A DA 3 ? ? 121.60 117.70 3.90 0.50 N 8 1 N1 A DA 3 ? ? C6 A DA 3 ? ? N6 A DA 3 ? ? 114.82 118.60 -3.78 0.60 N 9 1 C4 A DA 4 ? ? C5 A DA 4 ? ? C6 A DA 4 ? ? 113.71 117.00 -3.29 0.50 N 10 1 C5 A DA 4 ? ? C6 A DA 4 ? ? N1 A DA 4 ? ? 121.40 117.70 3.70 0.50 N 11 1 N1 A DA 4 ? ? C6 A DA 4 ? ? N6 A DA 4 ? ? 114.34 118.60 -4.26 0.60 N 12 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 110.29 108.30 1.99 0.30 N 13 1 N3 A DT 6 ? ? C2 A DT 6 ? ? O2 A DT 6 ? ? 118.53 122.30 -3.77 0.60 N 14 1 C6 A DT 6 ? ? C5 A DT 6 ? ? C7 A DT 6 ? ? 118.86 122.90 -4.04 0.60 N 15 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 112.13 108.30 3.83 0.30 N 16 1 C4 A DA 9 ? ? C5 A DA 9 ? ? C6 A DA 9 ? ? 113.79 117.00 -3.21 0.50 N 17 1 C5 A DA 9 ? ? C6 A DA 9 ? ? N1 A DA 9 ? ? 121.57 117.70 3.87 0.50 N 18 1 N1 A DA 9 ? ? C6 A DA 9 ? ? N6 A DA 9 ? ? 114.55 118.60 -4.05 0.60 N 19 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.92 108.30 2.62 0.30 N 20 1 N3 A DT 11 ? ? C2 A DT 11 ? ? O2 A DT 11 ? ? 118.37 122.30 -3.93 0.60 N 21 1 C6 A DT 12 ? ? C5 A DT 12 ? ? C7 A DT 12 ? ? 118.65 122.90 -4.25 0.60 N 22 1 C4 B DA 1 ? ? C5 B DA 1 ? ? C6 B DA 1 ? ? 113.84 117.00 -3.16 0.50 N 23 1 C5 B DA 1 ? ? C6 B DA 1 ? ? N1 B DA 1 ? ? 121.13 117.70 3.43 0.50 N 24 1 N1 B DA 1 ? ? C6 B DA 1 ? ? N6 B DA 1 ? ? 114.55 118.60 -4.05 0.60 N 25 1 N3 B DC 2 ? ? C2 B DC 2 ? ? O2 B DC 2 ? ? 117.55 121.90 -4.35 0.70 N 26 1 "O4'" B DA 3 ? ? "C1'" B DA 3 ? ? N9 B DA 3 ? ? 111.94 108.30 3.64 0.30 N 27 1 C4 B DA 3 ? ? C5 B DA 3 ? ? C6 B DA 3 ? ? 113.74 117.00 -3.26 0.50 N 28 1 C5 B DA 3 ? ? C6 B DA 3 ? ? N1 B DA 3 ? ? 121.55 117.70 3.85 0.50 N 29 1 N1 B DA 3 ? ? C6 B DA 3 ? ? N6 B DA 3 ? ? 114.82 118.60 -3.78 0.60 N 30 1 C4 B DA 4 ? ? C5 B DA 4 ? ? C6 B DA 4 ? ? 113.78 117.00 -3.22 0.50 N 31 1 C5 B DA 4 ? ? C6 B DA 4 ? ? N1 B DA 4 ? ? 121.35 117.70 3.65 0.50 N 32 1 N1 B DA 4 ? ? C6 B DA 4 ? ? N6 B DA 4 ? ? 114.43 118.60 -4.17 0.60 N 33 1 "O4'" B DC 5 ? ? "C1'" B DC 5 ? ? N1 B DC 5 ? ? 111.16 108.30 2.86 0.30 N 34 1 "O4'" B DT 6 ? ? "C1'" B DT 6 ? ? N1 B DT 6 ? ? 110.27 108.30 1.97 0.30 N 35 1 N3 B DT 6 ? ? C2 B DT 6 ? ? O2 B DT 6 ? ? 118.55 122.30 -3.75 0.60 N 36 1 C6 B DT 6 ? ? C5 B DT 6 ? ? C7 B DT 6 ? ? 118.88 122.90 -4.02 0.60 N 37 1 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 112.20 108.30 3.90 0.30 N 38 1 C4 B DA 9 ? ? C5 B DA 9 ? ? C6 B DA 9 ? ? 