data_1Y8D # _entry.id 1Y8D # _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 1Y8D pdb_00001y8d 10.2210/pdb1y8d/pdb RCSB RCSB031244 ? ? WWPDB D_1000031244 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1EEG 'A TETRAPLEX CONTAINING A GAG TRIAD IN THE CONTEXT OF AN A(GGGG)A DNA HEXAD' unspecified PDB 1JJP 'A TETRAPLEX CONTAINING A GAG TRIAD IN THE CONTEXT OF AN A(GGGG) DNA PENTAD' unspecified # _pdbx_database_status.entry_id 1Y8D _pdbx_database_status.status_code REL _pdbx_database_status.recvd_initial_deposition_date 2004-12-11 _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 N _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 'Phan, A.T.' 1 'Kuryavyi, V.V.' 2 'Ma, J.-B.' 3 'Faure, A.' 4 'Andreola, M.-L.' 5 'Patel, D.J.' 6 # _citation.id primary _citation.title 'An interlocked dimeric parallel-stranded DNA quadruplex: A potent inhibitor of HIV-1 integrase' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 102 _citation.page_first 634 _citation.page_last 639 _citation.year 2005 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15637158 _citation.pdbx_database_id_DOI 10.1073/pnas.0406278102 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Phan, A.T.' 1 ? primary 'Kuryavyi, V.V.' 2 ? primary 'Ma, J.-B.' 3 ? primary 'Faure, A.' 4 ? primary 'Andreola, M.-L.' 5 ? primary 'Patel, D.J.' 6 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-D(*GP*GP*GP*GP*TP*GP*GP*GP*AP*GP*GP*AP*GP*GP*GP*T)-3'" _entity.formula_weight 5140.312 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'HIV INTEGRASE INHIBITOR SEQUENCE' _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 '(DG)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DA)(DG)(DG)(DA)(DG)(DG)(DG)(DT)' _entity_poly.pdbx_seq_one_letter_code_can GGGGTGGGAGGAGGGT _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 DG n 1 2 DG n 1 3 DG n 1 4 DG n 1 5 DT n 1 6 DG n 1 7 DG n 1 8 DG n 1 9 DA n 1 10 DG n 1 11 DG n 1 12 DA n 1 13 DG n 1 14 DG n 1 15 DG n 1 16 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 'DNA aptamer obtained by SELEX of ODN inhibiting RNase H activity of HIV Reverse Transcriptase' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1Y8D _struct_ref.pdbx_db_accession 1Y8D _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 1Y8D A 1 ? 16 ? 1Y8D 1 ? 16 ? 1 16 2 1 1Y8D B 1 ? 16 ? 1Y8D 1 ? 16 ? 1 16 # 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 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 '2D NOESY' 1 2 2 '2D NOESY' 2 3 1 '2D TOCSY' 1 4 2 '1H-31P COSY' 2 5 1 '1H-15N JRHMQC' 1 6 1 '1H-13C JRHMBC' 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7 _pdbx_nmr_exptl_sample_conditions.ionic_strength '90 mM KCl' _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 'DNA 15N,13C' '90 MM KCL pH 7; 90%H2O,10% D2O' 2 'DNA 15N,13C' '90 MM KCL pH 7; 100% D2O' # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 AVANCE Bruker 600 ? 2 UNITY Varian 600 ? # _pdbx_nmr_refine.entry_id 1Y8D _pdbx_nmr_refine.method 'distance geometry; simulated annealing; molecular dynamics; matrix relaxation' _pdbx_nmr_refine.details ;the structures are based on a total of 1689 restraints, 283 are NOE-derived distance constraints, 3 negative restraints, 84 dihedral angle restraints,104 distance restraints from hydrogen bonds, 243 intensity restraints (each of five mixing times) ; _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1Y8D _pdbx_nmr_details.text 'The experiments 1H-15N HMBC, 1H-13C HMBC, 1H-13C HSQC, 1H-13C sHMBC were performed for assignments' # _pdbx_nmr_ensemble.entry_id 1Y8D _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.conformer_selection_criteria ;all calculated structures submitted,back calculated data agree with experimental NOESY spectrum,structures with acceptable covalent geometry,structures with favorable non-bond 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 1Y8D _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'fewest violations,lowest