data_8PSH # _entry.id 8PSH # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.356 _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 8PSH pdb_00008psh 10.2210/pdb8psh/pdb WWPDB D_1000180013 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 8DRH _pdbx_database_related.details 'MINIMIZED AVERAGE STRUCTURE' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 8PSH _pdbx_database_status.recvd_initial_deposition_date 1997-10-13 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _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 'Bachelin, M.' 1 'Hessler, G.' 2 'Kurz, G.' 3 'Hacia, J.G.' 4 'Dervan, P.B.' 5 'Kessler, H.' 6 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Structure of a Stereoregular Phosphorothioate DNA/RNA Duplex' Nat.Struct.Biol. 5 271 276 1998 NSBIEW US 1072-8368 2024 ? 9546216 10.1038/nsb0498-271 1 ? Thesis ? ? ? 1997 ? GW ? 2170 'Munchen : Technische Universitat Munchen (Thesis)' ? ? 2 ? Thesis ? ? ? 1995 ? GW ? 2171 'Munchen : Technische Universitat Munchen (Thesis)' ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Bachelin, M.' 1 ? primary 'Hessler, G.' 2 ? primary 'Kurz, G.' 3 ? primary 'Hacia, J.G.' 4 ? primary 'Dervan, P.B.' 5 ? primary 'Kessler, H.' 6 ? 1 'Bachelin, M.' 7 ? 2 'Kurz, G.' 8 ? # _cell.entry_id 8PSH _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8PSH _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*DGP*(SC)P*(GS)P*(PST)P*(SC)P*(AS)P*(GS)P*(GS))-3') ; 2580.090 1 ? ? ? ? 2 polymer syn ;RNA (5'-R(*CP*CP*UP*GP*AP*CP*GP*C)-3') ; 2501.553 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 '(DG)(SC)(GS)(PST)(SC)(AS)(GS)(GS)' GCGTCAGG A ? 2 polyribonucleotide no no CCUGACGC CCUGACGC B ? # 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 SC n 1 3 GS n 1 4 PST n 1 5 SC n 1 6 AS n 1 7 GS n 1 8 GS n 2 1 C n 2 2 C n 2 3 U n 2 4 G n 2 5 A n 2 6 C n 2 7 G n 2 8 C n # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 8PSH 8PSH ? ? ? 2 2 PDB 8PSH 8PSH ? ? ? # 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 8PSH A 1 ? 8 ? 8PSH 1 ? 8 ? 1 8 2 2 8PSH B 1 ? 8 ? 8PSH 9 ? 16 ? 9 16 # 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 AS 'DNA linking' n ;2-DEOXY-ADENOSINE -5'-THIO-MONOPHOSPHATE ; ? 'C10 H14 N5 O5 P S' 347.287 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 GS 'DNA linking' n "GUANOSINE-5'-THIO-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P S' 363.287 PST 'DNA linking' n "THYMIDINE-5'-THIOPHOSPHATE" ? 'C10 H15 N2 O7 P S' 338.274 SC 'DNA linking' n "2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE" ? 'C9 H14 N3 O6 P S' 323.263 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 NOESY 1 2 1 P.E.COSY 1 3 1 TOCSY 1 4 1 'P-H COSY' 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 295 _pdbx_nmr_exptl_sample_conditions.pressure ? _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.pressure_units . _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 AMX600 Bruker 600 ? 2 DMX600 Bruker 500 ? 3 AMX500 Bruker 500 ? # _pdbx_nmr_refine.entry_id 8PSH _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 8PSH _pdbx_nmr_ensemble.conformers_calculated_total_number 50 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'AVERAGE OF ALL STRUCTURES' _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 ? # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement Discover 2.97 MSI 1 'structure solution' 'BRUKER UXNMR' UXNMR ? 2 'structure solution' 'TRIAD SYBYL' SYBYL ? 3 'structure solution' MARDIGRAS ? ? 4 'structure solution' 'MSI INSIGHT II' II ? 