data_5ZEV # _entry.id 5ZEV # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.370 _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 5ZEV pdb_00005zev 10.2210/pdb5zev/pdb WWPDB D_1300006146 ? ? BMRB 36168 ? ? # _pdbx_database_related.db_name BMRB _pdbx_database_related.details 'Solution structure of G-quadruplex formed in vegfr-2 proximal promoter sequence' _pdbx_database_related.db_id 36168 _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 5ZEV _pdbx_database_status.recvd_initial_deposition_date 2018-02-28 _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 _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Liu, Y.' 1 ? 'Lan, W.X.' 2 ? # _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. Biol. Chem.' _citation.journal_id_ASTM JBCHA3 _citation.journal_id_CSD 0071 _citation.journal_id_ISSN 1083-351X _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 293 _citation.language ? _citation.page_first 8947 _citation.page_last 8955 _citation.title 'A putative G-quadruplex structure in the proximal promoter ofVEGFR-2has implications for drug design to inhibit tumor angiogenesis.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1074/jbc.RA118.002666 _citation.pdbx_database_id_PubMed 29666187 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Liu, Y.' 1 ? primary 'Lan, W.' 2 ? primary 'Wang, C.' 3 ? primary 'Cao, C.' 4 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3') ; _entity.formula_weight 7563.837 _entity.pdbx_number_of_molecules 1 _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 ;(DG)(DG)(DG)(DT)(DA)(DC)(DC)(DC)(DG)(DG)(DG)(DT)(DG)(DA)(DG)(DG)(DT)(DG)(DC)(DG) (DG)(DG)(DG)(DT) ; _entity_poly.pdbx_seq_one_letter_code_can GGGTACCCGGGTGAGGTGCGGGGT _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 DG n 1 2 DG n 1 3 DG n 1 4 DT n 1 5 DA n 1 6 DC n 1 7 DC n 1 8 DC n 1 9 DG n 1 10 DG n 1 11 DG n 1 12 DT n 1 13 DG n 1 14 DA n 1 15 DG n 1 16 DG n 1 17 DT n 1 18 DG n 1 19 DC n 1 20 DG n 1 21 DG n 1 22 DG n 1 23 DG n 1 24 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 1 _pdbx_entity_src_syn.pdbx_end_seq_num 24 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5ZEV _struct_ref.pdbx_db_accession 5ZEV _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 5ZEV _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 24 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 5ZEV _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 24 _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 24 # 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_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 1 '2D 1H-1H NOESY' 2 anisotropic 2 1 1 '2D 1H-1H TOCSY' 2 anisotropic 3 1 1 '2D DQF-COSY' 2 anisotropic 4 1 1 '2D 1H-13C HSQC' 3 anisotropic 5 1 2 '2D 1H-1H NOESY' 3 anisotropic # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 293 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 6.8 _pdbx_nmr_exptl_sample_conditions.ionic_strength 100 _pdbx_nmr_exptl_sample_conditions.details ? _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 DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3'), 20 mM potassium phosphate, 80 mM potassium chloride, 90% H2O/10% D2O ; '90% H2O/10% D2O' VEGFR-17T solution ? 2 ;1.0 mM DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3'), 80 mM potassium chloride, 20 mM potassium phosphate, 100% D2O ; '100% D2O' VEGFR-17T_D2O solution ? 3 ;0.1 mM [U-13C; U-15N]-Gua DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3'), 80 mM potassium chloride, 20 mM potassium phosphate, 90% H2O/10% D2O ; '90% H2O/10% D2O' 15N_VEGFR-17T solution ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.details 1 INOVA ? Varian 600 ? 2 INOVA ? Varian 800 ? 3 AVANCE ? Bruker 600 ? # _pdbx_nmr_refine.details ? _pdbx_nmr_refine.entry_id 5ZEV _pdbx_nmr_refine.method 'distance geometry' _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 5ZEV _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 5ZEV _pdbx_nmr_representative.selection_criteria 'minimized average structure' # _pdbx_nmr_software.name CNS _pdbx_nmr_software.version ? _pdbx_nmr_software.classification refinement _pdbx_nmr_software.authors 'Brunger A.T. et.al.' _pdbx_nmr_software.ordinal 1 # _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 5ZEV _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 5ZEV _struct.title 'Solution structure of G-quadruplex formed in vegfr-2 proximal promoter sequence' _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 5ZEV _struct_keywords.text 'G-quadruplex vegfr-2 DNA, DNA' _struct_keywords.pdbx_keywords 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 ? # 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 A DG 15 N2 ? ? A DG 1 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DG 15 N1 ? ? A DG 1 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DG 22 O6 ? ? A DG 1 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DG 22 N7 ? ? A DG 1 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 13 O6 ? ? A DG 2 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DG 13 N7 ? ? A DG 2 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 2 N7 ? ? ? 