energy' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal processing Felix 2000 Accelrys 1 refinement X-PLOR 3.851 A.T.Brunger 2 collection VNMR 6.1 Varian 3 # _exptl.entry_id 1Y8D _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1Y8D _struct.title ;Dimeric parallel-stranded tetraplex with 3+1 5' G-tetrad interface, single-residue chain reversal loops and GAG triad in the context of A(GGGG) pentad ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1Y8D _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;DIMERIC PARALLEL-STRANDED QUADRUPLEX; DNA APTAMER;HIV-1 INTEGRASE INHIBITOR DESIGN; 3+1 G-TETRAD; SINGLE NUCLEOTIDE CHAIN REVERSAL LOOP; GAG TRIAD; (A)GGGG PENTAD, 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 DG 1 N7 ? ? ? 1_555 B DG 6 N2 ? ? A DG 1 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DG 6 N1 ? ? A DG 1 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DG 13 O6 ? ? A DG 1 B DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DG 13 N7 ? ? A DG 1 B DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 6 O6 ? ? A DG 2 A DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DG 6 N7 ? ? A DG 2 A DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 2 N7 ? ? ? 1_555 A DG 13 N2 ? ? A DG 2 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DG 13 N1 ? ? A DG 2 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 7 O6 ? ? A DG 3 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DG 7 N7 ? ? A DG 3 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog11 hydrog ? ? A DG 3 N7 ? ? ? 1_555 A DG 14 N2 ? ? A DG 3 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DG 14 N1 ? ? A DG 3 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DG 8 O6 ? ? A DG 4 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DG 8 N7 ? ? A DG 4 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 4 N7 ? ? ? 1_555 A DG 15 N2 ? ? A DG 4 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DG 15 N1 ? ? A DG 4 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DG 1 O6 ? ? A DG 6 B DG 1 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DG 1 N7 ? ? A DG 6 B DG 1 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DG 7 N2 ? ? ? 1_555 A DA 9 N7 ? ? A DG 7 A DA 9 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog20 hydrog ? ? A DG 7 N3 ? ? ? 1_555 A DA 9 N6 ? ? A DG 7 A DA 9 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog21 hydrog ? ? A DG 7 N1 ? ? ? 1_555 A DG 10 O6 ? ? A DG 7 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A DG 7 N2 ? ? ? 1_555 A DG 10 N7 ? ? A DG 7 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A DG 8 N1 ? ? ? 1_555 A DG 11 O6 ? ? A DG 8 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 8 N2 ? ? ? 1_555 A DG 11 N7 ? ? A DG 8 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DG 14 O6 ? ? A DG 10 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DG 14 N7 ? ? A DG 10 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog27 hydrog ? ? A DG 11 N1 ? ? ? 1_555 A DG 15 O6 ? ? A DG 11 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog28 hydrog ? ? A DG 11 N2 ? ? ? 1_555 A DG 15 N7 ? ? A DG 11 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog29 hydrog ? ? A DG 13 N7 ? ? ? 1_555 B DG 1 N2 ? ? A DG 13 B DG 1 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog30 hydrog ? ? A DG 13 O6 ? ? ? 1_555 B DG 1 N1 ? ? A DG 13 B DG 1 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog31 hydrog ? ? B DG 2 N1 ? ? ? 1_555 B DG 6 O6 ? ? B DG 2 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog32 hydrog ? ? B DG 2 N2 ? ? ? 1_555 B DG 6 N7 ? ? B DG 2 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog33 hydrog ? ? B DG 2 N7 ? ? ? 1_555 B DG 13 N2 ? ? B DG 2 B DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog34 hydrog ? ? B DG 2 O6 ? ? ? 1_555 B DG 13 N1 ? ? B DG 2 B DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog35 hydrog ? ? B DG 3 N1 ? ? ? 1_555 B DG 7 O6 ? ? B DG 3 B DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog36 hydrog ? ? B DG 3 N2 ? ? ? 