data_6GN4 # _entry.id 6GN4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.308 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6GN4 WWPDB D_1200010271 BMRB 34277 # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type PDB . 6GMY unspecified BMRB 'tc-DNA/tc-DNA duplex' 34277 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 6GN4 _pdbx_database_status.recvd_initial_deposition_date 2018-05-29 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _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 'Istrate, A.' 1 0000-0003-3385-497X 'Johannsen, S.' 2 ? 'Istrate, A.' 3 ? 'Sigel, R.K.O.' 4 ? 'Leumann, C.' 5 ? # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 47 _citation.language ? _citation.page_first 4872 _citation.page_last 4882 _citation.title 'NMR solution structure of tricyclo-DNA containing duplexes: insight into enhanced thermal stability and nuclease resistance.' _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkz197 _citation.pdbx_database_id_PubMed 30916334 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Istrate, A.' 1 ? primary 'Johannsen, S.' 2 ? primary 'Istrate, A.' 3 ? primary 'Sigel, R.K.O.' 4 ? primary 'Leumann, C.J.' 5 ? # 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 ;Tc-DNA (5'-D(*(TCJ)P*(TTK)P*(TCJ)P*(TCS)P*(TCS)P*(TCJ)P*(TTK)P*(TTK)P*(TCY)P*(TCJ))-3') ; 3352.575 1 ? ? ? ? 2 polymer syn ;Tc-DNA (5'-D(*(TCS)P*(TTK)P*(TCY)P*(TCY)P*(TCS)P*(TCJ)P*(TCJ)P*(TCS)P*(TCY)P*(TCS))-3') ; 3422.597 1 ? ? ? ? # 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 yes '(F7H)(EAN)(TCJ)(F4Q)(F4Q)(TCJ)(EAN)(EAN)(TCY)(TCJ)' CTCGGCTTAC A ? 2 polydeoxyribonucleotide no yes '(F7K)(EAN)(TCY)(TCY)(F4Q)(TCJ)(TCJ)(F4Q)(TCY)(F4Q)' GTAAGCCGAG B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 F7H n 1 2 EAN n 1 3 TCJ n 1 4 F4Q n 1 5 F4Q n 1 6 TCJ n 1 7 EAN n 1 8 EAN n 1 9 TCY n 1 10 TCJ n 2 1 F7K n 2 2 EAN n 2 3 TCY n 2 4 TCY n 2 5 F4Q n 2 6 TCJ n 2 7 TCJ n 2 8 F4Q n 2 9 TCY n 2 10 F4Q 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 10 'Homo sapiens' ? 9606 ? 2 1 sample 1 10 'Homo sapiens' ? 9606 ? # 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 6GN4 6GN4 ? 1 ? 1 2 PDB 6GN4 6GN4 ? 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 6GN4 A 1 ? 10 ? 6GN4 1 ? 10 ? 1 10 2 2 6GN4 B 1 ? 10 ? 6GN4 11 ? 20 ? 11 20 # 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 EAN 'DNA linking' n ;[(1~{S},2~{R},4~{R},6~{S},8~{R})-8-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate ; ? 'C13 H17 N2 O8 P' 360.256 F4Q 'DNA linking' n ;[(1~{S},2~{R},4~{R},6~{S},8~{R})-8-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate ; ? 'C13 H16 N5 O7 P' 385.269 F7H 'DNA linking' n '4-azanyl-1-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-5-methyl-pyrimidin-2-one' ? 'C13 H17 N3 O4' 279.292 F7K 'DNA linking' n '2-azanyl-9-[(1~{S},2~{R},4~{S},6~{S},8~{R})-2,6-bis(oxidanyl)-9-oxatricyclo[4.3.0.0^{2,4}]nonan-8-yl]-1~{H}-purin-6-one' ? 'C13 H15 N5 O4' 305.289 TCJ 'DNA linking' n ;[(1~{S},2~{R},4~{R},6~{S},8~{R})-8-(4-azanyl-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-6-oxidanyl-9-oxatricyclo[4.3.0.0^{2,4}]nonan-2-yl] dihydrogen phosphate ; ? 