data_198D # _entry.id 198D # _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 198D pdb_0000198d 10.2210/pdb198d/pdb RCSB DDF050 ? ? WWPDB D_1000170217 ? ? # 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 1995-03-15 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 198D _pdbx_database_status.recvd_initial_deposition_date 1994-11-28 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _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 'Dautant, A.' 1 ;Langlois D'Estaintot, B. ; 2 'Gallois, B.' 3 'Brown, T.' 4 'Hunter, W.N.' 5 # 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 'A trigonal form of the idarubicin:d(CGATCG) complex; crystal and molecular structure at 2.0 A resolution.' 'Nucleic Acids Res.' 23 1710 1716 1995 NARHAD UK 0305-1048 0389 ? 7784175 10.1093/nar/23.10.1710 1 ;Influence of Aglycone Modifications on the Binding of Anthracycline Drugs to DNA: The Molecular Structure of Idarubicin and 4-O-Demethyl-11-Deoxydoxorubicin Complexed to d(CGATCG) ; 'Anti-Cancer Drug Des.' 6 137 149 1991 ACDDEA UK 0266-9536 0807 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Dautant, A.' 1 ? primary ;Langlois d'Estaintot, B. ; 2 ? primary 'Gallois, B.' 3 ? primary 'Brown, T.' 4 ? primary 'Hunter, W.N.' 5 ? 1 'Gao, Y.-G.' 6 ? 1 'Wang, A.H.-J.' 7 ? # 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(*CP*GP*AP*TP*CP*G)-3') ; 1809.217 4 ? ? ? ? 2 non-polymer syn IDARUBICIN 497.494 4 ? ? ? ? 3 non-polymer syn SPERMINE 202.340 1 ? ? ? ? 4 water nat water 18.015 160 ? ? ? ? # _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 '(DC)(DG)(DA)(DT)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGATCG _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 IDARUBICIN DM5 3 SPERMINE SPM 4 water HOH # 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 DA n 1 4 DT 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 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 DM5 non-polymer . IDARUBICIN 4-DEMETHOXY-DAUNORUBICIN 'C26 H27 N O9' 497.494 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 SPM non-polymer . SPERMINE ? 'C10 H26 N4' 202.340 # 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 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 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 DA 3 9 9 DA A B . n B 1 4 DT 4 10 10 DT T B . n B 1 5 DC 5 11 11 DC C B . n B 1 6 DG 6 12 12 DG G B . n C 1 1 DC 1 13 13 DC C C . n C 1 2 DG 2 14 14 DG G C . n C 1 3 DA 3 15 15 DA A C . n C 1 4 DT 4 16 16 DT T C . n C 1 5 DC 5 17 17 DC C C . n C 1 6 DG 6 18 18 DG G C . n D 1 1 DC 1 19 19 DC C D . n D 1 2 DG 2 20 20 DG G D . n D 1 3 DA 3 21 21 DA A D . n D 1 4 DT 4 22 22 DT T D . n D 1 5 DC 5 23 23 DC C D . n D 1 6 DG 6 24 24 DG G D . 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 E 2 DM5 1 25 25 DM5 DM5 A . F 3 SPM 1 29 29 SPM SPM A . G 2 DM5 1 26 26 DM5 DM5 B . H 2 DM5 1 27 27 DM5 DM5 D . I 2 DM5 1 28 28 DM5 DM5 D . J 4 HOH 1 34 34 HOH HOH A . J 4 HOH 2 38 38 HOH HOH A . J 4 HOH 3 40 40 HOH HOH A . J 4 HOH 4 44 44 HOH HOH A . J 4 HOH 5 46 46 HOH HOH A . J 4 HOH 6 55 55 HOH HOH A . J 4 HOH 7 58 58 HOH HOH A . J 4 HOH 8 74 74 HOH HOH A . J 4 HOH 9 75 75 HOH HOH A . J 4 HOH 10 77 77 HOH HOH A . J 4 HOH 11 78 78 HOH HOH A . J 4 HOH 12 79 79 HOH HOH A . J 4 HOH 13 80 80 HOH HOH A . J 4 HOH 14 92 