data_6K3X # _entry.id 6K3X # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.320 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6K3X WWPDB D_1300005037 BMRB 36252 # _pdbx_database_related.db_name BMRB _pdbx_database_related.details 'G-quadruplex complex with linear dinucleotide d(AG)' _pdbx_database_related.db_id 36252 _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _pdbx_database_status.entry_id 6K3X _pdbx_database_status.recvd_initial_deposition_date 2019-05-22 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Winnerdy, F.R.' 1 0000-0002-5010-4719 'Heddi, B.' 2 0000-0002-5535-6237 'Phan, A.T.' 3 0000-0002-4970-3861 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_id_ASTM JACSAT _citation.journal_id_CSD ? _citation.journal_id_ISSN 1520-5126 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 141 _citation.language ? _citation.page_first 18038 _citation.page_last 18047 _citation.title 'Solution Structures of a G-Quadruplex Bound to Linear- and Cyclic-Dinucleotides.' _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/jacs.9b05642 _citation.pdbx_database_id_PubMed 31661272 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Winnerdy, F.R.' 1 ? primary 'Das, P.' 2 ? primary 'Heddi, B.' 3 ? primary 'Phan, A.T.' 4 0000-0002-4970-3861 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*TP*TP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3') ; 5401.463 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*AP*G)-3') ; 597.455 1 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name delta1 # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DT)(DT)(DG)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT)' TTGGTGGGTGGGTGGGT A ? 2 polydeoxyribonucleotide no no '(DA)(DG)' AG B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DT 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 DT n 1 10 DG n 1 11 DG n 1 12 DG n 1 13 DT n 1 14 DG n 1 15 DG n 1 16 DG n 1 17 DT n 2 1 DA n 2 2 DG n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _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 1 1 sample 1 17 'synthetic construct' ? 32630 ? 2 1 sample 1 2 'synthetic construct' ? 32630 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 6K3X 6K3X ? 1 ? 1 2 PDB 6K3X 6K3X ? 2 ? 1 # 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 6K3X A 1 ? 17 ? 6K3X 1 ? 17 ? 1 17 2 2 6K3X B 1 ? 2 ? 6K3X 1 ? 2 ? 1 2 # 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.solution_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.spectrometer_id _pdbx_nmr_exptl.sample_state 1 1 2 '2D 1H-1H TOCSY' 1 isotropic 2 1 2 '2D 1H-1H NOESY' 1 isotropic 6 1 1 '2D 1H-1H NOESY' 1 isotropic 3 1 2 '2D 1H-13C HSQC aliphatic' 1 isotropic 4 1 2 '2D 1H-13C HSQC aromatic' 1 isotropic 5 1 1 '2D JRHMBC' 1 isotropic # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7 _pdbx_nmr_exptl_sample_conditions.ionic_strength 20 _pdbx_nmr_exptl_sample_conditions.details '10 mM KPi, 10 mM KCl, pH 7' _pdbx_nmr_exptl_sample_conditions.ionic_strength_err ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_units mM _pdbx_nmr_exptl_sample_conditions.label condition_1 _pdbx_nmr_exptl_sample_conditions.pH_err ? _pdbx_nmr_exptl_sample_conditions.pH_units pH _pdbx_nmr_exptl_sample_conditions.pressure_err ? _pdbx_nmr_exptl_sample_conditions.temperature_err ? _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 _pdbx_nmr_sample_details.label _pdbx_nmr_sample_details.type _pdbx_nmr_sample_details.details 1 '1 mM delta1, 1.2 mM d(AG), 10 mM potassium phosphate, 10 mM potassium chloride, 90% H2O/10% D2O' '90% H2O/10% D2O' 'delta1-d(AG)-H2O' solution 'delta1-d(AG) complex in H2O solvent, Potassium Phosphate buffer.' 2 '1 mM delta1, 1.2 mM d(AG), 10 mM potassium phosphate, 10 mM potassium chloride, 100% D2O' '100% D2O' 'delta1-d(AG)-D2O' solution 'Lyophilized sample diluted in D2O solvent, Potassium Phosphate buffer.' # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model 'AVANCE II' _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.details ? # loop_ _pdbx_nmr_refine.entry_id _pdbx_nmr_refine.method _pdbx_nmr_refine.details _pdbx_nmr_refine.software_ordinal 6K3X 'DGSA-distance geometry simulated annealing' ? 4 6K3X 'molecular dynamics' ? 