'C13 H18 N3 O7 P' 359.272 TCY 'DNA linking' n ;(2R,3aS,4aR,5aR,5bS)-2-(6-amino-9H-purin-9-yl)-3a-hydroxyhexahydrocyclopropa[4,5]cyclopenta[1,2-b]furan-5a(4H)-yl dihydrogen phosphate ; ? 'C13 H16 N5 O6 P' 369.270 # 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' 1 isotropic 2 1 1 '2D DQF-COSY' 1 isotropic 3 1 1 '2D 1H-1H TOCSY' 1 isotropic 4 1 1 '2D 1H-13C HSQC' 1 isotropic 5 2 2 '2D 1H-1H NOESY' 1 isotropic 6 3 3 '2D 1H-1H NOESY' 1 isotropic # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.details _pdbx_nmr_exptl_sample_conditions.ionic_strength_err _pdbx_nmr_exptl_sample_conditions.ionic_strength_units _pdbx_nmr_exptl_sample_conditions.label _pdbx_nmr_exptl_sample_conditions.pH_err _pdbx_nmr_exptl_sample_conditions.pH_units _pdbx_nmr_exptl_sample_conditions.pressure_err _pdbx_nmr_exptl_sample_conditions.temperature_err _pdbx_nmr_exptl_sample_conditions.temperature_units 1 298 atm 1 7.05 'NaCl 50 mM, NaH2PO4 10 mM' ? ? 'Not defined' 'D2O 298' ? pH ? ? K 2 283 atm 1 7.05 'NaCl 50 mM, NaH2PO4 10 mM' ? ? 'Not defined' H2O ? pH ? ? K 3 283 atm 1 7.05 'NaCl 50 mM, NaH2PO4 10 mM' ? ? 'Not defined' 'D2O 283' ? pH ? ? 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 '0.5 mM tc-DNA/tc-DNA, 50 mM NaCl, 10 mM NaH2PO4, 100% D2O' '100% D2O' 'D2O 298' solution ? 2 '0.5 mM tc-DNA/tc-DNA, 50 mM NaCl, 10 mM NaH2PO4, 90% H2O/10% D2O' '90% H2O/10% D2O' H2O solution ? 3 '0.5 mM tc-DNA/tc-DNA, 50 mM NaCl, 10 mM NaH2PO4, 100% D2O' '100% D2O' 'D2O 283' solution ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model AvanceII _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 700 _pdbx_nmr_spectrometer.details ? # loop_ _pdbx_nmr_refine.entry_id _pdbx_nmr_refine.method _pdbx_nmr_refine.details _pdbx_nmr_refine.software_ordinal 6GN4 'simulated annealing' ? 1 6GN4 'simulated annealing' ? 5 # _pdbx_nmr_ensemble.entry_id 6GN4 _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 least restraint violations' _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 6GN4 _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'closest to the average' # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 1 refinement CNS ? 'Brunger, Adams, Clore, Gros, Nilges and Read' 5 refinement GROMOS ? 'van Gunsteren and Berendsen' 2 'chemical shift assignment' Sparky ? Goddard 3 processing NMRPipe ? 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' # _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 6GN4 _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 6GN4 _struct.title 'tc-DNA/tc-DNA duplex' _struct.pdbx_descriptor ;Tc-DNA (5'-D(*(TCJ)P*(TTK)P*(TCJ)P*(TCS)P*(TCS)P*(TCJ)P*(TTK)P*(TTK)P*(TCY)P*(TCJ))-3'), Tc-DNA (5'-D(*(TCS)P*(TTK)P*(TCY)P*(TCY)P*(TCS)P*(TCJ)P*(TCJ)P*(TCS)P*(TCY)P*(TCS))-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 6GN4 _struct_keywords.text 'tricyclo-DNA, Modified nucleic acids, Modified oligonucleotide, Tc-DNA, 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 covale1 covale one ? A F7H 1 "O3'" ? ? ? 1_555 A EAN 2 P ? ? A F7H 1 A EAN 2 1_555 ? ? ? ? ? ? ? 1.624 ? covale2 covale one ? A EAN 2 "O3'" ? ? ? 1_555 A TCJ 3 P ? ? A EAN 2 A TCJ 3 1_555 ? ? ? ? ? ? ? 1.625 ? covale3 covale one ? A TCJ 3 "O3'" ? ? ? 1_555 A F4Q 4 P ? ? A TCJ 3 A F4Q 4 1_555 ? ? ? ? ? ? ? 