data_2KYO # _entry.id 2KYO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 2KYO pdb_00002kyo 10.2210/pdb2kyo/pdb RCSB RCSB101738 ? ? WWPDB D_1000101738 ? ? # 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 2010-06-30 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2024-05-01 # _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' 'Data collection' 3 3 'Structure model' 'Database references' # 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 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_nmr_software # 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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_nmr_software.name' # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2KYO _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2010-06-05 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 2kyp _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kuryavyi, V.' 1 'Phan, A.T.' 2 'Patel, D.J.' 3 # _citation.id primary _citation.title 'Solution structures of all parallel-stranded monomeric and dimeric G-quadruplex scaffolds of the human c-kit2 promoter.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 38 _citation.page_first 6757 _citation.page_last 6773 _citation.year 2010 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 20566478 _citation.pdbx_database_id_DOI 10.1093/nar/gkq558 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kuryavyi, V.' 1 ? primary 'Phan, A.T.' 2 ? primary 'Patel, D.J.' 3 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP*GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3'" _entity.formula_weight 6651.258 _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 ;(DC)(DG)(DG)(DG)(DC)(DG)(DG)(DG)(DC)(DG)(DC)(DG)(DA)(DG)(DG)(DG)(DA)(DG)(DG)(DG) (DT) ; _entity_poly.pdbx_seq_one_letter_code_can CGGGCGGGCGCGAGGGAGGGT _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 DC n 1 2 DG n 1 3 DG n 1 4 DG n 1 5 DC n 1 6 DG n 1 7 DG n 1 8 DG n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n 1 13 DA n 1 14 DG n 1 15 DG n 1 16 DG n 1 17 DA n 1 18 DG n 1 19 DG n 1 20 DG n 1 21 DT n # 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_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 DC 1 1 1 DC DC A . n A 1 2 DG 2 2 2 DG DG 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 DC 5 5 5 DC DC 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 DC 9 9 9 DC DC A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n A 1 13 DA 13 13 13 DA DA 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 DA 17 17 17 DA DA A . n A 1 18 DG 18 18 18 DG DG A . n A 1 19 DG 19 19 19 DG DG A . n A 1 20 DG 20 20 20 DG DG A . n A 1 21 DT 21 21 21 DT DT A . n B 1 1 DC 1 1 1 DC DC B . n B 1 2 DG 2 2 2 DG DG B . n B 1 3 DG 3 3 3 DG DG B . n B 1 4 DG 4 4 4 DG DG B . n B 1 5 DC 5 5 5 DC DC B . n B 1 6 DG 6 6 6 DG DG B . n B 1 7 DG 7 7 7 DG DG B . n B 1 8 DG 8 8 8 DG DG B . n B 1 9 DC 9 9 9 DC DC B . n B 1 10 DG 10 10 10 DG DG B . n B 1 11 DC 11 11 11 DC DC B . n B 1 12 DG 12 12 12 DG DG B . n B 1 13 DA 13 13 13 DA DA B . n B 1 14 DG 14 14 14 DG DG B . n B 1 15 DG 15 15 15 DG DG B . n B 1 16 DG 16 16 16 DG DG B . n B 1 17 DA 17 17 17 DA DA B . n B 1 18 DG 18 18 18 DG DG B . n B 1 19 DG 19 19 19 DG DG B . n B 1 20 DG 20 20 20 DG DG B . n B 1 21 DT 21 21 21 DT DT B . n # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2KYO _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2KYO _struct.title 'Dimeric human ckit-2 proto-oncogene promoter quadruplex DNA NMR, 10 structures' _struct.pdbx_model_details 'lowest energy, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2KYO _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'G-tetrad, all-parallel quadruplex, intergenic recombination, 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_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 2KYO _struct_ref.pdbx_db_accession 2KYO _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_seq_one_letter_code CGGGCGGGCGCGAGGGAGGGT _struct_ref.pdbx_db_isoform ? # 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 2KYO A 1 ? 