data_2E4I # _entry.id 2E4I # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _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 2E4I pdb_00002e4i 10.2210/pdb2e4i/pdb RCSB RCSB026214 ? ? WWPDB D_1000026214 ? ? # 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 2007-12-11 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-03-09 4 'Structure model' 1 3 2024-05-29 # _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' 4 3 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Data collection' # 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' database_2 2 3 'Structure model' pdbx_nmr_software 3 3 'Structure model' pdbx_nmr_spectrometer 4 3 'Structure model' pdbx_struct_assembly 5 3 'Structure model' pdbx_struct_oper_list 6 3 'Structure model' struct_conn 7 4 'Structure model' chem_comp_atom 8 4 'Structure model' chem_comp_bond # 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' 4 3 'Structure model' '_pdbx_nmr_spectrometer.model' 5 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2E4I _pdbx_database_status.recvd_initial_deposition_date 2006-12-11 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _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 'Matsugami, A.' 1 'Xu, Y.' 2 'Noguchi, Y.' 3 'Sugiyama, H.' 4 'Katahira, M.' 5 # _citation.id primary _citation.title 'Structure of a human telomeric DNA sequence stabilized by 8-bromoguanosine substitutions, as determined by NMR in a K+ solution' _citation.journal_abbrev 'Febs J.' _citation.journal_volume 274 _citation.page_first 3545 _citation.page_last 3556 _citation.year 2007 _citation.journal_id_ASTM ? _citation.country UK _citation.journal_id_ISSN 1742-464X _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 17561958 _citation.pdbx_database_id_DOI 10.1111/j.1742-4658.2007.05881.x # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Matsugami, A.' 1 ? primary 'Xu, Y.' 2 ? primary 'Noguchi, Y.' 3 ? primary 'Sugiyama, H.' 4 ? primary 'Katahira, M.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*DAP*(BGM)P*DGP*DGP*DTP*DTP*DAP*(BGM)P*DGP*DGP*DTP*DTP*DAP*(BGM)P*(BGM)P*DGP*DTP*DTP*DAP*(BGM)P*DGP*DG)-3') ; _entity.formula_weight 7377.977 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details 'Human Telomeric DNA' # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;(DA)(BGM)(DG)(DG)(DT)(DT)(DA)(BGM)(DG)(DG)(DT)(DT)(DA)(BGM)(BGM)(DG)(DT)(DT)(DA) (BGM)(DG)(DG) ; _entity_poly.pdbx_seq_one_letter_code_can AGGGTTAGGGTTAGGGTTAGGG _entity_poly.pdbx_strand_id A _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 BGM n 1 3 DG n 1 4 DG n 1 5 DT n 1 6 DT n 1 7 DA n 1 8 BGM n 1 9 DG n 1 10 DG n 1 11 DT n 1 12 DT n 1 13 DA n 1 14 BGM n 1 15 BGM n 1 16 DG n 1 17 DT n 1 18 DT n 1 19 DA n 1 20 BGM n 1 21 DG n 1 22 DG 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 BGM 'DNA linking' n "8-BROMO-2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H13 Br N5 O7 P' 426.117 