1.635 ? covale4 covale one ? A F4Q 4 "O3'" ? ? ? 1_555 A F4Q 5 P ? ? A F4Q 4 A F4Q 5 1_555 ? ? ? ? ? ? ? 1.633 ? covale5 covale one ? A F4Q 5 "O3'" ? ? ? 1_555 A TCJ 6 P ? ? A F4Q 5 A TCJ 6 1_555 ? ? ? ? ? ? ? 1.623 ? covale6 covale one ? A TCJ 6 "O3'" ? ? ? 1_555 A EAN 7 P ? ? A TCJ 6 A EAN 7 1_555 ? ? ? ? ? ? ? 1.620 ? covale7 covale one ? A EAN 7 "O3'" ? ? ? 1_555 A EAN 8 P ? ? A EAN 7 A EAN 8 1_555 ? ? ? ? ? ? ? 1.632 ? covale8 covale one ? A EAN 8 "O3'" ? ? ? 1_555 A TCY 9 P ? ? A EAN 8 A TCY 9 1_555 ? ? ? ? ? ? ? 1.629 ? covale9 covale both ? A TCY 9 "O3'" ? ? ? 1_555 A TCJ 10 P ? ? A TCY 9 A TCJ 10 1_555 ? ? ? ? ? ? ? 1.627 ? covale10 covale one ? B F7K 1 "O3'" ? ? ? 1_555 B EAN 2 P ? ? B F7K 11 B EAN 12 1_555 ? ? ? ? ? ? ? 1.624 ? covale11 covale one ? B EAN 2 "O3'" ? ? ? 1_555 B TCY 3 P ? ? B EAN 12 B TCY 13 1_555 ? ? ? ? ? ? ? 1.621 ? covale12 covale both ? B TCY 3 "O3'" ? ? ? 1_555 B TCY 4 P ? ? B TCY 13 B TCY 14 1_555 ? ? ? ? ? ? ? 1.618 ? covale13 covale both ? B TCY 4 "O3'" ? ? ? 1_555 B F4Q 5 P ? ? B TCY 14 B F4Q 15 1_555 ? ? ? ? ? ? ? 1.615 ? covale14 covale one ? B F4Q 5 "O3'" ? ? ? 1_555 B TCJ 6 P ? ? B F4Q 15 B TCJ 16 1_555 ? ? ? ? ? ? ? 1.620 ? covale15 covale one ? B TCJ 6 "O3'" ? ? ? 1_555 B TCJ 7 P ? ? B TCJ 16 B TCJ 17 1_555 ? ? ? ? ? ? ? 1.620 ? covale16 covale one ? B TCJ 7 "O3'" ? ? ? 1_555 B F4Q 8 P ? ? B TCJ 17 B F4Q 18 1_555 ? ? ? ? ? ? ? 1.624 ? covale17 covale one ? B F4Q 8 "O3'" ? ? ? 1_555 B TCY 9 P ? ? B F4Q 18 B TCY 19 1_555 ? ? ? ? ? ? ? 1.625 ? covale18 covale both ? B TCY 9 "O3'" ? ? ? 1_555 B F4Q 10 P ? ? B TCY 19 B F4Q 20 1_555 ? ? ? ? ? ? ? 1.631 ? hydrog1 hydrog ? ? A F7H 1 N3 ? ? ? 1_555 B F4Q 10 N1 ? ? A F7H 1 B F4Q 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A F7H 1 N4 ? ? ? 1_555 B F4Q 10 O6 ? ? A F7H 1 B F4Q 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A F7H 1 O2 ? ? ? 1_555 B F4Q 10 N2 ? ? A F7H 1 B F4Q 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A EAN 2 N3 ? ? ? 1_555 B TCY 9 N1 ? ? A EAN 2 B TCY 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A EAN 2 O4 ? ? ? 1_555 B TCY 9 N6 ? ? A EAN 2 B TCY 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A TCJ 3 N3 ? ? ? 1_555 B F4Q 8 N1 ? ? A TCJ 3 B F4Q 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A TCJ 3 N4 ? ? ? 1_555 B F4Q 8 O6 ? ? A TCJ 3 B F4Q 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A TCJ 3 O2 ? ? ? 1_555 B F4Q 8 N2 ? ? A TCJ 3 B F4Q 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A F4Q 4 N1 ? ? ? 1_555 B TCJ 7 N3 ? ? A F4Q 4 B TCJ 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? A F4Q 4 N2 ? ? ? 1_555 B TCJ 7 O2 ? ? A F4Q 4 B TCJ 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? A F4Q 4 O6 ? ? ? 1_555 B TCJ 7 N4 ? ? A F4Q 4 B TCJ 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? A F4Q 5 N1 ? ? ? 1_555 B TCJ 6 N3 ? ? A F4Q 5 B TCJ 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? A F4Q 5 N2 ? ? ? 1_555 B TCJ 6 O2 ? ? A F4Q 5 B TCJ 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? A F4Q 5 O6 ? ? ? 1_555 B TCJ 6 N4 ? ? A F4Q 5 B TCJ 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? A TCJ 6 N3 ? ? ? 1_555 B F4Q 5 N1 ? ? A TCJ 6 B F4Q 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? A TCJ 6 N4 ? ? ? 