5 # _pdbx_nmr_ensemble.entry_id 6K3X _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.representative_conformer ? _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 6K3X _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 1 collection TopSpin ? 'Bruker Biospin' 6 processing TopSpin ? 'Bruker Biospin' 2 'chemical shift assignment' Sparky ? Goddard 3 'data analysis' Sparky ? Goddard 4 'structure calculation' 'X-PLOR NIH' ? 'Schwieters, Kuszewski, Tjandra and Clore' 5 refinement 'X-PLOR NIH' ? 'Schwieters, Kuszewski, Tjandra and Clore' 7 'peak picking' Sparky ? Goddard # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 6K3X _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 6K3X _struct.title 'G-quadruplex complex with linear dinucleotide d(AG)' _struct.pdbx_descriptor ;DNA (5'-D(*TP*TP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3'), DNA (5'-D(*AP*G)-3') ; _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 6K3X _struct_keywords.text 'G-quadruplex, complex, dinucleotide, vacancy, DNA' _struct_keywords.pdbx_keywords 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 2 ? # 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 hydrog1 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 6 O6 ? ? A DG 3 A DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog2 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DG 6 N7 ? ? A DG 3 A DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog3 hydrog ? ? A DG 3 N7 ? ? ? 1_555 A DG 14 N2 ? ? A DG 3 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog4 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DG 14 N1 ? ? A DG 3 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog5 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DG 7 O6 ? ? A DG 4 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog6 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DG 7 N7 ? ? A DG 4 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog7 hydrog ? ? A DG 4 N7 ? ? ? 1_555 A DG 15 N2 ? ? A DG 4 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog8 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DG 15 N1 ? ? A DG 4 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog9 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DG 10 O6 ? ? A DG 6 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog10 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DG 10 N7 ? ? A DG 6 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog11 hydrog ? ? A DG 7 N1 ? ? ? 1_555 A DG 11 O6 ? ? A DG 7 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog12 hydrog ? ? A DG 7 N2 ? ? ? 1_555 A DG 11 N7 ? ? A DG 7 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog13 hydrog ? ? A DG 8 N1 ? ? ? 1_555 A DG 12 O6 ? ? A DG 8 A DG 12 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog14 hydrog ? ? A DG 8 N2 ? ? ? 1_555 A DG 12 N7 ? ? A DG 8 A DG 12 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog15 hydrog ? ? A DG 8 N7 ? ? ? 1_555 B DG 2 N2 ? ? A DG 8 B DG 2 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog16 hydrog ? ? A DG 8 O6 ? ? ? 1_555 B DG 2 N1 ? ? A DG 8 B DG 2 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog17 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DG 14 O6 ? ? A DG 10 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog18 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DG 14 N7 ? ? A DG 10 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog19 hydrog ? ? A DG 11 N1 ? ? ? 1_555 A DG 15 O6 ? ? A DG 11 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog20 hydrog ? ? A DG 11 N2 ? ? ? 1_555 A DG 15 N7 ? ? A DG 11 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog21 hydrog ? ? A DG 12 N1 ? ? ? 1_555 A DG 16 O6 ? ? A DG 12 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog22 hydrog ? ? A DG 12 N2 ? ? ? 1_555 A DG 16 N7 ? ? A DG 12 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog23 hydrog ? ? A DG 16 N1 ? ? ? 1_555 B DG 2 O6 ? ? A DG 16 B DG 2 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog24 hydrog ? ? A DG 16 N2 ? ? ? 1_555 B DG 2 N7 ? ? A DG 16 B DG 2 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? hydrog25 hydrog ? ? A DT 17 N3 ? ? ? 1_555 B DA 1 N7 ? ? A DT 17 B DA 1 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? hydrog26 hydrog ? ? A DT 17 O4 ? ? ? 