1_555 B DG 7 N7 ? ? B DG 3 B DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog37 hydrog ? ? B DG 3 N7 ? ? ? 1_555 B DG 14 N2 ? ? B DG 3 B DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog38 hydrog ? ? B DG 3 O6 ? ? ? 1_555 B DG 14 N1 ? ? B DG 3 B DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog39 hydrog ? ? B DG 4 N1 ? ? ? 1_555 B DG 8 O6 ? ? B DG 4 B DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog40 hydrog ? ? B DG 4 N2 ? ? ? 1_555 B DG 8 N7 ? ? B DG 4 B DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog41 hydrog ? ? B DG 4 N7 ? ? ? 1_555 B DG 15 N2 ? ? B DG 4 B DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog42 hydrog ? ? B DG 4 O6 ? ? ? 1_555 B DG 15 N1 ? ? B DG 4 B DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog43 hydrog ? ? B DG 7 N2 ? ? ? 1_555 B DA 9 N7 ? ? B DG 7 B DA 9 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog44 hydrog ? ? B DG 7 N3 ? ? ? 1_555 B DA 9 N6 ? ? B DG 7 B DA 9 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog45 hydrog ? ? B DG 7 N1 ? ? ? 1_555 B DG 10 O6 ? ? B DG 7 B DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog46 hydrog ? ? B DG 7 N2 ? ? ? 1_555 B DG 10 N7 ? ? B DG 7 B DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog47 hydrog ? ? B DG 8 N1 ? ? ? 1_555 B DG 11 O6 ? ? B DG 8 B DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog48 hydrog ? ? B DG 8 N2 ? ? ? 1_555 B DG 11 N7 ? ? B DG 8 B DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog49 hydrog ? ? B DG 10 N1 ? ? ? 1_555 B DG 14 O6 ? ? B DG 10 B DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog50 hydrog ? ? B DG 10 N2 ? ? ? 1_555 B DG 14 N7 ? ? B DG 10 B DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog51 hydrog ? ? B DG 11 N1 ? ? ? 1_555 B DG 15 O6 ? ? B DG 11 B DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog52 hydrog ? ? B DG 11 N2 ? ? ? 1_555 B DG 15 N7 ? ? B DG 11 B DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 1Y8D _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 DG 1 1 1 DG G A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DT 5 5 5 DT T A . n A 1 6 DG 6 6 6 DG G A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DG 8 8 8 DG G 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 DG 11 11 11 DG G A . n A 1 12 DA 12 12 12 DA A A . n A 1 13 DG 13 13 13 DG G A . n A 1 14 DG 14 14 14 DG G A . n A 1 15 DG 15 15 15 DG G A . n A 1 16 DT 16 16 16 DT T A . n B 1 1 DG 1 1 1 DG G B . n B 1 2 DG 2 2 2 DG G B . n B 1 3 DG 3 3 3 DG G B . n B 1 4 DG 4 4 4 DG G B . n B 1 5 DT 5 5 5 DT T B . n B 1 6 DG 6 6 6 DG G B . n B 1 7 DG 7 7 7 DG G B . n B 1 8 DG 8 8 8 DG G 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 DG 11 11 11 DG G B . n B 1 12 DA 12 12 12 DA A B . n B 1 13 DG 13 13 13 DG G B . n B 1 14 DG 14 14 14 DG G B . n B 1 15 DG 15 15 15 DG G B . n B 1 16 DT 16 16 16 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 2005-02-01 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 # _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' 6 4 'Structure model' 'Experimental preparation' # 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_exptl_sample_conditions 3 4 'Structure model' pdbx_nmr_software 4 4 'Structure model' pdbx_nmr_spectrometer 5 4 'Structure model' pdbx_struct_assembly 6 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_exptl_sample_conditions.pressure_units' 4 4 'Structure model' '_pdbx_nmr_software.name' 5 4 'Structure model' '_pdbx_nmr_spectrometer.model' # 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 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.562 1.512 0.050 0.007 N 2 1 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.563 1.512 0.051 0.007 N 3 2 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.561 1.512 0.049 0.007 N 4 2 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.555 1.512 0.043 0.007 N 5 2 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.560 1.512 0.048 0.007 N 6 3 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.557 1.512 0.045 0.007 N 7 3 "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 1.560 1.512 0.048 0.007 N 8 3 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.558 1.512 0.046 0.007 N 9 3 "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? 