5 # _exptl.entry_id 8PSH _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 8PSH _struct.title ;HIGH RESOLUTION NMR STRUCTURE OF THE STEREOREGULAR (ALL-RP)-PHOSPHOROTHIOATE-DNA/RNA HYBRID D (G*PS*C*PS*G*PS*T*PS*C*PS*A*PS*G*PS*G)R(CCUGACGC), MINIMIZED AVERAGE STRUCTURE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 8PSH _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' _struct_keywords.text 'OLIGONUCLEOTIDE, DNA-RNA HYBRID, PHOSPHOROTHIOATE, THIONUCLEOTIDE, ANTISENSE' # 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 ? # _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 DG 1 "O3'" ? ? ? 1_555 A SC 2 P ? ? A DG 1 A SC 2 1_555 ? ? ? ? ? ? ? 1.618 ? ? covale2 covale both ? A SC 2 "O3'" ? ? ? 1_555 A GS 3 P ? ? A SC 2 A GS 3 1_555 ? ? ? ? ? ? ? 1.618 ? ? covale3 covale both ? A GS 3 "O3'" ? ? ? 1_555 A PST 4 P ? ? A GS 3 A PST 4 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale4 covale both ? A PST 4 "O3'" ? ? ? 1_555 A SC 5 P ? ? A PST 4 A SC 5 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale5 covale both ? A SC 5 "O3'" ? ? ? 1_555 A AS 6 P ? ? A SC 5 A AS 6 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale6 covale both ? A AS 6 "O3'" ? ? ? 1_555 A GS 7 P ? ? A AS 6 A GS 7 1_555 ? ? ? ? ? ? ? 1.627 ? ? covale7 covale both ? A GS 7 "O3'" ? ? ? 1_555 A GS 8 P ? ? A GS 7 A GS 8 1_555 ? ? ? ? ? ? ? 1.622 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B C 8 N3 ? ? A DG 1 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B C 8 O2 ? ? A DG 1 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B C 8 N4 ? ? A DG 1 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A SC 2 N3 ? ? ? 1_555 B G 7 N1 ? ? A SC 2 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A SC 2 N4 ? ? ? 1_555 B G 7 O6 ? ? A SC 2 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A SC 2 O2 ? ? ? 1_555 B G 7 N2 ? ? A SC 2 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A GS 3 N1 ? ? ? 1_555 B C 6 N3 ? ? A GS 3 B C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A GS 3 N2 ? ? ? 1_555 B C 6 O2 ? ? A GS 3 B C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A GS 3 O6 ? ? ? 1_555 B C 6 N4 ? ? A GS 3 B C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A PST 4 N3 ? ? ? 1_555 B A 5 N1 ? ? A PST 4 B A 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A PST 4 O4 ? ? ? 1_555 B A 5 N6 ? ? A PST 4 B A 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A SC 5 N3 ? ? ? 1_555 B G 4 N1 ? ? A SC 5 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A SC 5 N4 ? ? ? 1_555 B G 4 O6 ? ? A SC 5 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A SC 5 O2 ? ? ? 1_555 B G 4 N2 ? ? A SC 5 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A AS 6 N1 ? ? ? 1_555 B U 3 N3 ? ? A AS 6 B U 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A AS 6 N6 ? ? ? 1_555 B U 3 O4 ? ? A AS 6 B U 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A GS 7 N1 ? ? ? 1_555 B C 2 N3 ? ? A GS 7 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A GS 7 N2 ? ? ? 1_555 B C 2 O2 ? ? A GS 7 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A GS 7 O6 ? ? ? 1_555 B C 2 N4 ? ? A GS 7 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A GS 8 N1 ? ? ? 1_555 B C 1 N3 ? ? A GS 8 B C 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A GS 8 N2 ? ? ? 1_555 B C 1 O2 ? ? A GS 8 B C 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A GS 8 O6 ? ? ? 1_555 B C 1 N4 ? ? A GS 8 B C 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A AS 6 ? 