1_555 B F4Q 5 O6 ? ? A TCJ 6 B F4Q 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? A TCJ 6 O2 ? ? ? 1_555 B F4Q 5 N2 ? ? A TCJ 6 B F4Q 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? A EAN 7 N3 ? ? ? 1_555 B TCY 4 N1 ? ? A EAN 7 B TCY 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? A EAN 7 O4 ? ? ? 1_555 B TCY 4 N6 ? ? A EAN 7 B TCY 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? A EAN 8 N3 ? ? ? 1_555 B TCY 3 N1 ? ? A EAN 8 B TCY 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? A EAN 8 O4 ? ? ? 1_555 B TCY 3 N6 ? ? A EAN 8 B TCY 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? A TCY 9 N1 ? ? ? 1_555 B EAN 2 N3 ? ? A TCY 9 B EAN 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? A TCY 9 N6 ? ? ? 1_555 B EAN 2 O4 ? ? A TCY 9 B EAN 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? A TCJ 10 N3 ? ? ? 1_555 B F7K 1 N1 ? ? A TCJ 10 B F7K 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog25 hydrog ? ? A TCJ 10 N4 ? ? ? 1_555 B F7K 1 O6 ? ? A TCJ 10 B F7K 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog26 hydrog ? ? A TCJ 10 O2 ? ? ? 1_555 B F7K 1 N2 ? ? A TCJ 10 B F7K 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 6GN4 _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 F7H 1 1 1 F7H TCJ A . n A 1 2 EAN 2 2 2 EAN TTK A . n A 1 3 TCJ 3 3 3 TCJ TCJ A . n A 1 4 F4Q 4 4 4 F4Q TCS A . n A 1 5 F4Q 5 5 5 F4Q TCS A . n A 1 6 TCJ 6 6 6 TCJ TCJ A . n A 1 7 EAN 7 7 7 EAN TTK A . n A 1 8 EAN 8 8 8 EAN TTK A . n A 1 9 TCY 9 9 9 TCY TCY A . n A 1 10 TCJ 10 10 10 TCJ TCJ A . n B 2 1 F7K 1 11 11 F7K TCS B . n B 2 2 EAN 2 12 12 EAN TTK B . n B 2 3 TCY 3 13 13 TCY TCY B . n B 2 4 TCY 4 14 14 TCY TCY B . n B 2 5 F4Q 5 15 15 F4Q TCS B . n B 2 6 TCJ 6 16 16 TCJ TCJ B . n B 2 7 TCJ 7 17 17 TCJ TCJ B . n B 2 8 F4Q 8 18 18 F4Q TCS B . n B 2 9 TCY 9 19 19 TCY TCY B . n B 2 10 F4Q 10 20 20 F4Q TCS B . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation ? _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 2018-06-06 2 'Structure model' 2 0 2018-06-13 3 'Structure model' 2 1 2019-04-03 4 'Structure model' 2 2 2019-05-08 5 'Structure model' 3 0 2019-05-15 6 'Structure model' 3 1 2019-05-22 # _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 ? # 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' 'Atomic model' 2 2 'Structure model' 'Data collection' 3 2 'Structure model' 'Derived calculations' 4 2 'Structure model' 'Non-polymer description' 5 2 'Structure model' 'Polymer sequence' 6 2 'Structure model' 'Structure summary' 7 3 'Structure model' 'Data collection' 8 3 'Structure model' 'Database references' 9 4 'Structure model' 'Data collection' 10 5 'Structure model' 'Data collection' 11 5 'Structure model' 'Polymer sequence' 12 6 'Structure model' 'Data collection' 13 6 '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 2 'Structure model' atom_site 2 2 'Structure model' chem_comp 3 2 'Structure model' entity 4 2 'Structure model' entity_poly 5 2 'Structure model' entity_poly_seq 6 2 'Structure model' ndb_struct_na_base_pair 7 2 'Structure model' ndb_struct_na_base_pair_step 8 2 'Structure model' pdbx_poly_seq_scheme 9 2 'Structure model' struct_conn 10 3 'Structure