1_555 A DG 21 N2 ? ? A DG 2 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DG 21 N1 ? ? A DG 2 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 3 A DC 8 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog10 hydrog ? ? A DA 5 N6 ? ? ? 1_555 A DT 12 O4 ? ? A DA 5 A DT 12 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog11 hydrog ? ? A DG 9 N7 ? ? ? 1_555 A DG 13 N2 ? ? A DG 9 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A DG 9 O6 ? ? ? 1_555 A DG 13 N1 ? ? A DG 9 A DG 13 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DG 21 O6 ? ? A DG 9 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DG 21 N7 ? ? A DG 9 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DG 15 O6 ? ? A DG 10 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DG 15 N7 ? ? A DG 10 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A DG 10 N7 ? ? ? 1_555 A DG 22 N2 ? ? A DG 10 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 10 O6 ? ? ? 1_555 A DG 22 N1 ? ? A DG 10 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DG 11 N1 ? ? ? 1_555 A DG 16 O6 ? ? A DG 11 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog20 hydrog ? ? A DG 11 N2 ? ? ? 1_555 A DG 16 N7 ? ? A DG 11 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A DG 11 N7 ? ? ? 1_555 A DG 23 N2 ? ? A DG 11 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A DG 11 O6 ? ? ? 1_555 A DG 23 N1 ? ? A DG 11 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A DG 16 N1 ? ? ? 1_555 A DG 20 O6 ? ? A DG 16 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 16 N2 ? ? ? 1_555 A DG 20 N7 ? ? A DG 16 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A DG 20 N1 ? ? ? 1_555 A DG 23 O6 ? ? A DG 20 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A DG 20 N2 ? ? ? 1_555 A DG 23 N7 ? ? A DG 20 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 5ZEV _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 DG 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 DT 4 4 4 DT DT A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DC 6 6 6 DC DC A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DC 8 8 8 DC DC A . n A 1 9 DG 9 9 9 DG DG 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 DT 12 12 12 DT DT A . n A 1 13 DG 13 13 13 DG DG A . n A 1 14 DA 14 14 14 DA DA 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 A 1 18 DG 18 18 18 DG DG A . n A 1 19 DC 19 19 19 DC DC A . n A 1 20 DG 20 20 20 DG DG A . n A 1 21 DG 21 21 21 DG DG A . n A 1 22 DG 22 22 22 DG DG A . n A 1 23 DG 23 23 23 DG DG A . n A 1 24 DT 24 24 24 DT DT A . n # _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 # 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)' 0 ? 1 MORE 0 ? 1 'SSA (A^2)' 3930 ? # _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 # 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 2018-04-18 2 'Structure model' 1 1 2018-05-30 3 'Structure model' 1 2 2018-06-20 4 'Structure model' 1 3 2023-06-14 # _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' 'Data collection' 2 2 'Structure model' 'Database references' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Database references' 7 4 'Structure model' Other # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation 4 4 'Structure model' database_2 5 4 'Structure model' pdbx_database_status 6 4 'Structure model' pdbx_nmr_spectrometer # 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 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.pdbx_database_id_DOI' 7 2 'Structure model' '_citation.pdbx_database_id_PubMed' 8 2 'Structure model' '_citation.title' 9 2 'Structure model' '_citation.year' 10 3 'Structure model' '_citation.journal_volume' 11 3 'Structure model' '_citation.page_first' 12 3 'Structure model' '_citation.page_last' 13 3 'Structure model' '_citation.title' 14 4 'Structure model' '_database_2.pdbx_DOI' 15 4 'Structure model' '_database_2.pdbx_database_accession' 16 4 'Structure model' '_pdbx_database_status.status_code_nmr_data' 17 4 'Structure model' '_pdbx_nmr_spectrometer.model' # 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 ;DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3') ; 1 ? mM 'natural abundance' 1 'potassium phosphate' 20 ? mM 'natural abundance' 1 'potassium chloride' 80 ? mM 'natural abundance' 2 ;DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3') ; 1.0 ? mM 'natural abundance' 2 'potassium chloride' 80 ? mM 'natural abundance' 2 'potassium phosphate' 20 ? mM 'natural abundance' 3 ;DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3') ; 0.1 ? mM '[U-13C; U-15N]-Gua' 3 'potassium chloride' 80 ? mM 'natural abundance' 3 'potassium phosphate' 20 ? mM 'natural abundance' # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 2 O6 A DG 3 ? ? H42 A DC 8 ? ? 