4 'BINDING SITE FOR RESIDUE AS A 6' AC2 Software A DG 1 ? 2 'BINDING SITE FOR RESIDUE DG A 1' AC3 Software A GS 3 ? 5 'BINDING SITE FOR RESIDUE GS A 3' AC4 Software A GS 7 ? 4 'BINDING SITE FOR RESIDUE GS A 7' AC5 Software A GS 8 ? 3 'BINDING SITE FOR RESIDUE GS A 8' AC6 Software A PST 4 ? 3 'BINDING SITE FOR RESIDUE PST A 4' AC7 Software A SC 2 ? 3 'BINDING SITE FOR RESIDUE SC A 2' AC8 Software A SC 5 ? 4 'BINDING SITE FOR RESIDUE SC A 5' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 SC A 5 ? SC A 5 . ? 1_555 ? 2 AC1 4 GS A 7 ? GS A 7 . ? 1_555 ? 3 AC1 4 U B 3 ? U B 11 . ? 1_555 ? 4 AC1 4 G B 4 ? G B 12 . ? 1_555 ? 5 AC2 2 SC A 2 ? SC A 2 . ? 1_555 ? 6 AC2 2 C B 8 ? C B 16 . ? 1_555 ? 7 AC3 5 SC A 2 ? SC A 2 . ? 1_555 ? 8 AC3 5 PST A 4 ? PST A 4 . ? 1_555 ? 9 AC3 5 A B 5 ? A B 13 . ? 1_555 ? 10 AC3 5 C B 6 ? C B 14 . ? 1_555 ? 11 AC3 5 G B 7 ? G B 15 . ? 1_555 ? 12 AC4 4 AS A 6 ? AS A 6 . ? 1_555 ? 13 AC4 4 GS A 8 ? GS A 8 . ? 1_555 ? 14 AC4 4 C B 2 ? C B 10 . ? 1_555 ? 15 AC4 4 U B 3 ? U B 11 . ? 1_555 ? 16 AC5 3 GS A 7 ? GS A 7 . ? 1_555 ? 17 AC5 3 C B 1 ? C B 9 . ? 1_555 ? 18 AC5 3 C B 2 ? C B 10 . ? 1_555 ? 19 AC6 3 GS A 3 ? GS A 3 . ? 1_555 ? 20 AC6 3 SC A 5 ? SC A 5 . ? 1_555 ? 21 AC6 3 A B 5 ? A B 13 . ? 1_555 ? 22 AC7 3 DG A 1 ? DG A 1 . ? 1_555 ? 23 AC7 3 GS A 3 ? GS A 3 . ? 1_555 ? 24 AC7 3 G B 7 ? G B 15 . ? 1_555 ? 25 AC8 4 PST A 4 ? PST A 4 . ? 1_555 ? 26 AC8 4 AS A 6 ? AS A 6 . ? 1_555 ? 27 AC8 4 G B 4 ? G B 12 . ? 1_555 ? 28 AC8 4 A B 5 ? A B 13 . ? 1_555 ? # _database_PDB_matrix.entry_id 8PSH _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 # _atom_sites.entry_id 8PSH _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 S # 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 G A . n A 1 2 SC 2 2 2 SC SC A . n A 1 3 GS 3 3 3 GS GS A . n A 1 4 PST 4 4 4 PST TS A . n A 1 5 SC 5 5 5 SC SC A . n A 1 6 AS 6 6 6 AS AS A . n A 1 7 GS 7 7 7 GS GS A . n A 1 8 GS 8 8 8 GS GS A . n B 2 1 C 1 9 9 C C B . n B 2 2 C 2 10 10 C C B . n B 2 3 U 3 11 11 U U B . n B 2 4 G 4 12 12 G G B . n B 2 5 A 5 13 13 A A B . n B 2 6 C 6 14 14 C C B . n B 2 7 G 7 15 15 G G B . n B 2 8 C 8 16 16 C C B . n # 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 SC 2 A SC 2 ? DC "2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE" 2 A GS 3 A GS 3 ? DG "GUANOSINE-5'-THIO-MONOPHOSPHATE" 3 A PST 4 A PST 4 ? DT "THYMIDINE-5'-THIOPHOSPHATE" 4 A SC 5 A SC 5 ? DC "2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE" 5 A AS 6 A AS 6 ? DA ? 6 A GS 7 A GS 7 ? DG "GUANOSINE-5'-THIO-MONOPHOSPHATE" 7 A GS 8 A GS 8 ? DG "GUANOSINE-5'-THIO-MONOPHOSPHATE" # _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 # 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 1998-05-27 2 'Structure model' 1 1 2008-03-20 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-16 # _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' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 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 4 'Structure model' database_2 2 4 'Structure model' pdbx_database_status 3 4 'Structure model' pdbx_nmr_software 4 4 'Structure model' pdbx_struct_assembly 5 4 'Structure model' pdbx_struct_oper_list 6 4 'Structure model' struct_conn 7 4 'Structure model' struct_site # 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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_database_status.process_site' 4 4 'Structure model' '_pdbx_nmr_software.name' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 9 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 