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_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 BGM 2 2 2 BGM 8BG 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 DT 6 6 6 DT T A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 BGM 8 8 8 BGM 8BG A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DT 11 11 11 DT T A . n A 1 12 DT 12 12 12 DT T A . n A 1 13 DA 13 13 13 DA A A . n A 1 14 BGM 14 14 14 BGM 8BG A . n A 1 15 BGM 15 15 15 BGM 8BG A . n A 1 16 DG 16 16 16 DG G A . n A 1 17 DT 17 17 17 DT T A . n A 1 18 DT 18 18 18 DT T A . n A 1 19 DA 19 19 19 DA A A . n A 1 20 BGM 20 20 20 BGM 8BG A . n A 1 21 DG 21 21 21 DG G A . n A 1 22 DG 22 22 22 DG G A . n # _exptl.entry_id 2E4I _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _database_PDB_matrix.entry_id 2E4I _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 # _struct.entry_id 2E4I _struct.title ;Human Telomeric DNA mixed-parallel/antiparallel quadruplex under Physiological Ionic Conditions Stabilized by Proper Incorporation of 8-Bromoguanosines ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2E4I _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'telomere, quadruplex, mixed-parallel/antiparallel, DNA' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 2E4I _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code 'A(BGM)GGTTA(BGM)GGTTA(BGM)(BGM)GTTA(BGM)GG' _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_accession 2E4I _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2E4I _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 22 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2E4I _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 22 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 22 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _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 covale1 covale both ? A DA 1 "O3'" ? ? ? 1_555 A BGM 2 P ? ? A DA 1 A BGM 2 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale2 covale both ? A BGM 2 "O3'" ? ? ? 1_555 A DG 3 P ? ? A BGM 2 A DG 3 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale3 covale both ? A DA 7 "O3'" ? ? ? 1_555 A BGM 8 P ? ? A DA 7 A BGM 8 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale4 covale both ? A BGM 8 "O3'" ? ? ? 1_555 A DG 9 P ? ? A BGM 8 A DG 9 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale5 covale both ? A DA 13 "O3'" ? ? ? 1_555 A BGM 14 P ? ? A DA 13 A BGM 14 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale6 covale both ? A BGM 14 "O3'" ? ? ? 1_555 A BGM 15 P ? ? A BGM 14 A BGM 15 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale7 covale both ? A BGM 15 "O3'" ? ? ? 1_555 A DG 16 P ? ? A BGM 15 A DG 16 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale8 covale both ? A DA 19 "O3'" ? ? ? 1_555 A BGM 20 P ? ? A DA 19 A BGM 20 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale9 covale both ? A BGM 20 "O3'" ? ? ? 1_555 A DG 21 P ? ? A BGM 20 A DG 21 1_555 ? ? ? ? ? ? ? 1.608 ? ? hydrog1 hydrog ? ? A BGM 2 N7 ? ? ? 