data_1D58 # _entry.id 1D58 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 1D58 pdb_00001d58 10.2210/pdb1d58/pdb RCSB DDF036 ? ? WWPDB D_1000172659 ? ? # 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 1992-10-15 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 # _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' # 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' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 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' '_struct_site.pdbx_auth_asym_id' 4 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1D58 _pdbx_database_status.recvd_initial_deposition_date 1992-02-20 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal ;Langlois D'Estaintot, B. ; 1 'Gallois, B.' 2 'Brown, T.' 3 'Hunter, W.N.' 4 # _citation.id primary _citation.title ;The molecular structure of a 4'-epiadriamycin complex with d(TGATCA) at 1.7A resolution: comparison with the structure of 4'-epiadriamycin d(TGTACA) and d(CGATCG) complexes. ; _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 20 _citation.page_first 3561 _citation.page_last 3566 _citation.year 1992 _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 1641324 _citation.pdbx_database_id_DOI 10.1093/nar/20.14.3561 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary ;Langlois d'Estaintot, B. ; 1 ? primary 'Gallois, B.' 2 ? primary 'Brown, T.' 3 ? primary 'Hunter, W.N.' 4 ? # 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(*TP*GP*AP*TP*CP*A)-3') ; 1808.229 1 ? ? ? ? 2 non-polymer syn "4'-EPIDOXORUBICIN" 544.527 1 ? ? ? ? 3 water nat water 18.015 34 ? ? ? ? # _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 '(DT)(DG)(DA)(DT)(DC)(DA)' _entity_poly.pdbx_seq_one_letter_code_can TGATCA _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "4'-EPIDOXORUBICIN" DM6 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DG n 1 3 DA n 1 4 DT n 1 5 DC n 1 6 DA 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 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 DM6 non-polymer . "4'-EPIDOXORUBICIN" "4'-EPIADRIAMYCIN" 'C27 H30 N O11 1' 544.527 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 # 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 DT 1 1 1 DT T A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DT 4 4 4 DT T A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DA 6 6 6 DA A A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 DM6 1 7 7 DM6 DM6 A . C 3 HOH 1 8 8 HOH HOH A . C 3 HOH 2 9 9 HOH HOH A . C 3 HOH 3 10 10 HOH HOH A . C 3 HOH 4 11 11 HOH HOH A . C 3 HOH 5 12 12 HOH HOH A . C 3 HOH 6 13 13 HOH HOH A . C 3 HOH 7 14 14 HOH HOH A . C 3 HOH 8 15 15 HOH HOH A . C 3 HOH 9 16 16 HOH HOH A . C 3 HOH 10 17 17 HOH HOH A . C 3 HOH 11 18 18 HOH HOH A . C 3 HOH 12 19 19 HOH HOH A . C 3 HOH 13 20 20 HOH HOH A . C 3 HOH 14 21 21 HOH HOH A . C 3 HOH 15 22 22 HOH HOH A . C 3 HOH 16 23 23 HOH HOH A . C 3 HOH 17 24 24 HOH HOH A . C 3 HOH 18 25 25 HOH HOH A . C 3 HOH 19 26 26 HOH HOH A . C 3 HOH 20 27 27 HOH HOH A . C 3 HOH 21 28 28 HOH HOH A . C 3 HOH 22 29 29 HOH HOH A . C 3 HOH 23 30 30 HOH HOH A . C 3 HOH 24 31 31 HOH HOH A . C 3 HOH 25 32 32 HOH HOH A . C 3 HOH 26 33 33 HOH HOH A . C 3 HOH 27 34 34 HOH HOH A . C 3 HOH 28 35 35 HOH HOH A . C 3 HOH 29 36 36 HOH HOH A . C 3 HOH 30 37 37 HOH HOH A . C 3 HOH 31 38 38 HOH HOH A . C 3 HOH 32 39 39 HOH HOH A . C 3 HOH 33 40 40 HOH HOH A . C 3 HOH 34 41 41 HOH HOH A . # _software.name X-PLOR _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1D58 _cell.length_a 28.014 _cell.length_b 28.014 _cell.length_c 52.947 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D58 _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 # _exptl.entry_id 1D58 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.87 _exptl_crystal.density_percent_sol 57.18 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 277.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.50 _exptl_crystal_grow.pdbx_details 'pH 6.50, VAPOR DIFFUSION, temperature 277.00K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 'NA CACODYLATE' ? ? ? 1 4 1 'MG ACETATE' ? ? ? 1 5 1 SPERMINE ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 295.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'RIGAKU AFC-5' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU RU200' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1D58 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high 1.700 _reflns.number_obs 5730 _reflns.number_all 10067 _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1D58 _refine.ls_number_reflns_obs 1694 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 7.000 _refine.ls_d_res_high 1.700 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.2020000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2020000 _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 120 _refine_hist.pdbx_number_atoms_ligand 39 _refine_hist.number_atoms_solvent 34 _refine_hist.number_atoms_total 193 _refine_hist.d_res_high 1.700 _refine_hist.d_res_low 7.000 # _database_PDB_matrix.entry_id 1D58 _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 1D58 _struct.title ;THE MOLECULAR STRUCTURE OF A 4'-EPIADRIAMYCIN COMPLEX WITH D(TGATCA) AT 1.7 ANGSTROM RESOLUTION-COMPARISON WITH THE STRUCTURE OF 4'-EPIADRIAMYCIN D(TGTACA) AND D(CGATCG) COMPLEXES ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1D58 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'RIGHT HANDED DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, 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 ? C N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1D58 _struct_ref.pdbx_db_accession 1D58 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1D58 _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 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1D58 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 6 _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 6 # _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 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0.0000000000 -1.0000000000 0.0000000000 28.0140000000 -1.0000000000 0.0000000000 0.0000000000 28.0140000000 0.0000000000 0.0000000000 -1.0000000000 26.4735000000 # _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 hydrog1 hydrog ? ? A DT 1 N3 ? ? ? 1_555 A DA 6 N1 ? ? A DT 1 A DA 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DT 1 O4 ? ? ? 