10 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 11 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 12 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 13 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 14 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 15 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 16 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 17 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 18 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DG _pdbx_validate_rmsd_angle.auth_seq_id_1 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 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DG _pdbx_validate_rmsd_angle.auth_seq_id_2 1 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 N9 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DG _pdbx_validate_rmsd_angle.auth_seq_id_3 1 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 110.32 _pdbx_validate_rmsd_angle.angle_target_value 108.30 _pdbx_validate_rmsd_angle.angle_deviation 2.02 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.30 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 A B 13 ? ? 0.080 'SIDE CHAIN' 2 1 G B 15 ? ? 0.087 'SIDE CHAIN' # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8PSH 'double helix' 8PSH 'a-form 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 DG 1 1_555 B C 8 1_555 -0.385 -0.135 0.336 8.762 1.133 -2.895 1 A_DG1:C16_B A 1 ? B 16 ? 19 1 1 A SC 2 1_555 B G 7 1_555 0.142 -0.046 -0.171 12.752 -21.911 0.156 2 A_SC2:G15_B A 2 ? B 15 ? 19 1 1 A GS 3 1_555 B C 6 1_555 -0.835 -0.317 0.422 16.030 -12.393 -3.160 3 A_GS3:C14_B A 3 ? B 14 ? 19 1 1 A PST 4 1_555 B A 5 1_555 0.592 -0.130 -0.248 22.265 -23.608 1.992 4 A_PST4:A13_B A 4 ? B 13 ? 20 1 1 A SC 5 1_555 B G 4 1_555 0.042 -0.081 -0.259 4.779 -22.645 -0.643 5 A_SC5:G12_B A 5 ? B 12 ? 19 1 1 A AS 6 1_555 B U 3 1_555 0.474 -0.041 0.148 -6.128 -13.764 -2.524 6 A_AS6:U11_B A 6 ? B 11 ? 20 1 1 A GS 7 1_555 B C 2 1_555 0.391 -0.097 0.111 -5.005 -19.572 -3.461 7 A_GS7:C10_B A 7 ? B 10 ? 19 1 1 A GS 8 1_555 B C 1 1_555 -0.047 -0.105 0.164 -16.565 -24.739 -4.256 8 A_GS8:C9_B A 8 ? B 9 ? 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 DG 1 1_555 B C 8 1_555 A SC 2 1_555 B G 7 1_555 -0.118 -0.844 3.123 4.663 3.865 36.791 -1.802 0.765 2.985 6.073 -7.326 37.269 1 AA_DG1SC2:G15C16_BB A 1 ? B 16 ? A 2 ? B 15 ? 1 A SC 2 1_555 B G 7 1_555 A GS 3 1_555 B C 6 1_555 0.029 -1.111 2.916 -5.176 16.827 25.989 -4.598 -0.834 1.838 33.028 10.158 31.306 2 AA_SC2GS3:C14G15_BB A 2 ? B 15 ? A 3 ? B 14 ? 1 A GS 3 1_555 B C 6 1_555 A PST 4 1_555 B A 5 1_555 0.379 -0.710 3.021 4.924 4.477 40.945 -1.442 -0.052 2.955 6.349 -6.983 41.460 3 AA_GS3PST4:A13C14_BB A 3 ? B 14 ? A 4 ? B 13 ? 1 A PST 4 1_555 B A 5 1_555 A SC 5 1_555 B G 4 1_555 -0.084 -1.535 3.407 0.969 12.493 32.233 -4.442 0.285 2.645 21.514 -1.669 34.523 4 AA_PST4SC5:G12A13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A SC 5 1_555 B G 4 1_555 A AS 6 1_555 B U 3 1_555 0.110 -1.586 3.327 -2.966 13.808 30.666 -4.801 -0.632 2.392 24.542 5.272 33.691 5 AA_SC5AS6:U11G12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A AS 6 1_555 B U 3 1_555 A GS 7 1_555 B C 2 1_555 -0.400 -1.824 3.085 -0.464 5.984 30.344 -4.454 0.670 2.690 11.293 0.877 30.919 6 AA_AS6GS7:C10U11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A GS 7 1_555 B C 2 1_555 A GS 8 1_555 B C 1 1_555 0.067 -1.480 3.316 0.662 7.414 35.631 -3.372 -0.017 2.959 11.956 -1.067 36.375 7 AA_GS7GS8:C9C10_BB A 7 ? B 10 ? A 8 ? B 9 ? #