1_555 A BGM 8 N2 ? ? A BGM 2 A BGM 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A BGM 2 O6 ? ? ? 1_555 A BGM 8 N1 ? ? A BGM 2 A BGM 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A BGM 2 N1 ? ? ? 1_555 A BGM 20 O6 ? ? A BGM 2 A BGM 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A BGM 2 N2 ? ? ? 1_555 A BGM 20 N7 ? ? A BGM 2 A BGM 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 9 O6 ? ? A DG 3 A DG 9 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DG 9 N7 ? ? A DG 3 A DG 9 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 3 N7 ? ? ? 1_555 A DG 21 N2 ? ? A DG 3 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DG 21 N1 ? ? A DG 3 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DG 10 O6 ? ? A DG 4 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DG 10 N7 ? ? A DG 4 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog11 hydrog ? ? A DG 4 N7 ? ? ? 1_555 A DG 22 N2 ? ? A DG 4 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DG 22 N1 ? ? A DG 4 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A BGM 8 N7 ? ? ? 1_555 A DG 16 N2 ? ? A BGM 8 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A BGM 8 O6 ? ? ? 1_555 A DG 16 N1 ? ? A BGM 8 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A BGM 15 O6 ? ? A DG 9 A BGM 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A BGM 15 N7 ? ? A DG 9 A BGM 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A BGM 14 O6 ? ? A DG 10 A BGM 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A BGM 14 N7 ? ? A DG 10 A BGM 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A BGM 15 O6 ? ? A DG 10 A BGM 15 1_555 ? ? ? ? ? ? 'DG-BGM MISPAIR' ? ? ? hydrog20 hydrog ? ? A BGM 14 N1 ? ? ? 1_555 A DG 22 O6 ? ? A BGM 14 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A BGM 14 N2 ? ? ? 1_555 A DG 22 N7 ? ? A BGM 14 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A BGM 15 N1 ? ? ? 1_555 A DG 21 O6 ? ? A BGM 15 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A BGM 15 N2 ? ? ? 1_555 A DG 21 N7 ? ? A BGM 15 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 16 N7 ? ? ? 1_555 A BGM 20 N2 ? ? A DG 16 A BGM 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A DG 16 O6 ? ? ? 1_555 A BGM 20 N1 ? ? A DG 16 A BGM 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A BGM 2 A BGM 2 ? DG ? 2 A BGM 8 A BGM 8 ? DG ? 3 A BGM 14 A BGM 14 ? DG ? 4 A BGM 15 A BGM 15 ? DG ? 5 A BGM 20 A BGM 20 ? DG ? # _pdbx_nmr_ensemble.entry_id 2E4I _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest 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 2E4I _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 '0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS, 100% D2O' '100% D2O' 2 '0.6mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS, 95% H2O, 5% D2O' '95% H2O/5% D2O' 3 '1.3mM DNA; 100mM KCl; 10mM K-phosphate (pH 6.3); 0.01mM DSS, 95% H2O, 5% D2O' '95% H2O/5% D2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH 6.3 _pdbx_nmr_exptl_sample_conditions.ionic_strength '110mM Potassium Ion' _pdbx_nmr_exptl_sample_conditions.pressure_units . _pdbx_nmr_exptl_sample_conditions.temperature_units K # 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 1 '2D TOCSY' 1 3 1 DQF-COSY 1 4 1 '2D NOESY' 2 5 1 JR-HMBC 3 6 1 13C-HSQC 3 7 1 'H, P HSQC' 1 # _pdbx_nmr_refine.entry_id 2E4I _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ;the structures are based on a total of 752 restraints, 582 are NOE-derived distance constraints, 110 dihedral angle restraints,48 distance restraints from hydrogen bonds, 12 planarity restraints for tetrad planes. ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal processing NMRPipe 2.4 'F. Delaglio' 1 processing XwinNMR 3.5 Bruker 2 'data analysis' PIPP 4.3.2 'D. Garrett' 3 'data analysis' Spaky 3.112 'T.D. Goddard' 4 'structure solution' X-PLOR 3.851 'A.T. Brunger' 5 refinement X-PLOR 3.851 'A.T. Brunger' 6 # 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 BGM P P N N 1 BGM OP1 O N N 2 BGM OP2 O N N 3 BGM "O5'" O N N 4 BGM "C5'" C N N 5 BGM "C4'" C N R 6 BGM "O4'" O N N 7 BGM "C1'" C N R 8 BGM N9 N Y N 9 BGM C8 C Y N 10 BGM N7 N Y N 11 BGM C5 C Y N 12 BGM C4 C Y N 13 BGM N3 N N N 14 BGM C2 C N N 15 BGM N2 N N N 16 BGM N1 N N N 17 BGM C6 C N N 18 BGM O6 O N N 19 BGM "C2'" C N N 20 BGM "C3'" C N S 21 BGM "O3'" O N N 22 BGM OP3 O N N 23 BGM BR BR N N 24 BGM HOP2 H N N 25 BGM "H5'" H N N 26 BGM "H5''" H N N 27 BGM "H4'" H N N 28 BGM "H1'" H N N 29 BGM H21 H N N 30 BGM H22 H N N 31 BGM H1 H N N 32 BGM "H2'" H N N 33 BGM "H2''" H N N 34 BGM "H3'" H N N 35 BGM "HO3'" H N N 36 BGM HOP3 H N N 37 DA OP3 O N N 38 DA P P N N 39 DA OP1 O N N 40 DA OP2 O N N 41 DA "O5'" O N N 42 DA "C5'" C N N 43 DA "C4'" C N R 44 DA "O4'" O N N 45 DA "C3'" C N S 46 DA "O3'" O N N 47 DA "C2'" C N N 48 DA "C1'" C N R 49 DA N9 N Y N 50 DA C8 C Y N 51 DA N7 N Y N 52 DA C5 C Y N 53 DA C6 C Y N 54 DA N6 N N N 55 DA N1 N Y N 56 DA C2 C Y N 57 DA N3 N Y N 58 DA C4 C Y N 59 DA HOP3 H N N 60 DA HOP2 H N N 61 DA "H5'" H N N 62 DA "H5''" H N N 63 DA "H4'" H N N 64 DA "H3'" H N N 65 DA "HO3'" H N N 66 DA "H2'" H N N 67 DA "H2''" H N N 68 DA "H1'" H N N 69 DA H8 H N N 70 DA H61 H N N 71 DA H62 H N N 72 DA H2 H N N 73 DG OP3 O N N 74 DG P P N N 75 DG OP1 O N N 76 DG OP2 O N N 77 DG "O5'" O N N 78 DG "C5'" C N N 79 DG "C4'" C N R 80 DG "O4'" O N N 81 DG "C3'" C N S 82 DG "O3'" O N N 83 DG "C2'" C N N 84 DG "C1'" C N R 85 DG N9 N Y N 86 DG C8 C Y N 87 DG N7 N Y N 88 DG C5 C Y N 89 DG C6 C N N 90 DG O6 O N N 91 DG N1 N N N 92 DG C2 C N N 93 DG N2 N N N 94 DG N3 N N N 95 DG C4 C Y N 96 DG HOP3 H N N 97 DG HOP2 H N N 98 DG "H5'" H N N 99 DG "H5''" H N N 100 DG "H4'" H N N 101 DG "H3'" H N N 102 DG "HO3'" H N N 103 DG "H2'" H N N 104 DG "H2''" H N N 105 DG "H1'" H N N 106 DG H8 H N N 107 DG H1 H N N 108 DG H21 H N N 109 DG H22 H N N 110 DT OP3 O N N 111 DT P P N N 112 DT OP1 O N N 113 DT OP2 O N N 