1_555 B DA 1 N6 ? ? A DT 17 B DA 1 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 6K3X _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 DT 1 1 1 DT DT A . n A 1 2 DT 2 2 2 DT DT A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DT 5 5 5 DT DT A . n A 1 6 DG 6 6 6 DG DG A . n A 1 7 DG 7 7 7 DG DG A . n A 1 8 DG 8 8 8 DG DG A . n A 1 9 DT 9 9 9 DT DT A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DG 11 11 11 DG DG A . n A 1 12 DG 12 12 12 DG DG A . n A 1 13 DT 13 13 13 DT DT A . n A 1 14 DG 14 14 14 DG DG A . n A 1 15 DG 15 15 15 DG DG A . n A 1 16 DG 16 16 16 DG DG A . n A 1 17 DT 17 17 17 DT DT A . n B 2 1 DA 1 1 1 DA DA B . n B 2 2 DG 2 2 2 DG DG 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 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 600 ? 1 MORE 1 ? 1 'SSA (A^2)' 3500 ? # _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 ? _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 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2020-01-15 # _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_nmr_exptl_sample.solution_id _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling 1 delta1 1 ? mM 'natural abundance' 1 'd(AG)' 1.2 ? mM 'natural abundance' 1 'potassium phosphate' 10 ? mM 'natural abundance' 1 'potassium chloride' 10 ? mM 'natural abundance' 2 delta1 1 ? mM 'natural abundance' 2 'd(AG)' 1.2 ? mM 'natural abundance' 2 'potassium phosphate' 10 ? mM 'natural abundance' 2 'potassium chloride' 10 ? mM 'natural abundance' # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 10 _pdbx_validate_close_contact.auth_atom_id_1 "H4'" _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 DG _pdbx_validate_close_contact.auth_seq_id_1 12 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 "O5'" _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 DT _pdbx_validate_close_contact.auth_seq_id_2 13 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.60 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 5 _pdbx_validate_rmsd_angle.auth_atom_id_1 C6 _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DT _pdbx_validate_rmsd_angle.auth_seq_id_1 2 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 C5 _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DT _pdbx_validate_rmsd_angle.auth_seq_id_2 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 C7 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DT _pdbx_validate_rmsd_angle.auth_seq_id_3 2 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 119.24 _pdbx_validate_rmsd_angle.angle_target_value 122.90 _pdbx_validate_rmsd_angle.angle_deviation -3.66 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.60 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6K3X 'double helix' 6K3X '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 3 1_555 A DG 14 1_555 -1.460 -3.339 0.062 0.316 2.288 97.630 1 A_DG3:DG14_A A 3 ? A 14 ? 6 3 1 A DG 11 1_555 A DG 15 1_555 0.956 3.825 0.099 -0.085 -3.820 -92.112 2 A_DG11:DG15_A A 11 ? A 15 ? 6 3 1 A DG 12 1_555 A DG 16 1_555 0.945 3.887 0.023 1.964 -2.546 -88.009 3 A_DG12:DG16_A A 12 ? A 16 ? 6 3 1 A DG 8 1_555 B DG 2 1_555 -0.884 -3.899 0.164 4.247 -0.676 86.844 4 A_DG8:DG2_B A 8 ? B 2 ? 6 3 1 A DT 17 1_555 B DA 1 1_555 -0.559 3.542 -0.089 0.853 4.710 -78.295 5 A_DT17:DA1_B A 17 ? B 1 ? 23 3 # 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 3 1_555 A DG 14 1_555 A DG 11 1_555 A DG 15 1_555 0.966 1.811 3.241 1.251 -1.579 -63.172 -1.659 0.977 3.263 1.507 1.194 -63.201 1 AA_DG3DG11:DG15DG14_AA A 3 ? A 14 ? A 11 ? A 15 ? 1 A DG 11 1_555 A DG 15 1_555 A DG 12 1_555 A DG 16 1_555 -0.340 -1.501 3.674 -4.903 -0.634 28.758 -2.824 -0.539 3.711 -1.265 9.781 29.171 2 AA_DG11DG12:DG16DG15_AA A 11 ? A 15 ? A 12 ? A 16 ? 1 A DG 12 1_555 A DG 16 1_555 A DG 8 1_555 B DG 2 1_555 -0.702 -3.721 0.210 0.482 1.673 179.496 -1.860 0.351 0.210 0.837 -0.241 179.496 3 AA_DG12DG8:DG2DG16_BA A 12 ? A 16 ? A 8 ? B 2 ? 1 A DG 8 1_555 B DG 2 1_555 A DT 17 1_555 B DA 1 1_555 0.292 0.845 3.375 -5.828 -2.912 -60.759 -0.687 -0.002 3.421 2.870 -5.744 -61.074 4 AA_DG8DT17:DA1DG2_BB A 8 ? B 2 ? A 17 ? B 1 ? # _pdbx_audit_support.funding_organization ? _pdbx_audit_support.country Singapore _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #