data_1D69 # _entry.id 1D69 # _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 1D69 pdb_00001d69 10.2210/pdb1d69/pdb WWPDB D_1000172670 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1D69 _pdbx_database_status.recvd_initial_deposition_date 1992-04-15 _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 'Chou, S.-H.' 1 'Cheng, J.-W.' 2 'Reid, B.R.' 3 # _citation.id primary _citation.title 'Solution structure of [d(ATGAGCGAATA)]2. Adjacent G:A mismatches stabilized by cross-strand base-stacking and BII phosphate groups.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 228 _citation.page_first 138 _citation.page_last 155 _citation.year 1992 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 1447778 _citation.pdbx_database_id_DOI '10.1016/0022-2836(92)90497-8' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chou, S.H.' 1 ? primary 'Cheng, J.W.' 2 ? primary 'Reid, B.R.' 3 ? # _cell.entry_id 1D69 _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 1D69 _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(P*AP*TP*GP*AP*GP*CP*GP*AP*AP*TP*A)-3') ; _entity.formula_weight 3406.261 _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)(DT)(DG)(DA)(DG)(DC)(DG)(DA)(DA)(DT)(DA)' _entity_poly.pdbx_seq_one_letter_code_can ATGAGCGAATA _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 DT n 1 3 DG n 1 4 DA n 1 5 DG n 1 6 DC n 1 7 DG n 1 8 DA n 1 9 DA n 1 10 DT n 1 11 DA 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 'CHEMICALLY SYNTHESIZED' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1D69 _struct_ref.pdbx_db_accession 1D69 _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 1D69 A 1 ? 11 ? 1D69 1 ? 11 ? 1 11 2 1 1D69 B 1 ? 11 ? 1D69 11 ? 21 ? 11 21 # 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 # _pdbx_nmr_details.entry_id 1D69 _pdbx_nmr_details.text ;THE 3' OVERHANGING ADENOSINE RESIDUES WERE NOT INCLUDED IN THE BACK-CALCULATION AND NO COORDINATES ARE PRESENTED FOR THEM IN THIS ENTRY. ; # _pdbx_nmr_ensemble.entry_id 1D69 _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? _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 ? # _exptl.entry_id 1D69 _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1D69 _struct.title 'SOLUTION STRUCTURE OF [D(ATGAGCGAATA)]2: ADJACENT G:A MISMATCHES STABILIZED BY CROSS-STRAND BASE-STACKING AND BII PHOSPHATE GROUPS' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1D69 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DNA, DOUBLE HELIX, SHEARED HYDROGEN BONDING' # 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 10 N3 ? ? A DA 1 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 10 O4 ? ? A DA 1 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DT 2 N3 ? ? ? 1_555 B DA 9 N1 ? ? A DT 2 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 2 O4 ? ? ? 1_555 B DA 9 N6 ? ? A DT 2 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DA 8 N7 ? ? A DG 3 B DA 18 1_555 ? ? ? ? ? ? 'DG-DA MISPAIR' ? ? ? hydrog6 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DG 7 N3 ? ? A DA 4 B DG 17 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog7 hydrog ? ? A DA 4 N7 ? ? ? 1_555 B DG 7 N2 ? ? A DA 4 B DG 17 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog8 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 6 N3 ? ? A DG 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 6 O2 ? ? A DG 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 6 N4 ? ? A DG 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 6 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 6 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 6 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DA 4 N7 ? ? A DG 7 B DA 14 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog15 hydrog ? ? A DG 7 N3 ? ? ? 1_555 B DA 4 N6 ? ? A DG 7 B DA 14 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog16 hydrog ? ? A DA 8 N7 ? ? ? 1_555 B DG 3 N2 ? ? A DA 8 B DG 13 1_555 ? ? ? ? ? ? 'DA-DG MISPAIR' ? ? ? hydrog17 hydrog ? ? A DA 9 N1 ? ? ? 1_555 B DT 2 N3 ? ? A DA 9 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 9 N6 ? ? ? 1_555 B DT 2 O4 ? ? A DA 9 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 10 N3 ? ? ? 1_555 B DA 1 N1 ? ? A DT 10 B DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 10 O4 ? ? ? 1_555 B DA 1 N6 ? ? A DT 10 B DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 1D69 _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 1D69 _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 DT 2 2 2 DT T A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DG 5 5 5 DG G A . n A 1 6 DC 6 6 6 DC C A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DA 8 8 8 DA A A . n A 1 9 DA 9 9 9 DA A A . n A 1 10 DT 10 10 10 DT T A . n A 1 11 DA 11 11 ? ? ? A . n B 1 1 DA 1 11 11 DA A B . n B 1 2 DT 2 12 12 DT T B . n B 1 3 DG 3 13 13 DG G B . n B 1 4 DA 4 14 14 DA A B . n B 1 5 DG 5 15 15 DG G B . n B 1 6 DC 6 16 16 DC C B . n B 1 7 DG 7 17 17 DG G B . n B 1 8 DA 8 18 18 DA A B . n B 1 9 DA 9 19 19 DA A B . n B 1 10 DT 10 20 20 DT T B . n B 1 11 DA 11 21 ? ? ? 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 1993-04-15 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_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 P A DA 1 ? ? OP2 A DA 1 ? ? 1.603 1.485 0.118 0.017 N 2 1 P A DA 1 ? ? OP3 A DA 1 ? ? 1.486 1.607 -0.121 0.012 N 3 1 C5 A DT 2 ? ? C6 A DT 2 ? ? 1.393 1.339 0.054 0.007 N 4 1 "O3'" A DG 3 ? ? "C3'" A DG 3 ? ? 1.372 1.419 -0.047 0.006 N 5 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? 1.313 1.418 -0.105 0.012 N 6 1 "C3'" A DG 5 ? ? "C2'" A DG 5 ? ? 1.608 1.518 0.090 0.012 N 7 1 "O3'" A DG 7 ? ? "C3'" A DG 7 ? ? 1.366 1.419 -0.053 0.006 N 8 1 "O4'" A DA 8 ? ? "C1'" A DA 8 ? ? 1.306 1.418 -0.112 0.012 N 9 1 "O3'" A DA 9 ? ? "C3'" A DA 9 ? ? 1.373 1.419 -0.046 0.006 N 10 1 C5 A DT 10 ? ? C6 A DT 10 ? ? 1.391 1.339 0.052 0.007 N 11 1 P B DA 11 ? ? OP2 B DA 11 ? ? 1.604 1.485 0.119 0.017 N 12 1 P B DA 11 ? ? OP3 B DA 11 ? ? 1.486 1.607 -0.121 0.012 N 13 1 C5 B DT 12 ? ? C6 B DT 12 ? ? 1.394 1.339 0.055 0.007 N 14 1 "O3'" B DG 13 ? ? "C3'" B DG 13 ? ? 1.373 1.419 -0.046 0.006 N 15 1 "O4'" B DA 14 ? ? "C1'" B DA 14 ? ? 1.313 1.418 -0.105 0.012 N 16 1 "C3'" B DG 15 ? ? "C2'" B DG 15 ? ? 1.609 1.518 0.091 0.012 N 17 1 "O3'" B DG 17 ? ? "C3'" B DG 17 ? ? 1.367 1.419 -0.052 0.006 N 18 1 "O4'" B DA 18 ? ? "C1'" B DA 18 ? ? 1.305 1.418 -0.113 0.012 N 19 1 "O3'" B DA 19 ? ? "C3'" B DA 19 ? ? 