1_555 A DA 6 N6 ? ? A DT 1 A DA 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DA 3 N1 ? ? ? 1_555 A DT 4 N3 ? ? A DA 3 A DT 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N6 ? ? ? 1_555 A DT 4 O4 ? ? A DA 3 A DT 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DT 4 N3 ? ? ? 1_555 A DA 3 N1 ? ? A DT 4 A DA 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 O4 ? ? ? 1_555 A DA 3 N6 ? ? A DT 4 A DA 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 2 N1 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 2 O6 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 2 N2 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 6 N1 ? ? ? 1_555 A DT 1 N3 ? ? A DA 6 A DT 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 6 N6 ? ? ? 1_555 A DT 1 O4 ? ? A DA 6 A DT 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 DM6 7 ? 11 'BINDING SITE FOR RESIDUE DM6 A 7' 1 ? ? ? ? ? ? ? # 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 11 DT A 1 ? DT A 1 . ? 8_665 ? 2 AC1 11 DG A 2 ? DG A 2 . ? 8_665 ? 3 AC1 11 DA A 3 ? DA A 3 . ? 8_665 ? 4 AC1 11 DT A 4 ? DT A 4 . ? 1_555 ? 5 AC1 11 DT A 4 ? DT A 4 . ? 8_665 ? 6 AC1 11 DC A 5 ? DC A 5 . ? 1_555 ? 7 AC1 11 DA A 6 ? DA A 6 . ? 1_555 ? 8 AC1 11 HOH C . ? HOH A 10 . ? 1_555 ? 9 AC1 11 HOH C . ? HOH A 21 . ? 1_555 ? 10 AC1 11 HOH C . ? HOH A 27 . ? 1_555 ? 11 AC1 11 HOH C . ? HOH A 36 . ? 1_555 ? # 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 "O5'" A DG 2 ? ? "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 104.13 109.40 -5.27 0.80 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 116.28 108.30 7.98 0.30 N 3 1 "O5'" A DA 3 ? ? "C5'" A DA 3 ? ? "C4'" A DA 3 ? ? 104.37 109.40 -5.03 0.80 N 4 1 C6 A DA 3 ? ? N1 A DA 3 ? ? C2 A DA 3 ? ? 122.63 118.60 4.03 0.60 N 5 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 122.71 108.30 14.41 0.30 N 6 1 "O5'" A DA 6 ? ? "C5'" A DA 6 ? ? "C4'" A DA 6 ? ? 102.47 109.40 -6.93 0.80 N 7 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 100.65 108.00 -7.35 0.70 N 8 1 N1 A DA 6 ? ? C2 A DA 6 ? ? N3 A DA 6 ? ? 125.81 129.30 -3.49 0.50 N 9 1 C5 A DA 6 ? ? C6 A DA 6 ? ? N1 A DA 6 ? ? 114.68 117.70 -3.02 0.50 N 10 1 N1 A DA 6 ? ? C6 A DA 6 ? ? N6 A DA 6 ? ? 123.10 118.60 4.50 0.60 N # _struct_site_keywords.site_id 1 _struct_site_keywords.text INTERCALATION # loop_ _refine_B_iso.class _refine_B_iso.details _refine_B_iso.treatment _refine_B_iso.pdbx_refine_id 'ALL ATOMS' TR isotropic 'X-RAY DIFFRACTION' 'ALL DRUGS' TR isotropic 'X-RAY DIFFRACTION' 'ALL WATERS' TR isotropic 'X-RAY DIFFRACTION' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL DRUGS' fix 'X-RAY DIFFRACTION' 'ALL WATERS' fix 'X-RAY DIFFRACTION' # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DM6 C1 C Y N 108 DM6 C2 C Y N 109 DM6 C3 C Y N 110 DM6 C4 C Y N 111 DM6 C5 C N N 112 DM6 C6 C Y N 113 DM6 C7 C N S 114 DM6 C8 C N N 115 DM6 C9 C N S 116 DM6 C10 C N N 117 DM6 C11 C Y N 118 DM6 C12 C N N 119 DM6 C13 C N N 120 DM6 C14 C N N 121 DM6 C15 C Y N 122 DM6 C16 C Y N 123 DM6 C17 C Y N 124 DM6 C18 C Y N 125 DM6 C19 C Y N 126 DM6 C20 C Y N 127 DM6 C21 C N N 128 DM6 O4 O N N 129 DM6 O5 O N N 130 DM6 O6 O N N 131 DM6 O7 O N N 132 DM6 O9 O N N 133 