data_1TNE # _entry.id 1TNE # _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 1TNE pdb_00001tne 10.2210/pdb1tne/pdb WWPDB D_1000176748 ? ? # 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 1996-07-11 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 5 'Structure model' 1 4 2024-05-22 # _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 ? _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' 'Database references' 4 4 'Structure model' 'Derived calculations' 5 4 'Structure model' Other 6 5 '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 4 'Structure model' database_2 2 4 'Structure model' pdbx_database_status 3 4 'Structure model' pdbx_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list 5 4 'Structure model' struct_conn 6 5 'Structure model' chem_comp_atom 7 5 '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 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' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1TNE _pdbx_database_status.recvd_initial_deposition_date 1996-02-13 _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 'Robinson, H.' 1 'Wang, A.H.-J.' 2 'Sugiyama, H.' 3 'Kawai, K.' 4 'Matsunaga, A.' 5 'Fujimoto, K.' 6 'Saito, I.' 7 # _citation.id primary _citation.title ;Synthesis, structure and thermodynamic properties of 8-methylguanine-containing oligonucleotides: Z-DNA under physiological salt conditions. ; _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 24 _citation.page_first 1272 _citation.page_last 1278 _citation.year 1996 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 8614630 _citation.pdbx_database_id_DOI 10.1093/nar/24.7.1272 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Sugiyama, H.' 1 ? primary 'Kawai, K.' 2 ? primary 'Matsunaga, A.' 3 ? primary 'Fujimoto, K.' 4 ? primary 'Saito, I.' 5 ? primary 'Robinson, H.' 6 ? primary 'Wang, A.H.' 7 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*CP*GP*CP*(8MG)P*CP*G)-3') ; _entity.formula_weight 1824.232 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(8MG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 8MG n 1 5 DC n 1 6 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 8MG 'DNA linking' n "8-METHYL-2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O7 P' 361.248 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 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 8MG 4 4 4 8MG +G A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n B 1 1 DC 1 7 7 DC C B . n B 1 2 DG 2 8 8 DG G B . n B 1 3 DC 3 9 9 DC C B . n B 1 4 8MG 4 10 10 8MG +G B . n B 1 5 DC 5 11 11 DC C B . n B 1 6 DG 6 12 12 DG G B . n # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.1 ? 1 X-PLOR refinement 3.1 ? 2 X-PLOR phasing 3.1 ? 3 # _cell.entry_id 1TNE _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 1TNE _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _exptl.entry_id 1TNE _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _database_PDB_matrix.entry_id 1TNE _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 1TNE _struct.title 'NMR STUDY OF Z-DNA AT PHYSIOLOGICAL SALT CONDITIONS, MINIMIZED AVERAGE STRUCTURE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1TNE _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1TNE _struct_ref.pdbx_db_accession 1TNE _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1TNE A 1 ? 6 ? 1TNE 1 ? 6 ? 1 6 2 1 1TNE B 1 ? 6 ? 1TNE 7 ? 12 ? 7 12 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # 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 DC 3 "O3'" ? ? ? 1_555 A 8MG 4 P ? ? A DC 3 A 8MG 4 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale2 covale both ? A 8MG 4 "O3'" ? ? ? 1_555 A DC 5 P ? ? A 8MG 4 A DC 5 1_555 ? ? ? ? ? ? ? 1.616 ? ? covale3 covale both ? B DC 3 "O3'" ? ? ? 1_555 B 8MG 4 P ? ? B DC 9 B 8MG 10 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale4 covale both ? B 8MG 4 "O3'" ? ? ? 