21 ? 2KYO 1 ? 21 ? 1 21 2 1 2KYO B 1 ? 21 ? 2KYO 1 ? 21 ? 1 21 # _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 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DC 1 N4 ? ? A DC 1 B DC 1 1_555 ? ? ? ? ? ? TYPE_14_PAIR ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DC 1 N3 ? ? A DC 1 B DC 1 1_555 ? ? ? ? ? ? TYPE_14_PAIR ? ? ? hydrog3 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 6 O6 ? ? A DG 2 A DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DG 6 N7 ? ? A DG 2 A DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 2 N7 ? ? ? 1_555 B DG 6 N2 ? ? A DG 2 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DG 6 N1 ? ? A DG 2 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 7 O6 ? ? A DG 3 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DG 7 N7 ? ? A DG 3 A DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 3 N7 ? ? ? 1_555 B DG 7 N2 ? ? A DG 3 B DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DG 7 N1 ? ? A DG 3 B DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog11 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DG 8 O6 ? ? A DG 4 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DG 8 N7 ? ? A DG 4 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A DG 4 N7 ? ? ? 1_555 B DG 8 N2 ? ? A DG 4 B DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DG 8 N1 ? ? A DG 4 B DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DG 2 O6 ? ? A DG 6 B DG 2 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DG 2 N7 ? ? A DG 6 B DG 2 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DG 3 O6 ? ? A DG 7 B DG 3 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DG 3 N7 ? ? A DG 7 B DG 3 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DG 8 N1 ? ? ? 1_555 B DG 4 O6 ? ? A DG 8 B DG 4 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog20 hydrog ? ? A DG 8 N2 ? ? ? 1_555 B DG 4 N7 ? ? A DG 8 B DG 4 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A DA 13 N1 ? ? ? 1_555 B DA 13 N6 ? ? A DA 13 B DA 13 1_555 ? ? ? ? ? ? TYPE_1_PAIR ? ? ? hydrog22 hydrog ? ? A DA 13 N6 ? ? ? 1_555 B DA 13 N1 ? ? A DA 13 B DA 13 1_555 ? ? ? ? ? ? TYPE_1_PAIR ? ? ? hydrog23 hydrog ? ? A DG 14 N1 ? ? ? 1_555 A DG 18 O6 ? ? A DG 14 A DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 14 N2 ? ? ? 1_555 A DG 18 N7 ? ? A DG 14 A DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A DG 14 N7 ? ? ? 1_555 B DG 18 N2 ? ? A DG 14 B DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A DG 14 O6 ? ? ? 1_555 B DG 18 N1 ? ? A DG 14 B DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog27 hydrog ? ? A DG 15 N1 ? ? ? 1_555 A DG 19 O6 ? ? A DG 15 A DG 19 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog28 hydrog ? ? A DG 15 N2 ? ? ? 1_555 A DG 19 N7 ? ? A DG 15 A DG 19 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog29 hydrog ? ? A DG 15 N7 ? ? ? 1_555 B DG 19 N2 ? ? A DG 15 B DG 19 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog30 hydrog ? ? A DG 15 O6 ? ? ? 1_555 B DG 19 N1 ? ? A DG 15 B DG 19 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog31 hydrog ? ? A DG 16 N1 ? ? ? 1_555 A DG 20 O6 ? ? A DG 16 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog32 hydrog ? ? A DG 16 N2 ? ? ? 1_555 A DG 20 N7 ? ? A DG 16 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog33 hydrog ? ? A DG 16 N7 ? ? ? 1_555 B DG 20 N2 ? ? A DG 16 B DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog34 hydrog ? ? A DG 16 O6 ? ? ? 1_555 B DG 20 N1 ? ? A DG 16 B DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog35 hydrog ? ? A DG 18 N1 ? ? ? 1_555 B DG 14 O6 ? ? A DG 18 B DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog36 hydrog ? ? A DG 18 N2 ? ? ? 1_555 B DG 14 N7 ? ? A DG 18 B DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog37 hydrog ? ? A DG 19 N1 ? ? ? 1_555 B DG 15 O6 ? ? A DG 19 B DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog38 hydrog ? ? A DG 19 N2 ? ? ? 