114 DT "O5'" O N N 115 DT "C5'" C N N 116 DT "C4'" C N R 117 DT "O4'" O N N 118 DT "C3'" C N S 119 DT "O3'" O N N 120 DT "C2'" C N N 121 DT "C1'" C N R 122 DT N1 N N N 123 DT C2 C N N 124 DT O2 O N N 125 DT N3 N N N 126 DT C4 C N N 127 DT O4 O N N 128 DT C5 C N N 129 DT C7 C N N 130 DT C6 C N N 131 DT HOP3 H N N 132 DT HOP2 H N N 133 DT "H5'" H N N 134 DT "H5''" H N N 135 DT "H4'" H N N 136 DT "H3'" H N N 137 DT "HO3'" H N N 138 DT "H2'" H N N 139 DT "H2''" H N N 140 DT "H1'" H N N 141 DT H3 H N N 142 DT H71 H N N 143 DT H72 H N N 144 DT H73 H N N 145 DT H6 H N N 146 # 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 BGM P OP1 doub N N 1 BGM P OP2 sing N N 2 BGM P "O5'" sing N N 3 BGM P OP3 sing N N 4 BGM OP2 HOP2 sing N N 5 BGM "O5'" "C5'" sing N N 6 BGM "C5'" "C4'" sing N N 7 BGM "C5'" "H5'" sing N N 8 BGM "C5'" "H5''" sing N N 9 BGM "C4'" "O4'" sing N N 10 BGM "C4'" "C3'" sing N N 11 BGM "C4'" "H4'" sing N N 12 BGM "O4'" "C1'" sing N N 13 BGM "C1'" N9 sing N N 14 BGM "C1'" "C2'" sing N N 15 BGM "C1'" "H1'" sing N N 16 BGM N9 C8 sing Y N 17 BGM N9 C4 sing Y N 18 BGM C8 N7 doub Y N 19 BGM C8 BR sing N N 20 BGM N7 C5 sing Y N 21 BGM C5 C4 doub Y N 22 BGM C5 C6 sing N N 23 BGM C4 N3 sing N N 24 BGM N3 C2 doub N N 25 BGM C2 N2 sing N N 26 BGM C2 N1 sing N N 27 BGM N2 H21 sing N N 28 BGM N2 H22 sing N N 29 BGM N1 C6 sing N N 30 BGM N1 H1 sing N N 31 BGM C6 O6 doub N N 32 BGM "C2'" "C3'" sing N N 33 BGM "C2'" "H2'" sing N N 34 BGM "C2'" "H2''" sing N N 35 BGM "C3'" "O3'" sing N N 36 BGM "C3'" "H3'" sing N N 37 BGM "O3'" "HO3'" sing N N 38 BGM OP3 HOP3 sing N N 39 DA OP3 P sing N N 40 DA OP3 HOP3 sing N N 41 DA P OP1 doub N N 42 DA P OP2 sing N N 43 DA P "O5'" sing N N 44 DA OP2 HOP2 sing N N 45 DA "O5'" "C5'" sing N N 46 DA "C5'" "C4'" sing N N 47 DA "C5'" "H5'" sing N N 48 DA "C5'" "H5''" sing N N 49 DA "C4'" "O4'" sing N N 50 DA "C4'" "C3'" sing N N 51 DA "C4'" "H4'" sing N N 52 DA "O4'" "C1'" sing N N 53 DA "C3'" "O3'" sing N N 54 DA "C3'" "C2'" sing N N 55 DA "C3'" "H3'" sing N N 56 DA "O3'" "HO3'" sing N N 57 DA "C2'" "C1'" sing N N 58 DA "C2'" "H2'" sing N N 59 DA "C2'" "H2''" sing N N 60 DA "C1'" N9 sing N N 61 DA "C1'" "H1'" sing N N 62 DA N9 C8 sing Y N 63 DA N9 C4 sing Y N 64 DA C8 N7 doub Y N 65 DA C8 H8 sing N N 66 DA N7 C5 sing Y N 67 DA C5 C6 sing Y N 68 DA C5 C4 doub Y N 69 DA C6 N6 sing N N 70 DA C6 N1 doub Y N 71 DA N6 H61 sing N N 72 DA N6 H62 sing N N 73 DA N1 C2 sing Y N 74 DA C2 N3 doub Y N 75 DA C2 H2 sing N N 76 DA N3 C4 sing Y N 77 DG OP3 P sing N N 78 DG OP3 HOP3 sing N N 79 DG P OP1 doub N N 80 DG P OP2 sing N N 81 DG P "O5'" sing N N 82 DG OP2 HOP2 sing N N 83 DG "O5'" "C5'" sing N N 84 DG "C5'" "C4'" sing N N 85 DG "C5'" "H5'" sing N N 86 DG "C5'" "H5''" sing N N 87 DG "C4'" "O4'" sing N N 88 DG "C4'" "C3'" sing N N 89 DG "C4'" "H4'" sing N N 90 DG "O4'" "C1'" sing N N 91 DG "C3'" "O3'" sing N N 92 DG "C3'" "C2'" sing N N 93 DG "C3'" "H3'" sing N N 94 DG "O3'" "HO3'" sing