DM6 O11 O N N 134 DM6 O12 O N N 135 DM6 O13 O N N 136 DM6 O14 O N N 137 DM6 "C1'" C N R 138 DM6 "C2'" C N N 139 DM6 "C3'" C N S 140 DM6 "C4'" C N R 141 DM6 "C5'" C N S 142 DM6 "C6'" C N N 143 DM6 "O4'" O N N 144 DM6 "O5'" O N N 145 DM6 "N3'" N N N 146 DM6 H1 H N N 147 DM6 H2 H N N 148 DM6 H3 H N N 149 DM6 H7 H N N 150 DM6 H81 H N N 151 DM6 H82 H N N 152 DM6 H101 H N N 153 DM6 H102 H N N 154 DM6 H141 H N N 155 DM6 H142 H N N 156 DM6 H211 H N N 157 DM6 H212 H N N 158 DM6 H213 H N N 159 DM6 HO6 H N N 160 DM6 HO9 H N N 161 DM6 HO11 H N N 162 DM6 HO14 H N N 163 DM6 "H1'" H N N 164 DM6 "H2'1" H N N 165 DM6 "H2'2" H N N 166 DM6 "H3'" H N N 167 DM6 "H4'" H N N 168 DM6 "H5'" H N N 169 DM6 "H6'1" H N N 170 DM6 "H6'2" H N N 171 DM6 "H6'3" H N N 172 DM6 "HO'4" H N N 173 DM6 "HN'1" H N N 174 DM6 "HN'2" H N N 175 DM6 "HN'3" H N N 176 DT OP3 O N N 177 DT P P N N 178 DT OP1 O N N 179 DT OP2 O N N 180 DT "O5'" O N N 181 DT "C5'" C N N 182 DT "C4'" C N R 183 DT "O4'" O N N 184 DT "C3'" C N S 185 DT "O3'" O N N 186 DT "C2'" C N N 187 DT "C1'" C N R 188 DT N1 N N N 189 DT C2 C N N 190 DT O2 O N N 191 DT N3 N N N 192 DT C4 C N N 193 DT O4 O N N 194 DT C5 C N N 195 DT C7 C N N 196 DT C6 C N N 197 DT HOP3 H N N 198 DT HOP2 H N N 199 DT "H5'" H N N 200 DT "H5''" H N N 201 DT "H4'" H N N 202 DT "H3'" H N N 203 DT "HO3'" H N N 204 DT "H2'" H N N 205 DT "H2''" H N N 206 DT "H1'" H N N 207 DT H3 H N N 208 DT H71 H N N 209 DT H72 H N N 210 DT H73 H N N 211 DT H6 H N N 212 HOH O O N N 213 HOH H1 H N N 214 HOH H2 H N N 215 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DM6 C1 C2 doub Y N 113 DM6 C1 C15 sing Y N 114 DM6 C1 H1 sing N N 115 DM6 C2 C3 sing Y N 116 DM6 C2 H2 sing N N 117 DM6 C3 C4 doub Y N 118 DM6 C3 H3 sing N N 119 DM6 C4 C16 sing Y N 120 DM6 C4 O4 sing N N 121 DM6 C5 C16 sing N N 122 DM6 C5 C17 sing N N 123 DM6 C5 O5 doub N N 124 DM6 C6 C17 doub Y N 125 DM6 C6 C20 sing Y N 126 DM6 C6 O6 sing N N 127 DM6 C7 C8 sing N N 128 DM6 C7 C20 sing N N 129 DM6 C7 O7 sing N N 130 DM6 C7 H7 sing N N 131 DM6 C8 C9 sing N N 132 DM6 C8 H81 sing N N 133 DM6 C8 H82 sing N N 134 DM6 C9 C10 sing N N 135 DM6 C9 C13 sing N N 136 DM6 C9 O9 sing N N 137 DM6 C10 C19 sing N N 138 DM6 C10 H101 sing N N 139 DM6 C10 H102 sing N N 140 DM6 C11 C18 doub Y N 141 DM6 C11 C19 sing Y N 142 DM6 C11 O11 sing N N 143 DM6 C12 C15 sing N N 144 DM6 C12 C18 sing N N 145 DM6 C12 O12 doub N N 146 DM6 C13 C14 sing N N 147 DM6 C13 O13 doub N N 148 DM6 C14 O14 sing N N 149 DM6 C14 H141 sing N N 150 DM6 C14 H142 sing N N 151 DM6 C15 C16 doub Y N 152 DM6 C17 C18 sing Y N 153 DM6 C19 C20 doub Y N 154 DM6 C21 O4 sing N N 155 DM6 C21 H211 sing N N 156 DM6 C21 H212 sing N N 157 DM6 C21 H213 sing N N 158 DM6 O6 HO6 sing N N 159 DM6 O7 "C1'" sing N N 160 DM6 O9 HO9 sing N N 161 DM6 O11 HO11 sing N N 162 DM6 O14 HO14 sing N N 163 DM6 "C1'" "C2'" sing N N 164 DM6 "C1'" "O5'" sing N N 165 DM6 "C1'" "H1'" sing N N 166 DM6 "C2'" "C3'" sing N N 167 DM6 "C2'" "H2'1" sing N N 168 DM6 "C2'" "H2'2" sing N N 169 DM6 "C3'" "C4'" sing N N 170 DM6 "C3'" "N3'" sing N N 171 DM6 "C3'" "H3'" sing N N 172 DM6 "C4'" "C5'" sing N N 173 DM6 "C4'" "O4'" sing N N 174 DM6 "C4'" "H4'" sing N N 175 DM6 "C5'" "C6'" sing