1_555 B DC 5 P ? ? B 8MG 10 B DC 11 1_555 ? ? ? ? ? ? ? 1.615 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B 8MG 4 N1 ? ? A DC 3 B 8MG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B 8MG 4 O6 ? ? A DC 3 B 8MG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B 8MG 4 N2 ? ? A DC 3 B 8MG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A 8MG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A 8MG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A 8MG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A 8MG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A 8MG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A 8MG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # 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 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 112.88 108.30 4.58 0.30 N 2 1 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? "O4'" A DG 2 ? ? 116.52 109.80 6.72 1.10 N 3 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 111.94 108.30 3.64 0.30 N 4 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 111.67 108.30 3.37 0.30 N 5 1 "O4'" B DC 7 ? ? "C1'" B DC 7 ? ? N1 B DC 7 ? ? 112.89 108.30 4.59 0.30 N 6 1 "C5'" B DG 8 ? ? "C4'" B DG 8 ? ? "O4'" B DG 8 ? ? 116.52 109.80 6.72 1.10 N 7 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? N1 B DC 9 ? ? 111.97 108.30 3.67 0.30 N 8 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 111.67 108.30 3.37 0.30 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 DG A 2 ? ? 0.063 'SIDE CHAIN' 2 1 DG B 8 ? ? 0.063 'SIDE CHAIN' # 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 8MG 4 A 8MG 4 ? DG ? 2 B 8MG 4 B 8MG 10 ? DG ? # _pdbx_nmr_ensemble.entry_id 1TNE _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? # _pdbx_nmr_software.classification refinement _pdbx_nmr_software.name SPED-REF _pdbx_nmr_software.version ? _pdbx_nmr_software.authors ROBINSON _pdbx_nmr_software.ordinal 1 # 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 8MG P P N N 1 8MG OP3 O N N 2 8MG OP2 O N N 3 8MG "O5'" O N N 4 8MG N9 N Y N 5 8MG C4 C Y N 6 8MG N3 N N N 7 8MG C2 C N N 8 8MG N2 N N N 9 8MG N1 N N N 10 8MG C6 C N N 11 8MG O6 O N N 12 8MG C5 C Y N 13 8MG N7 N Y N 14 8MG C8 C Y N 15 8MG "C2'" C N N 16 8MG "C5'" C N N 17 8MG "C4'" C N R 18 8MG "O4'" O N N 19 8MG "C1'" C N R 20 8MG "C3'" C N S 21 8MG "O3'" O N N 22 8MG C C N N 23 8MG OP1 O N N 24 8MG H3P H N N 25 8MG H2P H N N 26 8MG H21 H N N 27 8MG H22 H N N 28 8MG H1 H N N 29 8MG "H2'" H N N 30 8MG "H2''" H N N 31 8MG "H5'" H N N 32 8MG "H5''" H N N 33 8MG "H4'" H N N 34 8MG "H1'" H N N 35 8MG "H3'" H N N 36 8MG "HO3'" H N N 37 8MG HC1 H N N 38 8MG HC2 H N N 39 8MG HC3 H N N 40 DC OP3 O N N 41 DC P P N N 42 DC OP1 O N N 43 DC OP2 O N N 44 DC "O5'" O N N 45 DC "C5'" C N N 46 DC "C4'" C N R 47 DC "O4'" O N N 48 DC "C3'" C N S 49 DC "O3'" O N N 50 DC "C2'" C N N 51 DC "C1'" C N R 52 DC N1 N N N 53 DC C2 C N N 54 DC O2 O N N 55 DC N3 N N N 56 DC C4 C N N 57 DC N4 N N N 58 DC C5 C N N 59 DC C6 C N N 60 DC HOP3 H N N 61 DC HOP2 H N N 62 DC "H5'" H N N 63 DC "H5''" H N N 64 DC "H4'" H N N 65 DC "H3'" H N N 66 DC "HO3'" H N N 67 DC "H2'" H N N 68 DC "H2''" H N N 69 DC "H1'" H N N 70 DC H41 H N N 71 DC H42 H N N 72 DC H5 H N N 73 DC H6 H N N 74 DG OP3 O N N 75 DG P P N N 76 DG OP1 O N N 77 DG OP2 O N N 78 DG "O5'" O N N 79 DG "C5'" C N N 80 DG "C4'" C N R 81 DG "O4'" O N N 82 DG "C3'" C N S 83 DG "O3'" O N N 84 DG "C2'" C N N 85 DG "C1'" C N R 86 DG N9 N Y N 87 DG C8 C Y N 88 DG N7 N Y N 89 DG C5 C Y N 90 DG C6 C N N 91 DG O6 O N N 92 DG N1 N N N 93 DG C2 C N N 94 DG N2 N N N 95 DG N3 N N N 96 DG C4 C Y N 97 DG HOP3 H N N 98 DG HOP2 H N N 99 DG "H5'" H N N 100 DG "H5''" H N N 101 DG "H4'" H N N 102 DG "H3'" H N N 103 DG "HO3'" H N N 104 DG "H2'" H N N 105 DG "H2''" H N N 106 DG "H1'" H N N 107 DG H8 H N N 108 DG H1 H N N 109 DG H21 H N N 110 DG H22 H N N 