N N 95 DG "C2'" "C1'" sing N N 96 DG "C2'" "H2'" sing N N 97 DG "C2'" "H2''" sing N N 98 DG "C1'" N9 sing N N 99 DG "C1'" "H1'" sing N N 100 DG N9 C8 sing Y N 101 DG N9 C4 sing Y N 102 DG C8 N7 doub Y N 103 DG C8 H8 sing N N 104 DG N7 C5 sing Y N 105 DG C5 C6 sing N N 106 DG C5 C4 doub Y N 107 DG C6 O6 doub N N 108 DG C6 N1 sing N N 109 DG N1 C2 sing N N 110 DG N1 H1 sing N N 111 DG C2 N2 sing N N 112 DG C2 N3 doub N N 113 DG N2 H21 sing N N 114 DG N2 H22 sing N N 115 DG N3 C4 sing N N 116 DT OP3 P sing N N 117 DT OP3 HOP3 sing N N 118 DT P OP1 doub N N 119 DT P OP2 sing N N 120 DT P "O5'" sing N N 121 DT OP2 HOP2 sing N N 122 DT "O5'" "C5'" sing N N 123 DT "C5'" "C4'" sing N N 124 DT "C5'" "H5'" sing N N 125 DT "C5'" "H5''" sing N N 126 DT "C4'" "O4'" sing N N 127 DT "C4'" "C3'" sing N N 128 DT "C4'" "H4'" sing N N 129 DT "O4'" "C1'" sing N N 130 DT "C3'" "O3'" sing N N 131 DT "C3'" "C2'" sing N N 132 DT "C3'" "H3'" sing N N 133 DT "O3'" "HO3'" sing N N 134 DT "C2'" "C1'" sing N N 135 DT "C2'" "H2'" sing N N 136 DT "C2'" "H2''" sing N N 137 DT "C1'" N1 sing N N 138 DT "C1'" "H1'" sing N N 139 DT N1 C2 sing N N 140 DT N1 C6 sing N N 141 DT C2 O2 doub N N 142 DT C2 N3 sing N N 143 DT N3 C4 sing N N 144 DT N3 H3 sing N N 145 DT C4 O4 doub N N 146 DT C4 C5 sing N N 147 DT C5 C7 sing N N 148 DT C5 C6 doub N N 149 DT C7 H71 sing N N 150 DT C7 H72 sing N N 151 DT C7 H73 sing N N 152 DT C6 H6 sing N N 153 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2E4I 'double helix' 2E4I 'z-form double helix' 2E4I '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 BGM 2 1_555 A BGM 20 1_555 2.323 3.549 -0.194 -4.373 5.784 -82.253 1 A_BGM2:BGM20_A A 2 ? A 20 ? 6 ? 1 A BGM 8 1_555 A DG 16 1_555 -2.060 -3.763 -0.036 -15.099 -1.687 77.040 2 A_BGM8:DG16_A A 8 ? A 16 ? 6 ? 1 A DG 21 1_555 A BGM 15 1_555 -0.761 -3.821 -0.773 7.359 13.231 92.531 3 A_DG21:BGM15_A A 21 ? A 15 ? 6 3 1 A BGM 14 1_555 A DG 22 1_555 -0.985 3.794 -0.586 -10.707 -18.578 91.605 4 A_BGM14:DG22_A A 14 ? A 22 ? 6 ? 1 A DG 9 1_555 A DG 3 1_555 0.748 -3.383 1.179 11.948 23.167 -104.617 5 A_DG9:DG3_A A 9 ? A 3 ? 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 BGM 2 1_555 A BGM 20 1_555 A BGM 8 1_555 A DG 16 1_555 -0.590 -3.756 -0.673 1.219 0.198 177.192 -1.878 0.295 -0.674 0.099 -0.610 177.192 1 AA_BGM2BGM8:DG16BGM20_AA A 2 ? A 20 ? A 8 ? A 16 ? 1 A BGM 8 1_555 A DG 16 1_555 A DG 21 1_555 A BGM 15 1_555 -1.960 5.034 -2.686 -38.864 -171.727 -103.150 -2.859 -0.903 0.676 86.278 -19.526 -177.558 2 AA_BGM8DG21:BGM15DG16_AA A 8 ? A 16 ? A 21 ? A 15 ? 1 A BGM 14 1_555 A DG 22 1_555 A DG 9 1_555 A DG 3 1_555 1.696 -3.786 3.553 10.906 -10.077 -156.165 1.967 0.902 3.448 5.148 5.572 -156.368 3 AA_BGM14DG9:DG3DG22_AA A 14 ? A 22 ? A 9 ? A 3 ? # 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 800 ? 2 AVANCE Bruker 600 ? 3 AVANCE Bruker 500 ? # _atom_sites.entry_id 2E4I _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 BR C H N O P # loop_