1.373 1.419 -0.046 0.006 N 20 1 C5 B DT 20 ? ? C6 B DT 20 ? ? 1.392 1.339 0.053 0.007 N # 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 OP1 A DA 1 ? ? P A DA 1 ? ? OP2 A DA 1 ? ? 109.60 119.60 -10.00 1.50 N 2 1 "C3'" A DA 1 ? ? "O3'" A DA 1 ? ? P A DT 2 ? ? 136.26 119.70 16.56 1.20 Y 3 1 N1 A DT 2 ? ? C2 A DT 2 ? ? N3 A DT 2 ? ? 118.31 114.60 3.71 0.60 N 4 1 C2 A DT 2 ? ? N3 A DT 2 ? ? C4 A DT 2 ? ? 122.80 127.20 -4.40 0.60 N 5 1 C5 A DT 2 ? ? C6 A DT 2 ? ? N1 A DT 2 ? ? 119.96 123.70 -3.74 0.60 N 6 1 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9 A DG 3 ? ? 102.47 108.00 -5.53 0.70 N 7 1 "C1'" A DA 4 ? ? "O4'" A DA 4 ? ? "C4'" A DA 4 ? ? 114.73 110.30 4.43 0.70 N 8 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 116.01 108.30 7.71 0.30 N 9 1 "C5'" A DG 5 ? ? "C4'" A DG 5 ? ? "O4'" A DG 5 ? ? 116.45 109.80 6.65 1.10 N 10 1 "O4'" A DG 5 ? ? "C1'" A DG 5 ? ? N9 A DG 5 ? ? 101.09 108.00 -6.91 0.70 N 11 1 "C3'" A DG 5 ? ? "O3'" A DG 5 ? ? P A DC 6 ? ? 134.72 119.70 15.02 1.20 Y 12 1 "C3'" A DG 7 ? ? "O3'" A DG 7 ? ? P A DA 8 ? ? 130.15 119.70 10.45 1.20 Y 13 1 "O4'" A DA 8 ? ? "C1'" A DA 8 ? ? N9 A DA 8 ? ? 115.97 108.30 7.67 0.30 N 14 1 "C3'" A DA 8 ? ? "O3'" A DA 8 ? ? P A DA 9 ? ? 131.29 119.70 11.59 1.20 Y 15 1 "C5'" A DA 9 ? ? "C4'" A DA 9 ? ? "O4'" A DA 9 ? ? 117.34 109.80 7.54 1.10 N 16 1 "O4'" A DA 9 ? ? "C1'" A DA 9 ? ? N9 A DA 9 ? ? 99.71 108.00 -8.29 0.70 N 17 1 "C3'" A DA 9 ? ? "O3'" A DA 9 ? ? P A DT 10 ? ? 130.92 119.70 11.22 1.20 Y 18 1 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 101.83 108.00 -6.17 0.70 N 19 1 C2 A DT 10 ? ? N3 A DT 10 ? ? C4 A DT 10 ? ? 122.80 127.20 -4.40 0.60 N 20 1 C5 A DT 10 ? ? C6 A DT 10 ? ? N1 A DT 10 ? ? 119.92 123.70 -3.78 0.60 N 21 1 OP1 B DA 11 ? ? P B DA 11 ? ? OP2 B DA 11 ? ? 109.50 119.60 -10.10 1.50 N 22 1 "C3'" B DA 11 ? ? "O3'" B DA 11 ? ? P B DT 12 ? ? 136.20 119.70 16.50 1.20 Y 23 1 N1 B DT 12 ? ? C2 B DT 12 ? ? N3 B DT 12 ? ? 118.35 114.60 3.75 0.60 N 24 1 C2 B DT 12 ? ? N3 B DT 12 ? ? C4 B DT 12 ? ? 122.81 127.20 -4.39 0.60 N 25 1 C5 B DT 12 ? ? C6 B DT 12 ? ? N1 B DT 12 ? ? 119.90 123.70 -3.80 0.60 N 26 1 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 102.48 108.00 -5.52 0.70 N 27 1 "C1'" B DA 14 ? ? "O4'" B DA 14 ? ? "C4'" B DA 14 ? ? 114.60 110.30 4.30 0.70 N 28 1 "O4'" B DA 14 ? ? "C1'" B DA 14 ? ? N9 B DA 14 ? ? 115.98 108.30 7.68 0.30 N 29 1 "C5'" B DG 15 ? ? "C4'" B DG 15 ? ? "O4'" B DG 15 ? ? 116.43 109.80 6.63 1.10 N 30 1 "O4'" B DG 15 ? ? "C1'" B DG 15 ? ? N9 B DG 15 ? ? 101.07 108.00 -6.93 0.70 N 31 1 "C3'" B DG 15 ? ? "O3'" B DG 15 ? ? P B DC 16 ? ? 134.75 119.70 15.05 1.20 Y 32 1 "C3'" B DG 17 ? ? "O3'" B DG 17 ? ? P B DA 18 ? ? 130.15 119.70 10.45 1.20 Y 33 1 "O4'" B DA 18 ? ? "C1'" B DA 18 ? ? N9 B DA 18 ? ? 116.00 108.30 7.70 0.30 N 34 1 "C3'" B DA 18 ? ? "O3'" B DA 18 ? ? P B DA 19 ? ? 131.44 119.70 11.74 1.20 Y 35 1 "C5'" B DA 19 ? ? "C4'" B DA 19 ? ? "O4'" B DA 19 ? ? 117.32 109.80 7.52 1.10 N 36 1 "O4'" B DA 19 ? ? "C1'" B DA 19 ? ? N9 B DA 19 ? ? 99.70 108.00 -8.30 0.70 N 37 1 "C3'" B DA 19 ? ? "O3'" B DA 19 ? ? P B DT 20 ? ? 130.99 119.70 11.29 1.20 Y 38 1 "O4'" B DT 20 ? ? "C1'" B DT 20 ? ? N1 B DT 20 ? ? 101.90 108.00 -6.10 0.70 N 39 1 C2 B DT 20 ? ? N3 B DT 20 ? ? C4 B DT 20 ? ? 