1.49 2 4 O6 A DG 3 ? ? H42 A DC 8 ? ? 1.56 3 12 O6 A DG 3 ? ? H42 A DC 8 ? ? 1.53 4 16 O6 A DG 3 ? ? H42 A DC 8 ? ? 1.50 5 20 O6 A DG 3 ? ? H42 A DC 8 ? ? 1.44 # 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 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 102.99 110.10 -7.11 1.00 N 2 2 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 102.76 110.10 -7.34 1.00 N 3 3 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 119.28 122.90 -3.62 0.60 N 4 3 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.13 110.10 -6.97 1.00 N 5 4 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.95 110.10 -8.15 1.00 N 6 5 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 102.27 110.10 -7.83 1.00 N 7 6 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.19 110.10 -6.91 1.00 N 8 7 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 102.94 110.10 -7.16 1.00 N 9 7 C6 A DT 24 ? ? C5 A DT 24 ? ? C7 A DT 24 ? ? 119.29 122.90 -3.61 0.60 N 10 8 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.07 110.10 -7.03 1.00 N 11 9 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.27 110.10 -6.83 1.00 N 12 10 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.68 110.10 -6.42 1.00 N 13 11 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 119.29 122.90 -3.61 0.60 N 14 11 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.60 110.10 -8.50 1.00 N 15 12 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.88 110.10 -8.22 1.00 N 16 13 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 102.91 110.10 -7.19 1.00 N 17 14 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.98 110.10 -8.12 1.00 N 18 15 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.19 110.10 -6.91 1.00 N 19 16 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.84 110.10 -8.26 1.00 N 20 17 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 102.94 110.10 -7.16 1.00 N 21 18 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.87 110.10 -8.23 1.00 N 22 19 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 103.05 110.10 -7.05 1.00 N 23 20 "C1'" A DG 15 ? ? "O4'" A DG 15 ? ? "C4'" A DG 15 ? ? 101.96 110.10 -8.14 1.00 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5ZEV 'double helix' 5ZEV 'internal loop' 5ZEV '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 DC 8 1_555 A DG 3 1_555 -2.776 2.148 0.304 5.365 3.587 -94.640 1 A_DC8:DG3_A A 8 ? A 3 ? ? ? 1 A DG 13 1_555 A DG 2 1_555 -0.578 -3.741 -0.067 -0.408 -2.105 96.571 2 A_DG13:DG2_A A 13 ? A 2 ? 6 3 1 A DG 9 1_555 A DG 21 1_555 0.774 3.796 0.555 -0.051 -6.033 -95.477 3 A_DG9:DG21_A A 9 ? A 21 ? 6 3 1 A DA 5 1_555 A DT 12 1_555 -2.978 -5.716 -0.175 -21.877 41.793 179.812 4 A_DA5:DT12_A A 5 ? A 12 ? ? ? 1 A DG 20 1_555 A DG 23 1_555 0.270 3.838 -0.408 -1.236 -0.563 -92.209 5 A_DG20:DG23_A A 20 ? A 23 ? 6 3 1 A DG 10 1_555 A DG 22 1_555 -0.760 -4.060 0.023 -1.412 -2.373 82.135 6 A_DG10:DG22_A A 10 ? A 22 ? 6 3 1 A DG 15 1_555 A DG 1 1_555 1.325 3.698 -0.621 -1.131 5.798 -88.853 7 A_DG15:DG1_A A 15 ? A 1 ? 6 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 DC 8 1_555 A DG 3 1_555 A DG 13 1_555 A DG 2 1_555 1.662 -2.491 0.733 -157.524 -44.507 -172.479 1.252 0.807 0.792 22.258 -78.779 -178.934 1 AA_DC8DG13:DG2DG3_AA A 8 ? A 3 ? A 13 ? A 2 ? 1 A DG 13 1_555 A DG 2 1_555 A DG 9 1_555 A DG 21 1_555 0.662 3.992 0.258 -1.368 8.641 -178.868 -1.996 0.331 0.255 -4.321 -0.684 -178.871 2 AA_DG13DG9:DG21DG2_AA A 13 ? A 2 ? A 9 ? A 21 ? 1 A DG 20 1_555 A DG 23 1_555 A DG 10 1_555 A DG 22 1_555 0.110 -2.273 -3.067 -2.446 0.601 57.024 -2.348 0.012 -3.091 0.629 2.561 57.075 3 AA_DG20DG10:DG22DG23_AA A 20 ? A 23 ? A 10 ? A 22 ? 1 A DG 10 1_555 A DG 22 1_555 A DG 15 1_555 A DG 1 1_555 1.304 3.556 -0.183 -5.310 -2.790 -175.648 -1.780 0.653 -0.178 1.396 -2.657 -175.654 4 AA_DG10DG15:DG1DG22_AA A 10 ? A 22 ? A 15 ? A 1 ? # _pdbx_audit_support.funding_organization ? _pdbx_audit_support.country China _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 ? #