model' citation 11 3 'Structure model' citation_author 12 3 'Structure model' pdbx_database_proc 13 4 'Structure model' pdbx_nmr_software 14 5 'Structure model' entity_poly 15 5 'Structure model' pdbx_seq_map_depositor_info 16 6 'Structure model' citation 17 6 'Structure model' database_PDB_rev 18 6 'Structure model' database_PDB_rev_record 19 6 'Structure model' pdbx_database_proc # 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' '_atom_site.Cartn_x' 2 2 'Structure model' '_atom_site.Cartn_y' 3 2 'Structure model' '_atom_site.Cartn_z' 4 2 'Structure model' '_atom_site.auth_atom_id' 5 2 'Structure model' '_atom_site.auth_comp_id' 6 2 'Structure model' '_atom_site.label_atom_id' 7 2 'Structure model' '_atom_site.label_comp_id' 8 2 'Structure model' '_chem_comp.formula' 9 2 'Structure model' '_chem_comp.formula_weight' 10 2 'Structure model' '_chem_comp.id' 11 2 'Structure model' '_chem_comp.name' 12 2 'Structure model' '_entity.formula_weight' 13 2 'Structure model' '_entity_poly.pdbx_seq_one_letter_code' 14 2 'Structure model' '_entity_poly_seq.mon_id' 15 2 'Structure model' '_ndb_struct_na_base_pair.i_label_comp_id' 16 2 'Structure model' '_ndb_struct_na_base_pair.j_label_comp_id' 17 2 'Structure model' '_ndb_struct_na_base_pair.pair_name' 18 2 'Structure model' '_ndb_struct_na_base_pair_step.i_label_comp_id_1' 19 2 'Structure model' '_ndb_struct_na_base_pair_step.j_label_comp_id_2' 20 2 'Structure model' '_ndb_struct_na_base_pair_step.step_name' 21 2 'Structure model' '_pdbx_poly_seq_scheme.mon_id' 22 2 'Structure model' '_pdbx_poly_seq_scheme.pdb_mon_id' 23 2 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 24 2 'Structure model' '_struct_conn.ptnr1_label_comp_id' 25 2 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 26 2 'Structure model' '_struct_conn.ptnr2_label_comp_id' 27 3 'Structure model' '_citation.country' 28 3 'Structure model' '_citation.journal_abbrev' 29 3 'Structure model' '_citation.journal_id_ASTM' 30 3 'Structure model' '_citation.journal_id_CSD' 31 3 'Structure model' '_citation.journal_id_ISSN' 32 3 'Structure model' '_citation.pdbx_database_id_DOI' 33 3 'Structure model' '_citation.pdbx_database_id_PubMed' 34 3 'Structure model' '_citation.title' 35 3 'Structure model' '_citation.year' 36 3 'Structure model' '_citation_author.name' 37 4 'Structure model' '_pdbx_nmr_software.name' 38 5 'Structure model' '_entity_poly.pdbx_seq_one_letter_code_can' 39 5 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code' 40 6 'Structure model' '_citation.journal_volume' 41 6 'Structure model' '_citation.page_first' 42 6 'Structure model' '_citation.page_last' # 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 tc-DNA/tc-DNA 0.5 ? mM 'natural abundance' 1 NaCl 50 ? mM 'natural abundance' 1 NaH2PO4 10 ? mM 'natural abundance' 2 tc-DNA/tc-DNA 0.5 ? mM 'natural abundance' 2 NaCl 50 ? mM 'natural abundance' 2 NaH2PO4 10 ? mM 'natural abundance' 3 tc-DNA/tc-DNA 0.5 ? mM 'natural abundance' 3 NaCl 50 ? mM 'natural abundance' 3 NaH2PO4 10 ? mM 'natural abundance' # _ndb_struct_conf_na.entry_id 6GN4 _ndb_struct_conf_na.feature 'double 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 F7H 1 1_555 B F4Q 10 1_555 0.215 -0.113 0.421 -2.157 -23.454 -0.968 1 A_F7H1:F4Q20_B A 1 ? B 20 ? 