111 # 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 8MG P OP3 sing N N 1 8MG P OP2 sing N N 2 8MG P "O5'" sing N N 3 8MG P OP1 doub N N 4 8MG OP3 H3P sing N N 5 8MG OP2 H2P sing N N 6 8MG "O5'" "C5'" sing N N 7 8MG N9 C4 sing Y N 8 8MG N9 C8 sing Y N 9 8MG N9 "C1'" sing N N 10 8MG C4 N3 sing N N 11 8MG C4 C5 doub Y N 12 8MG N3 C2 doub N N 13 8MG C2 N2 sing N N 14 8MG C2 N1 sing N N 15 8MG N2 H21 sing N N 16 8MG N2 H22 sing N N 17 8MG N1 C6 sing N N 18 8MG N1 H1 sing N N 19 8MG C6 O6 doub N N 20 8MG C6 C5 sing N N 21 8MG C5 N7 sing Y N 22 8MG N7 C8 doub Y N 23 8MG C8 C sing N N 24 8MG "C2'" "C1'" sing N N 25 8MG "C2'" "C3'" sing N N 26 8MG "C2'" "H2'" sing N N 27 8MG "C2'" "H2''" sing N N 28 8MG "C5'" "C4'" sing N N 29 8MG "C5'" "H5'" sing N N 30 8MG "C5'" "H5''" sing N N 31 8MG "C4'" "O4'" sing N N 32 8MG "C4'" "C3'" sing N N 33 8MG "C4'" "H4'" sing N N 34 8MG "O4'" "C1'" sing N N 35 8MG "C1'" "H1'" sing N N 36 8MG "C3'" "O3'" sing N N 37 8MG "C3'" "H3'" sing N N 38 8MG "O3'" "HO3'" sing N N 39 8MG C HC1 sing N N 40 8MG C HC2 sing N N 41 8MG C HC3 sing N N 42 DC OP3 P sing N N 43 DC OP3 HOP3 sing N N 44 DC P OP1 doub N N 45 DC P OP2 sing N N 46 DC P "O5'" sing N N 47 DC OP2 HOP2 sing N N 48 DC "O5'" "C5'" sing N N 49 DC "C5'" "C4'" sing N N 50 DC "C5'" "H5'" sing N N 51 DC "C5'" "H5''" sing N N 52 DC "C4'" "O4'" sing N N 53 DC "C4'" "C3'" sing N N 54 DC "C4'" "H4'" sing N N 55 DC "O4'" "C1'" sing N N 56 DC "C3'" "O3'" sing N N 57 DC "C3'" "C2'" sing N N 58 DC "C3'" "H3'" sing N N 59 DC "O3'" "HO3'" sing N N 60 DC "C2'" "C1'" sing N N 61 DC "C2'" "H2'" sing N N 62 DC "C2'" "H2''" sing N N 63 DC "C1'" N1 sing N N 64 DC "C1'" "H1'" sing N N 65 DC N1 C2 sing N N 66 DC N1 C6 sing N N 67 DC C2 O2 doub N N 68 DC C2 N3 sing N N 69 DC N3 C4 doub N N 70 DC C4 N4 sing N N 71 DC C4 C5 sing N N 72 DC N4 H41 sing N N 73 DC N4 H42 sing N N 74 DC C5 C6 doub N N 75 DC C5 H5 sing N N 76 DC C6 H6 sing N 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 # _ndb_struct_conf_na.entry_id 1TNE _ndb_struct_conf_na.feature 'z-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 DC 1 1_555 B DG 6 1_555 0.011 -0.095 -0.012 3.272 2.877 0.962 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B DC 5 1_555 0.054 -0.152 -0.082 -6.311 5.565 0.367 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B 8MG 4 1_555 -0.560 -0.237 -0.065 6.683 10.420 4.104 3 A_DC3:8MG10_B A 3 ? B 10 ? 19 1 1 A 8MG 4 1_555 B DC 3 1_555 0.561 -0.238 -0.064 -6.665 10.428 4.110 4 A_8MG4:DC9_B A 4 ? B 9 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 -0.054 -0.152 -0.081 6.330 5.583 0.359 5 A_DC5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B DC 1 1_555 -0.010 -0.095 -0.011 -3.253 2.903 0.959 6 A_DG6:DC7_B A 6 ? B 7 ? 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 DC 1 1_555 B DG 6 1_555 A DG 2 1_555 B DC 5 1_555 -0.015 5.047 3.406 1.126 -5.529 -6.608 -11.370 4.371 5.802 39.717 8.086 -8.687 1 AA_DC1DG2:DC11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B DC 5 1_555 A DC 3 1_555 B 8MG 4 1_555 -0.074 -0.898 2.756 1.527 -9.494 -49.098 1.627 0.003 2.553 11.300 1.818 -49.974 2 AA_DG2DC3:8MG10DC11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B 8MG 4 1_555 A 8MG 4 1_555 B DC 3 1_555 0.000 5.570 3.806 -0.008 -2.712 -5.727 -30.828 -0.060 5.823 25.353 -0.079 -6.336 3 AA_DC38MG4:DC98MG10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A 8MG 4 1_555 B DC 3 1_555 A DC 5 1_555 B DG 2 1_555 0.074 -0.898 2.756 -1.518 -9.493 -49.106 1.627 -0.003 2.553 11.297 -1.806 -49.981 4 AA_8MG4DC5:DG8DC9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A DC 5 1_555 B DG 2 1_555 A DG 6 1_555 B DC 1 1_555 0.015 5.047 3.406 -1.121 -5.540 -6.612 -11.334 -4.344 5.804 39.755 -8.046 -8.697 5 AA_DC5DG6:DC7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # _atom_sites.entry_id 1TNE _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_ #