113.77 117.00 -3.23 0.50 N 39 1 C5 B DA 9 ? ? C6 B DA 9 ? ? N1 B DA 9 ? ? 121.55 117.70 3.85 0.50 N 40 1 N1 B DA 9 ? ? C6 B DA 9 ? ? N6 B DA 9 ? ? 114.52 118.60 -4.08 0.60 N 41 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.72 108.30 2.42 0.30 N 42 1 N3 B DT 11 ? ? C2 B DT 11 ? ? O2 B DT 11 ? ? 118.46 122.30 -3.84 0.60 N 43 1 C6 B DT 12 ? ? C5 B DT 12 ? ? C7 B DT 12 ? ? 118.72 122.90 -4.18 0.60 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DG A 7 ? ? 0.071 'SIDE CHAIN' 2 1 DT A 11 ? ? 0.061 'SIDE CHAIN' 3 1 DA B 1 ? ? 0.052 'SIDE CHAIN' 4 1 DG B 7 ? ? 0.076 'SIDE CHAIN' # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1BDZ 'double helix' 1BDZ 'a-form double helix' 1BDZ 'b-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 DA 1 1_555 B DT 14 1_555 0.136 -0.098 0.113 8.230 -17.699 0.469 1 A_DA1:DT14_B A 1 ? B 14 ? 20 1 1 A DC 2 1_555 B DG 13 1_555 0.726 -0.297 0.024 1.880 -15.746 1.169 2 A_DC2:DG13_B A 2 ? B 13 ? 19 1 1 A DA 3 1_555 B DT 12 1_555 0.244 -0.079 -0.038 -4.091 -10.695 -3.042 3 A_DA3:DT12_B A 3 ? B 12 ? 20 1 1 A DA 4 1_555 B DT 11 1_555 0.146 -0.083 0.183 0.893 -8.962 0.371 4 A_DA4:DT11_B A 4 ? B 11 ? 20 1 1 A DC 5 1_555 B DG 10 1_555 0.583 -0.241 0.192 -3.313 4.766 -0.160 5 A_DC5:DG10_B A 5 ? B 10 ? 19 1 1 A DT 6 1_555 B DA 9 1_555 -0.093 -0.109 -0.432 3.559 7.671 -1.660 6 A_DT6:DA9_B A 6 ? B 9 ? 20 1 1 A DG 7 1_555 B DC 8 1_555 -0.377 -0.305 -0.662 -0.935 21.982 -3.356 7 A_DG7:DC8_B A 7 ? B 8 ? 19 1 1 A DC 8 1_555 B DG 7 1_555 0.378 -0.310 -0.688 1.863 22.301 -3.458 8 A_DC8:DG7_B A 8 ? B 7 ? 19 1 1 A DA 9 1_555 B DT 6 1_555 0.090 -0.122 -0.472 -2.928 11.946 -2.706 9 A_DA9:DT6_B A 9 ? B 6 ? 20 1 1 A DG 10 1_555 B DC 5 1_555 -0.607 -0.246 0.117 3.416 3.802 -0.177 10 A_DG10:DC5_B A 10 ? B 5 ? 19 1 1 A DT 11 1_555 B DA 4 1_555 -0.115 -0.083 0.147 -1.574 -8.979 0.596 11 A_DT11:DA4_B A 11 ? B 4 ? 20 1 1 A DT 12 1_555 B DA 3 1_555 -0.236 -0.079 -0.097 3.912 -10.483 -2.628 12 A_DT12:DA3_B A 12 ? B 3 ? 20 1 1 A DG 13 1_555 B DC 2 1_555 -0.727 -0.299 0.042 -2.367 -15.126 0.945 13 A_DG13:DC2_B A 13 ? B 2 ? 19 1 1 A DT 14 1_555 B DA 1 1_555 -0.116 -0.099 0.120 -9.148 -17.318 0.909 14 A_DT14:DA1_B A 14 ? B 1 ? 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 DA 1 1_555 B DT 14 1_555 A DC 2 1_555 B DG 13 1_555 0.162 -0.719 3.258 0.825 4.060 36.174 -1.707 -0.146 3.165 6.512 -1.323 36.403 1 AA_DA1DC2:DG13DT14_BB A 1 ? B 14 ? A 2 ? B 13 ? 