19 1 1 A EAN 2 1_555 B TCY 9 1_555 -0.041 -0.028 0.413 -0.364 -17.097 -6.709 2 A_EAN2:TCY19_B A 2 ? B 19 ? 20 1 1 A TCJ 3 1_555 B F4Q 8 1_555 0.167 -0.083 0.110 9.979 -23.398 -2.571 3 A_TCJ3:F4Q18_B A 3 ? B 18 ? 19 1 1 A F4Q 4 1_555 B TCJ 7 1_555 -0.064 -0.081 0.101 -6.987 -26.747 -0.470 4 A_F4Q4:TCJ17_B A 4 ? B 17 ? 19 1 1 A F4Q 5 1_555 B TCJ 6 1_555 0.089 -0.077 0.433 -7.687 -21.091 -1.119 5 A_F4Q5:TCJ16_B A 5 ? B 16 ? 19 1 1 A TCJ 6 1_555 B F4Q 5 1_555 -0.166 -0.024 0.279 -0.067 -19.263 -1.894 6 A_TCJ6:F4Q15_B A 6 ? B 15 ? 19 1 1 A EAN 7 1_555 B TCY 4 1_555 0.119 0.009 0.162 -0.450 -16.948 -4.513 7 A_EAN7:TCY14_B A 7 ? B 14 ? 20 1 1 A EAN 8 1_555 B TCY 3 1_555 -0.047 0.044 -0.182 4.709 -22.677 -4.754 8 A_EAN8:TCY13_B A 8 ? B 13 ? 20 1 1 A TCY 9 1_555 B EAN 2 1_555 0.144 0.026 0.214 4.620 -14.288 0.870 9 A_TCY9:EAN12_B A 9 ? B 12 ? 20 1 1 A TCJ 10 1_555 B F7K 1 1_555 0.408 0.042 -0.035 19.574 -19.409 3.366 10 A_TCJ10:F7K11_B A 10 ? B 11 ? 19 1 # 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 F7H 1 1_555 B F4Q 10 1_555 A EAN 2 1_555 B TCY 9 1_555 -0.004 -1.607 3.305 0.477 -2.029 31.154 -2.591 0.100 3.400 -3.773 -0.888 31.222 1 AA_F7H1EAN2:TCY19F4Q20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A EAN 2 1_555 B TCY 9 1_555 A TCJ 3 1_555 B F4Q 8 1_555 0.480 -1.326 2.962 2.727 -1.704 35.312 -1.947 -0.420 3.048 -2.801 -4.484 35.454 2 AA_EAN2TCJ3:F4Q18TCY19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A TCJ 3 1_555 B F4Q 8 1_555 A F4Q 4 1_555 B TCJ 7 1_555 0.288 -1.250 3.649 1.018 14.338 40.054 -3.266 -0.288 3.053 20.164 -1.432 42.455 3 AA_TCJ3F4Q4:TCJ17F4Q18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A F4Q 4 1_555 B TCJ 7 1_555 A F4Q 5 1_555 B TCJ 6 1_555 -0.080 -1.824 3.264 -3.742 -1.169 35.491 -2.805 -0.416 3.312 -1.911 6.116 35.700 4 AA_F4Q4F4Q5:TCJ16TCJ17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A F4Q 5 1_555 B TCJ 6 1_555 A TCJ 6 1_555 B F4Q 5 1_555 -0.206 -2.136 3.089 0.965 -5.234 32.543 -2.880 0.526 3.374 -9.262 -1.708 32.964 5 AA_F4Q5TCJ6:F4Q15TCJ16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A TCJ 6 1_555 B F4Q 5 1_555 A EAN 7 1_555 B TCY 4 1_555 0.136 -1.650 3.463 1.440 -3.894 34.900 -2.102 0.009 3.623 -6.463 -2.391 35.138 6 AA_TCJ6EAN7:TCY14F4Q15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A EAN 7 1_555 B TCY 4 1_555 A EAN 8 1_555 B TCY 3 1_555 0.366 -1.483 3.140 4.524 5.803 34.082 -3.298 0.030 2.880 9.760 -7.608 34.844 7 AA_EAN7EAN8:TCY13TCY14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A EAN 8 1_555 B TCY 3 1_555 A TCY 9 1_555 B EAN 2 1_555 0.116 -1.417 3.125 -2.451 13.994 37.486 -3.489 -0.418 2.452 20.879 3.658 39.997 8 AA_EAN8TCY9:EAN12TCY13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A TCY 9 1_555 B EAN 2 1_555 A TCJ 10 1_555 B F7K 1 1_555 0.724 -1.872 3.054 -0.130 -3.227 31.893 -2.831 -1.335 3.220 -5.855 0.236 32.052 9 AA_TCY9TCJ10:F7K11EAN12_BB A 9 ? B 12 ? A 10 ? B 11 ? # _pdbx_audit_support.funding_organization 'Swiss National Science Foundation' _pdbx_audit_support.country Switzerland _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 'mass spectrometry' _pdbx_struct_assembly_auth_evidence.details ? #