N N 176 DM6 "C5'" "O5'" sing N N 177 DM6 "C5'" "H5'" sing N N 178 DM6 "C6'" "H6'1" sing N N 179 DM6 "C6'" "H6'2" sing N N 180 DM6 "C6'" "H6'3" sing N N 181 DM6 "O4'" "HO'4" sing N N 182 DM6 "N3'" "HN'1" sing N N 183 DM6 "N3'" "HN'2" sing N N 184 DM6 "N3'" "HN'3" sing N N 185 DT OP3 P sing N N 186 DT OP3 HOP3 sing N N 187 DT P OP1 doub N N 188 DT P OP2 sing N N 189 DT P "O5'" sing N N 190 DT OP2 HOP2 sing N N 191 DT "O5'" "C5'" sing N N 192 DT "C5'" "C4'" sing N N 193 DT "C5'" "H5'" sing N N 194 DT "C5'" "H5''" sing N N 195 DT "C4'" "O4'" sing N N 196 DT "C4'" "C3'" sing N N 197 DT "C4'" "H4'" sing N N 198 DT "O4'" "C1'" sing N N 199 DT "C3'" "O3'" sing N N 200 DT "C3'" "C2'" sing N N 201 DT "C3'" "H3'" sing N N 202 DT "O3'" "HO3'" sing N N 203 DT "C2'" "C1'" sing N N 204 DT "C2'" "H2'" sing N N 205 DT "C2'" "H2''" sing N N 206 DT "C1'" N1 sing N N 207 DT "C1'" "H1'" sing N N 208 DT N1 C2 sing N N 209 DT N1 C6 sing N N 210 DT C2 O2 doub N N 211 DT C2 N3 sing N N 212 DT N3 C4 sing N N 213 DT N3 H3 sing N N 214 DT C4 O4 doub N N 215 DT C4 C5 sing N N 216 DT C5 C7 sing N N 217 DT C5 C6 doub N N 218 DT C7 H71 sing N N 219 DT C7 H72 sing N N 220 DT C7 H73 sing N N 221 DT C6 H6 sing N N 222 HOH O H1 sing N N 223 HOH O H2 sing N N 224 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1D58 'double helix' 1D58 'b-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 DT 1 1_555 A DA 6 8_665 -0.104 -0.211 0.012 8.250 0.544 -0.714 1 A_DT1:DA6_A A 1 ? A 6 ? 20 1 1 A DG 2 1_555 A DC 5 8_665 -0.064 -0.229 -0.261 -14.919 1.507 -1.356 2 A_DG2:DC5_A A 2 ? A 5 ? 19 1 1 A DA 3 1_555 A DT 4 8_665 0.183 -0.153 0.174 -9.697 -1.659 2.866 3 A_DA3:DT4_A A 3 ? A 4 ? 20 1 1 A DT 4 1_555 A DA 3 8_665 -0.183 -0.153 0.174 9.697 -1.659 2.866 4 A_DT4:DA3_A A 4 ? A 3 ? 20 1 1 A DC 5 1_555 A DG 2 8_665 0.064 -0.229 -0.261 14.919 1.507 -1.356 5 A_DC5:DG2_A A 5 ? A 2 ? 19 1 1 A DA 6 1_555 A DT 1 8_665 0.104 -0.211 0.012 -8.250 0.544 -0.714 6 A_DA6:DT1_A A 6 ? A 1 ? 20 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 DT 1 1_555 A DA 6 8_665 A DG 2 1_555 A DC 5 8_665 1.253 1.073 6.976 1.589 -2.260 37.658 2.280 -1.499 6.948 -3.495 -2.457 37.756 1 AA_DT1DG2:DC5DA6_AA A 1 ? A 6 ? A 2 ? A 5 ? 1 A DG 2 1_555 A DC 5 8_665 A DA 3 1_555 A DT 4 8_665 -1.224 0.396 3.309 -6.336 0.160 30.207 0.712 1.006 3.490 0.302 11.993 30.850 2 AA_DG2DA3:DT4DC5_AA A 2 ? A 5 ? A 3 ? A 4 ? 1 A DA 3 1_555 A DT 4 8_665 A DT 4 1_555 A DA 3 8_665 0.000 -0.746 3.008 0.000 3.631 31.110 -2.003 0.000 2.904 6.741 0.000 31.316 3 AA_DA3DT4:DA3DT4_AA A 3 ? A 4 ? A 4 ? A 3 ? 1 A DT 4 1_555 A DA 3 8_665 A DC 5 1_555 A DG 2 8_665 1.224 0.396 3.309 6.336 0.160 30.207 0.712 -1.006 3.490 0.302 -11.993 30.850 4 AA_DT4DC5:DG2DA3_AA A 4 ? A 3 ? A 5 ? A 2 ? 1 A DC 5 1_555 A DG 2 8_665 A DA 6 1_555 A DT 1 8_665 -1.253 1.073 6.976 -1.589 -2.260 37.658 2.280 1.499 6.948 -3.495 2.457 37.756 5 AA_DC5DA6:DT1DG2_AA A 5 ? A 2 ? A 6 ? A 1 ? # _atom_sites.entry_id 1D58 _atom_sites.fract_transf_matrix[1][1] 0.035696 _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] 0.035696 _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] 0.018887 _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 N O P # loop_