1 A DC 2 1_555 B DG 13 1_555 A DA 3 1_555 B DT 12 1_555 0.459 -1.180 3.144 1.976 11.833 31.092 -3.846 -0.504 2.560 21.116 -3.527 33.273 2 AA_DC2DA3:DT12DG13_BB A 2 ? B 13 ? A 3 ? B 12 ? 1 A DA 3 1_555 B DT 12 1_555 A DA 4 1_555 B DT 11 1_555 -0.567 -0.427 2.986 -3.156 -0.848 31.810 -0.635 0.502 3.036 -1.541 5.739 31.973 3 AA_DA3DA4:DT11DT12_BB A 3 ? B 12 ? A 4 ? B 11 ? 1 A DA 4 1_555 B DT 11 1_555 A DC 5 1_555 B DG 10 1_555 0.721 -1.670 3.474 -0.878 -1.339 34.900 -2.566 -1.343 3.515 -2.230 1.463 34.935 4 AA_DA4DC5:DG10DT11_BB A 4 ? B 11 ? A 5 ? B 10 ? 1 A DC 5 1_555 B DG 10 1_555 A DT 6 1_555 B DA 9 1_555 0.097 -2.147 3.124 4.831 -3.583 26.643 -3.655 0.998 3.344 -7.650 -10.317 27.302 5 AA_DC5DT6:DA9DG10_BB A 5 ? B 10 ? A 6 ? B 9 ? 1 A DT 6 1_555 B DA 9 1_555 A DG 7 1_555 B DC 8 1_555 0.590 -2.026 3.903 -0.127 -14.181 28.381 -0.200 -1.113 4.393 -26.904 0.241 31.661 6 AA_DT6DG7:DC8DA9_BB A 6 ? B 9 ? A 7 ? B 8 ? 1 A DG 7 1_555 B DC 8 1_555 A DC 8 1_555 B DG 7 1_555 0.020 -2.393 3.552 -0.098 -3.839 36.568 -3.207 -0.046 3.775 -6.097 0.155 36.762 7 AA_DG7DC8:DG7DC8_BB A 7 ? B 8 ? A 8 ? B 7 ? 1 A DC 8 1_555 B DG 7 1_555 A DA 9 1_555 B DT 6 1_555 -0.556 -2.184 3.978 -0.490 -16.117 27.972 0.091 0.880 4.546 -30.361 0.924 32.206 8 AA_DC8DA9:DT6DG7_BB A 8 ? B 7 ? A 9 ? B 6 ? 1 A DA 9 1_555 B DT 6 1_555 A DG 10 1_555 B DC 5 1_555 -0.082 -2.248 3.233 -4.214 -5.418 25.794 -3.372 -0.990 3.589 -11.872 9.234 26.677 9 AA_DA9DG10:DC5DT6_BB A 9 ? B 6 ? A 10 ? B 5 ? 1 A DG 10 1_555 B DC 5 1_555 A DT 11 1_555 B DA 4 1_555 -0.833 -1.821 3.497 0.650 -2.767 34.037 -2.624 1.531 3.613 -4.717 -1.108 34.152 10 AA_DG10DT11:DA4DC5_BB A 10 ? B 5 ? A 11 ? B 4 ? 1 A DT 11 1_555 B DA 4 1_555 A DT 12 1_555 B DA 3 1_555 0.545 -0.408 2.973 3.417 -0.632 32.190 -0.629 -0.423 3.021 -1.136 -6.141 32.372 11 AA_DT11DT12:DA3DA4_BB A 11 ? B 4 ? A 12 ? B 3 ? 1 A DT 12 1_555 B DA 3 1_555 A DG 13 1_555 B DC 2 1_555 -0.449 -1.209 3.157 -2.488 12.103 30.763 -3.971 0.408 2.542 21.746 4.470 33.096 12 AA_DT12DG13:DC2DA3_BB A 12 ? B 3 ? A 13 ? B 2 ? 1 A DG 13 1_555 B DC 2 1_555 A DT 14 1_555 B DA 1 1_555 -0.066 -0.738 3.274 -0.242 4.743 36.117 -1.832 0.072 3.156 7.610 0.389 36.418 13 AA_DG13DT14:DA1DC2_BB A 13 ? B 2 ? A 14 ? B 1 ? #