122.80 127.20 -4.40 0.60 N 40 1 C5 B DT 20 ? ? C6 B DT 20 ? ? N1 B DT 20 ? ? 119.92 123.70 -3.78 0.60 N # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A DA 11 ? A DA 11 2 1 Y 1 B DA 21 ? B DA 11 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1D69 'double helix' 1D69 'b-form double helix' 1D69 'mismatched base pair' # 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 10 1_555 0.088 -0.064 0.072 1.621 -3.147 -1.081 1 A_DA1:DT20_B A 1 ? B 20 ? 20 1 1 A DT 2 1_555 B DA 9 1_555 0.170 -0.142 0.504 -2.284 4.627 1.076 2 A_DT2:DA19_B A 2 ? B 19 ? 20 1 1 A DG 3 1_555 B DA 8 1_555 6.760 -4.529 0.779 27.759 10.833 -10.674 3 A_DG3:DA18_B A 3 ? B 18 ? ? ? 1 A DA 4 1_555 B DG 7 1_555 -6.841 -4.327 0.112 -28.853 -0.406 -15.876 4 A_DA4:DG17_B A 4 ? B 17 ? 11 10 1 A DG 5 1_555 B DC 6 1_555 0.121 -0.154 -0.557 -0.979 4.490 -0.364 5 A_DG5:DC16_B A 5 ? B 16 ? 19 1 1 A DC 6 1_555 B DG 5 1_555 -0.122 -0.154 -0.557 1.022 4.488 -0.362 6 A_DC6:DG15_B A 6 ? B 15 ? 19 1 1 A DG 7 1_555 B DA 4 1_555 6.841 -4.326 0.114 28.898 -0.432 -15.841 7 A_DG7:DA14_B A 7 ? B 14 ? 11 10 1 A DA 8 1_555 B DG 3 1_555 -6.761 -4.527 0.775 -27.825 10.775 -10.662 8 A_DA8:DG13_B A 8 ? B 13 ? ? ? 1 A DA 9 1_555 B DT 2 1_555 -0.169 -0.143 0.500 2.214 4.668 1.056 9 A_DA9:DT12_B A 9 ? B 12 ? 20 1 1 A DT 10 1_555 B DA 1 1_555 -0.088 -0.064 0.068 -1.647 -3.080 -1.121 10 A_DT10:DA11_B A 10 ? B 11 ? 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 10 1_555 A DT 2 1_555 B DA 9 1_555 0.031 -1.388 3.493 -0.847 4.450 31.544 -3.371 -0.217 3.270 8.132 1.549 31.859 1 AA_DA1DT2:DA19DT20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DT 2 1_555 B DA 9 1_555 A DG 3 1_555 B DA 8 1_555 0.009 0.668 3.337 -3.247 2.007 63.549 0.544 -0.153 3.350 1.904 3.080 63.652 2 AA_DT2DG3:DA18DA19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DG 3 1_555 B DA 8 1_555 A DA 4 1_555 B DG 7 1_555 -0.394 -1.797 4.123 1.865 -2.656 -12.045 12.137 0.903 3.659 12.366 8.685 -12.473 3 AA_DG3DA4:DG17DA18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DA 4 1_555 B DG 7 1_555 A DG 5 1_555 B DC 6 1_555 0.279 1.229 3.271 4.602 -0.079 60.251 1.225 -0.052 3.281 -0.078 -4.577 60.410 4 AA_DA4DG5:DC16DG17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A DG 5 1_555 B DC 6 1_555 A DC 6 1_555 B DG 5 1_555 -0.001 -0.833 3.011 -0.037 13.097 29.561 -3.525 -0.004 2.433 24.226 0.068 32.273 5 AA_DG5DC6:DG15DC16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A DC 6 1_555 B DG 5 1_555 A DG 7 1_555 B DA 4 1_555 -0.279 1.229 3.271 -4.610 -0.005 60.244 1.222 0.052 3.283 -0.005 4.586 60.404 6 AA_DC6DG7:DA14DG15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DG 7 1_555 B DA 4 1_555 A DA 8 1_555 B DG 3 1_555 0.393 -1.799 4.123 -1.867 -2.554 -12.058 12.015 -0.917 3.680 11.894 -8.695 -12.465 7 AA_DG7DA8:DG13DA14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DA 8 1_555 B DG 3 1_555 A DA 9 1_555 B DT 2 1_555 -0.004 0.664 3.337 3.224 2.048 63.522 0.539 0.147 3.351 1.944 -3.060 63.624 8 AA_DA8DA9:DT12DG13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DA 9 1_555 B DT 2 1_555 A DT 10 1_555 B DA 1 1_555 -0.030 -1.391 3.492 0.873 4.477 31.518 -3.384 0.220 3.266 8.188 -1.597 31.838 9 AA_DA9DT10:DA11DT12_BB A 9 ? B 12 ? A 10 ? B 11 ? #