1_555 B DG 15 N7 ? ? A DG 19 B DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog39 hydrog ? ? A DG 20 N1 ? ? ? 1_555 B DG 16 O6 ? ? A DG 20 B DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog40 hydrog ? ? A DG 20 N2 ? ? ? 1_555 B DG 16 N7 ? ? A DG 20 B DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog41 hydrog ? ? A DT 21 N3 ? ? ? 1_555 B DT 21 O4 ? ? A DT 21 B DT 21 1_555 ? ? ? ? ? ? TYPE_12_PAIR ? ? ? hydrog42 hydrog ? ? A DT 21 O4 ? ? ? 1_555 B DT 21 N3 ? ? A DT 21 B DT 21 1_555 ? ? ? ? ? ? TYPE_12_PAIR ? ? ? hydrog43 hydrog ? ? B DG 2 N1 ? ? ? 1_555 B DG 6 O6 ? ? B DG 2 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog44 hydrog ? ? B DG 2 N2 ? ? ? 1_555 B DG 6 N7 ? ? B DG 2 B DG 6 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog45 hydrog ? ? B DG 3 N1 ? ? ? 1_555 B DG 7 O6 ? ? B DG 3 B DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog46 hydrog ? ? B DG 3 N2 ? ? ? 1_555 B DG 7 N7 ? ? B DG 3 B DG 7 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog47 hydrog ? ? B DG 4 N1 ? ? ? 1_555 B DG 8 O6 ? ? B DG 4 B DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog48 hydrog ? ? B DG 4 N2 ? ? ? 1_555 B DG 8 N7 ? ? B DG 4 B DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog49 hydrog ? ? B DG 14 N1 ? ? ? 1_555 B DG 18 O6 ? ? B DG 14 B DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog50 hydrog ? ? B DG 14 N2 ? ? ? 1_555 B DG 18 N7 ? ? B DG 14 B DG 18 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog51 hydrog ? ? B DG 15 N1 ? ? ? 1_555 B DG 19 O6 ? ? B DG 15 B DG 19 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog52 hydrog ? ? B DG 15 N2 ? ? ? 1_555 B DG 19 N7 ? ? B DG 15 B DG 19 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog53 hydrog ? ? B DG 16 N1 ? ? ? 1_555 B DG 20 O6 ? ? B DG 16 B DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog54 hydrog ? ? B DG 16 N2 ? ? ? 1_555 B DG 20 N7 ? ? B DG 16 B DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2KYO _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2KYO _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system ;0.2-5.0 mM (5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3'), 0.2-0.3 mM [U-13C; U-15N]-Gua (5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3'), 100% D2O ; 1 '100% D2O' ;0.2-5.0 mM (5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3'), 0.2-0.3 mM [U-100% 13C; U-100% 15N] (5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3'), 90% H2O/10% D2O ; 2 '90% H2O/10% D2O' # loop_ _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 _pdbx_nmr_exptl_sample.solution_id ;(5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3')-1 ; ? 0.2-5.0 mM ? 1 ;(5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3')-2 ; ? 0.2-0.3 mM '[U-13C; U-15N]-Gua' 1 ;(5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3')-3 ; ? 0.2-5.0 mM ? 2 ;(5'-D(*CP*GP*GP*GP*CP*GP*GP*GP*CP*GP*CP *GP*AP*GP*GP*GP*AP*GP*GP*GP*T)-3')-4 ; ? 0.2-0.3 mM '[U-100% 13C; U-100% 15N]' 2 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 100 _pdbx_nmr_exptl_sample_conditions.pH 6.8 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '1H-1H NOESY' 1 2 1 '1H-1H TOCSY' 1 3 1 '1H- 31P COSY' 1 4 1 '1H-1H COSY' 1 5 2 '1H-15N JRHMQC' 1 6 2 '1H-15N HMBC' 1 7 1 '2D 1H-1H NOESY' # _pdbx_nmr_refine.entry_id 2KYO _pdbx_nmr_refine.method 'torsion angle dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Brunger, Schwieters, Kuszewski, Tjandra and Clore' refinement X-PLOR 3.851 1 Varian collection VNMR 6.1C 2 'Accelrys Software Inc.' 'chemical shift assignment' Felix 2007 3 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 # _ndb_struct_conf_na.entry_id 2KYO _ndb_struct_conf_na.feature 'quadruple helix' # _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model INOVA _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'VARIAN INOVA' # _atom_sites.entry_id 2KYO _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_