1.562 1.512 0.050 0.007 N 10 4 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.563 1.512 0.051 0.007 N 11 4 "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 1.554 1.512 0.042 0.007 N 12 4 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.563 1.512 0.051 0.007 N 13 4 "C5'" B DG 15 ? ? "C4'" B DG 15 ? ? 1.554 1.512 0.042 0.007 N 14 5 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.558 1.512 0.046 0.007 N 15 5 "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 1.561 1.512 0.049 0.007 N 16 5 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.558 1.512 0.046 0.007 N 17 5 "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? 1.561 1.512 0.049 0.007 N 18 6 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.561 1.512 0.049 0.007 N 19 6 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.562 1.512 0.050 0.007 N 20 7 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.563 1.512 0.051 0.007 N 21 7 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.562 1.512 0.050 0.007 N 22 8 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.560 1.512 0.048 0.007 N 23 8 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.560 1.512 0.048 0.007 N 24 9 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.557 1.512 0.045 0.007 N 25 9 "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 1.564 1.512 0.052 0.007 N 26 9 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.558 1.512 0.046 0.007 N 27 9 "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? 1.562 1.512 0.050 0.007 N 28 10 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? 1.562 1.512 0.050 0.007 N 29 10 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.555 1.512 0.043 0.007 N 30 10 "C5'" B DG 1 ? ? "C4'" B DG 1 ? ? 1.562 1.512 0.050 0.007 N 31 10 "C5'" B DG 2 ? ? "C4'" B DG 2 ? ? 1.554 1.512 0.042 0.007 N 32 10 "C5'" B DG 15 ? ? "C4'" B DG 15 ? ? 1.556 1.512 0.044 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 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.35 108.30 2.05 0.30 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.79 108.30 2.49 0.30 N 3 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 112.25 108.30 3.95 0.30 N 4 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.61 108.30 2.31 0.30 N 5 1 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 111.06 108.30 2.76 0.30 N 6 1 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.37 108.30 2.07 0.30 N 7 1 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.80 108.30 2.50 0.30 N 8 1 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 112.24 108.30 3.94 0.30 N 9 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.67 108.30 2.37 0.30 N 10 1 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.04 108.30 2.74 0.30 N 11 2 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.43 108.30 2.13 0.30 N 12 2 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.88 108.30 2.58 0.30 N 13 2 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.34 108.30 2.04 0.30 N 14 2 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 112.35 108.30 4.05 0.30 N 15 2 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 110.83 108.30 2.53 0.30 N 16 2 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.62 108.30 2.32 0.30 N 17 2 "O4'" A DG 11 ? ? "C1'" A DG 11 ? ? N9 A DG 11 ? ? 110.23 108.30 1.93 0.30 N 18 2 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 110.75 108.30 2.45 0.30 N 19 2 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.16 108.30 1.86 0.30 N 20 2 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.43 108.30 2.13 0.30 N 21 2 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.91 108.30 2.61 0.30 N 22 2 "O4'" B DG 4 ? ? "C1'" B DG 4 ? ? N9 B DG 4 ? ? 110.41 108.30 2.11 0.30 N 23 2 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 112.33 108.30 4.03 0.30 N 24 2 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.85 108.30 2.55 0.30 N 25 2 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.53 108.30 2.23 0.30 N 26 2 "O4'" B DG 11 ? ? "C1'" B DG 11 ? ? N9 B DG 11 ? ? 110.23 108.30 1.93 0.30 N 27 2 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 110.76 108.30 2.46 0.30 N 28 2 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.17 108.30 1.87 0.30 N 29 3 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.41 108.30 2.11 0.30 N 30 3 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.96 108.30 2.66 0.30 N 31 3 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.33 108.30 2.03 0.30 N 32 3 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 113.62 108.30 5.32 0.30 N 33 3 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 110.20 108.30 1.90 0.30 N 34 3 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 111.13 108.30 2.83 0.30 N 35 3 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 111.44 108.30 3.14 0.30 N 36 3 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.35 108.30 2.05 0.30 N 37 3 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.03 108.30 2.73 0.30 N 38 3 "O4'" B DG 4 ? ? "C1'" B DG 4 ? ? N9 B DG 4 ? ? 110.35 108.30 2.05 0.30 N 39 3 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 113.56 108.30 5.26 0.30 N 40 3 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.19 108.30 1.89 0.30 N 41 3 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 111.16 108.30 2.86 0.30 N 42 3 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.40 108.30 3.10 0.30 N 43 4 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.48 108.30 2.18 0.30 N 44 4 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.17 108.30 2.87 0.30 N 45 4 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9 A DG 3 ? ? 110.24 108.30 1.94 0.30 N 46 4 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.55 108.30 3.25 0.30 N 47 4 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 110.59 108.30 2.29 0.30 N 48 4 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.68 108.30 2.38 0.30 N 49 4 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 111.05 108.30 2.75 0.30 N 50 4 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.68 108.30 2.38 0.30 N 51 4 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.52 108.30 2.22 0.30 N 52 4 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.17 108.30 2.87 0.30 N 53 4 "O4'" B DG 3 ? ? "C1'" B DG 3 ? ? N9 B DG 3 ? ? 110.28 108.30 1.98 0.30 N 54 4 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 111.60 108.30 3.30 0.30 N 55 4 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.61 108.30 2.31 0.30 N 56 4 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.67 108.30 2.37 0.30 N 57 4 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.17 108.30 2.87 0.30 N 58 4 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.71 108.30 2.41 0.30 N 59 5 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.18 108.30 1.88 0.30 N 60 5 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.81 108.30 2.51 0.30 N 61 5 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.90 108.30 3.60 0.30 N 62 5 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.79 108.30 2.49 0.30 N 63 5 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.59 108.30 2.29 0.30 N 64 5 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.27 108.30 1.97 0.30 N 65 5 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.81 108.30 2.51 0.30 N 66 5 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 111.84 108.30 3.54 0.30 N 67 5 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.78 108.30 2.48 0.30 N 68 5 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.60 108.30 2.30 0.30 N 69 6 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.61 108.30 2.31 0.30 N 70 6 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.24 108.30 2.94 0.30 N 71 6 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9 A DG 3 ? ? 110.27 108.30 1.97 0.30 N 72 6 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.72 108.30 2.42 0.30 N 73 6 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 112.15 108.30 3.85 0.30 N 74 6 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 110.23 108.30 1.93 0.30 N 75 6 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.59 108.30 2.29 0.30 N 76 6 "O4'" A DG 11 ? ? "C1'" A DG 11 ? ? N9 A DG 11 ? ? 110.30 108.30 2.00 0.30 N 77 6 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 111.31 108.30 3.01 0.30 N 78 6 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.56 108.30 2.26 0.30 N 79 6 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.53 108.30 2.23 0.30 N 80 6 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.24 108.30 2.94 0.30 N 81 6 "O4'" B DG 3 ? ? "C1'" B DG 3 ? ? N9 B DG 3 ? ? 110.26 108.30 1.96 0.30 N 82 6 "O4'" B DG 4 ? ? "C1'" B DG 4 ? ? N9 B DG 4 ? ? 110.79 108.30 2.49 0.30 N 83 6 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 112.06 108.30 3.76 0.30 N 84 6 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 110.20 108.30 1.90 0.30 N 85 6 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.17 108.30 1.87 0.30 N 86 6 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.58 108.30 2.28 0.30 N 87 6 "O4'" B DG 11 ? ? "C1'" B DG 11 ? ? N9 B DG 11 ? ? 110.36 108.30 2.06 0.30 N 88 6 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.27 108.30 2.97 0.30 N 89 6 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.71 108.30 2.41 0.30 N 90 7 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.16 108.30 1.86 0.30 N 91 7 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.57 108.30 2.27 0.30 N 92 7 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.47 108.30 3.17 0.30 N 93 7 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.42 108.30 2.12 0.30 N 94 7 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.79 108.30 2.49 0.30 N 95 7 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.58 108.30 2.28 0.30 N 96 7 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 111.43 108.30 3.13 0.30 N 97 7 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.46 108.30 2.16 0.30 N 98 7 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.80 108.30 2.50 0.30 N 99 8 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.39 108.30 2.09 0.30 N 100 8 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.30 108.30 2.00 0.30 N 101 8 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 112.20 108.30 3.90 0.30 N 102 8 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.40 108.30 2.10 0.30 N 103 8 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 110.93 108.30 2.63 0.30 N 104 8 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.35 108.30 2.05 0.30 N 105 8 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.44 108.30 2.14 0.30 N 106 8 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.24 108.30 1.94 0.30 N 107 8 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 112.33 108.30 4.03 0.30 N 108 8 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.37 108.30 2.07 0.30 N 109 8 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.04 108.30 2.74 0.30 N 110 8 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.44 108.30 2.14 0.30 N 111 9 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.34 108.30 2.04 0.30 N 112 9 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.46 108.30 2.16 0.30 N 113 9 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.83 108.30 3.53 0.30 N 114 9 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.49 108.30 2.19 0.30 N 115 9 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 111.43 108.30 3.13 0.30 N 116 9 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.44 108.30 2.14 0.30 N 117 9 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.48 108.30 2.18 0.30 N 118 9 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.47 108.30 2.17 0.30 N 119 9 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 111.76 108.30 3.46 0.30 N 120 9 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.43 108.30 2.13 0.30 N 121 9 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.31 108.30 3.01 0.30 N 122 9 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.38 108.30 2.08 0.30 N 123 10 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.31 108.30 2.01 0.30 N 124 10 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.28 108.30 1.98 0.30 N 125 10 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.69 108.30 2.39 0.30 N 126 10 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 112.40 108.30 4.10 0.30 N 127 10 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 110.95 108.30 2.65 0.30 N 128 10 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.32 108.30 2.02 0.30 N 129 10 "O4'" A DA 12 ? ? "C1'" A DA 12 ? ? N9 A DA 12 ? ? 110.80 108.30 2.50 0.30 N 130 10 "O4'" A DG 13 ? ? "C1'" A DG 13 ? ? N9 A DG 13 ? ? 110.34 108.30 2.04 0.30 N 131 10 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 110.28 108.30 1.98 0.30 N 132 10 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 110.28 108.30 1.98 0.30 N 133 10 "O4'" B DG 4 ? ? "C1'" B DG 4 ? ? N9 B DG 4 ? ? 110.72 108.30 2.42 0.30 N 134 10 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 112.49 108.30 4.19 0.30 N 135 10 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.94 108.30 2.64 0.30 N 136 10 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.32 108.30 2.02 0.30 N 137 10 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 110.84 108.30 2.54 0.30 N 138 10 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 110.28 108.30 1.98 0.30 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1Y8D 'double helix' 1Y8D 'quadruple 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 DG 11 1_555 A DG 15 1_555 1.848 3.479 -0.411 0.313 0.295 -89.333 1 A_DG11:DG15_A A 11 ? A 15 ? 6 ? 1 A DG 10 1_555 A DG 14 1_555 1.287 3.736 -0.370 -0.463 6.689 -90.150 2 A_DG10:DG14_A A 10 ? A 14 ? 6 ? 1 A DG 3 1_555 A DG 7 1_555 1.332 3.653 0.173 -4.102 -6.272 -92.344 3 A_DG3:DG7_A A 3 ? A 7 ? 6 ? 1 A DG 2 1_555 A DG 6 1_555 1.142 3.667 -0.035 1.696 -4.868 -94.639 4 A_DG2:DG6_A A 2 ? A 6 ? 6 ? 1 B DG 6 1_555 B DG 2 1_555 -1.142 -3.666 0.036 -1.695 4.855 94.643 5 B_DG6:DG2_B B 6 ? B 2 ? 6 ? 1 B DG 7 1_555 B DG 3 1_555 -1.332 -3.653 -0.173 4.133 6.293 92.340 6 B_DG7:DG3_B B 7 ? B 3 ? 6 ? 1 B DG 10 1_555 B DG 14 1_555 1.286 3.735 -0.370 -0.460 6.679 -90.171 7 B_DG10:DG14_B B 10 ? B 14 ? 6 ? 1 B DG 11 1_555 B DG 15 1_555 1.848 3.478 -0.411 0.294 0.309 -89.348 8 B_DG11:DG15_B B 11 ? B 15 ? 6 ? # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 11 1_555 A DG 15 1_555 A DG 10 1_555 A DG 14 1_555 0.696 0.909 -3.440 -2.136 4.162 -31.668 -0.850 1.672 -3.475 -7.576 -3.888 -32.003 1 AA_DG11DG10:DG14DG15_AA A 11 ? A 15 ? A 10 ? A 14 ? 1 A DG 10 1_555 A DG 14 1_555 A DG 3 1_555 A DG 7 1_555 1.832 3.549 -0.262 1.555 -3.798 -179.124 -1.775 0.916 -0.261 1.899 0.777 -179.125 2 AA_DG10DG3:DG7DG14_AA A 10 ? A 14 ? A 3 ? A 7 ? 1 A DG 3 1_555 A DG 7 1_555 A DG 2 1_555 A DG 6 1_555 -0.027 0.943 -3.275 -0.826 -3.796 -34.806 -2.130 0.077 -3.158 6.322 -1.376 -35.016 3 AA_DG3DG2:DG6DG7_AA A 3 ? A 7 ? A 2 ? A 6 ? 1 A DG 2 1_555 A DG 6 1_555 B DG 6 1_555 B DG 2 1_555 -0.571 -3.297 0.001 165.113 -58.452 -179.663 1.649 -0.285 0.000 29.226 82.557 -179.986 4 AB_DG2DG6:DG2DG6_BA A 2 ? A 6 ? B 6 ? B 2 ? 1 B DG 6 1_555 B DG 2 1_555 B DG 7 1_555 B DG 3 1_555 0.027 -0.943 3.275 0.825 3.791 34.790 -2.131 0.078 3.158 6.316 -1.374 34.999 5 BB_DG6DG7:DG3DG2_BB B 6 ? B 2 ? B 7 ? B 3 ? 1 B DG 7 1_555 B DG 3 1_555 B DG 10 1_555 B DG 14 1_555 -1.832 -3.550 0.261 -1.549 3.810 179.125 -1.775 0.916 0.260 1.905 0.774 179.126 6 BB_DG7DG10:DG14DG3_BB B 7 ? B 3 ? B 10 ? B 14 ? 1 B DG 10 1_555 B DG 14 1_555 B DG 11 1_555 B DG 15 1_555 -0.696 -0.909 3.441 2.128 -4.171 31.673 -0.847 1.670 3.477 -7.590 -3.872 32.008 7 BB_DG10DG11:DG15DG14_BB B 10 ? B 14 ? B 11 ? B 15 ? #