92 HOH HOH A . J 4 HOH 15 95 95 HOH HOH A . J 4 HOH 16 96 96 HOH HOH A . J 4 HOH 17 97 97 HOH HOH A . J 4 HOH 18 99 99 HOH HOH A . J 4 HOH 19 100 100 HOH HOH A . J 4 HOH 20 101 101 HOH HOH A . J 4 HOH 21 103 103 HOH HOH A . J 4 HOH 22 104 104 HOH HOH A . J 4 HOH 23 106 106 HOH HOH A . J 4 HOH 24 109 109 HOH HOH A . J 4 HOH 25 114 114 HOH HOH A . J 4 HOH 26 115 115 HOH HOH A . J 4 HOH 27 119 119 HOH HOH A . J 4 HOH 28 121 121 HOH HOH A . J 4 HOH 29 122 122 HOH HOH A . J 4 HOH 30 125 125 HOH HOH A . J 4 HOH 31 126 126 HOH HOH A . J 4 HOH 32 127 127 HOH HOH A . J 4 HOH 33 138 138 HOH HOH A . J 4 HOH 34 141 141 HOH HOH A . J 4 HOH 35 143 143 HOH HOH A . J 4 HOH 36 146 146 HOH HOH A . J 4 HOH 37 147 147 HOH HOH A . J 4 HOH 38 148 148 HOH HOH A . J 4 HOH 39 159 159 HOH HOH A . J 4 HOH 40 160 160 HOH HOH A . J 4 HOH 41 164 164 HOH HOH A . J 4 HOH 42 165 165 HOH HOH A . J 4 HOH 43 172 172 HOH HOH A . J 4 HOH 44 175 175 HOH HOH A . J 4 HOH 45 177 177 HOH HOH A . J 4 HOH 46 180 180 HOH HOH A . J 4 HOH 47 187 187 HOH HOH A . K 4 HOH 1 41 41 HOH HOH B . K 4 HOH 2 42 42 HOH HOH B . K 4 HOH 3 43 43 HOH HOH B . K 4 HOH 4 56 56 HOH HOH B . K 4 HOH 5 57 57 HOH HOH B . K 4 HOH 6 60 60 HOH HOH B . K 4 HOH 7 61 61 HOH HOH B . K 4 HOH 8 76 76 HOH HOH B . K 4 HOH 9 82 82 HOH HOH B . K 4 HOH 10 83 83 HOH HOH B . K 4 HOH 11 84 84 HOH HOH B . K 4 HOH 12 88 88 HOH HOH B . K 4 HOH 13 89 89 HOH HOH B . K 4 HOH 14 90 90 HOH HOH B . K 4 HOH 15 91 91 HOH HOH B . K 4 HOH 16 94 94 HOH HOH B . K 4 HOH 17 98 98 HOH HOH B . K 4 HOH 18 102 102 HOH HOH B . K 4 HOH 19 107 107 HOH HOH B . K 4 HOH 20 108 108 HOH HOH B . K 4 HOH 21 116 116 HOH HOH B . K 4 HOH 22 120 120 HOH HOH B . K 4 HOH 23 123 123 HOH HOH B . K 4 HOH 24 124 124 HOH HOH B . K 4 HOH 25 128 128 HOH HOH B . K 4 HOH 26 136 136 HOH HOH B . K 4 HOH 27 139 139 HOH HOH B . K 4 HOH 28 140 140 HOH HOH B . K 4 HOH 29 142 142 HOH HOH B . K 4 HOH 30 152 152 HOH HOH B . K 4 HOH 31 161 161 HOH HOH B . K 4 HOH 32 163 163 HOH HOH B . K 4 HOH 33 167 167 HOH HOH B . K 4 HOH 34 170 170 HOH HOH B . K 4 HOH 35 178 178 HOH HOH B . K 4 HOH 36 184 184 HOH HOH B . K 4 HOH 37 185 185 HOH HOH B . K 4 HOH 38 186 186 HOH HOH B . L 4 HOH 1 30 30 HOH HOH C . L 4 HOH 2 37 37 HOH HOH C . L 4 HOH 3 39 39 HOH HOH C . L 4 HOH 4 47 47 HOH HOH C . L 4 HOH 5 48 48 HOH HOH C . L 4 HOH 6 49 49 HOH HOH C . L 4 HOH 7 50 50 HOH HOH C . L 4 HOH 8 54 54 HOH HOH C . L 4 HOH 9 64 64 HOH HOH C . L 4 HOH 10 65 65 HOH HOH C . L 4 HOH 11 66 66 HOH HOH C . L 4 HOH 12 67 67 HOH HOH C . L 4 HOH 13 68 68 HOH HOH C . L 4 HOH 14 110 110 HOH HOH C . L 4 HOH 15 112 112 HOH HOH C . L 4 HOH 16 117 117 HOH HOH C . L 4 HOH 17 118 118 HOH HOH C . L 4 HOH 18 130 130 HOH HOH C . L 4 HOH 19 131 131 HOH HOH C . L 4 HOH 20 132 132 HOH HOH C . L 4 HOH 21 133 133 HOH HOH C . L 4 HOH 22 135 135 HOH HOH C . L 4 HOH 23 145 145 HOH HOH C . L 4 HOH 24 154 154 HOH HOH C . L 4 HOH 25 155 155 HOH HOH C . L 4 HOH 26 156 156 HOH HOH C . L 4 HOH 27 157 157 HOH HOH C . L 4 HOH 28 166 166 HOH HOH C . L 4 HOH 29 168 168 HOH HOH C . L 4 HOH 30 169 169 HOH HOH C . L 4 HOH 31 171 171 HOH HOH C . L 4 HOH 32 174 174 HOH HOH C . L 4 HOH 33 181 181 HOH HOH C . L 4 HOH 34 182 182 HOH HOH C . L 4 HOH 35 183 183 HOH HOH C . L 4 HOH 36 188 188 HOH HOH C . L 4 HOH 37 189 189 HOH HOH C . M 4 HOH 1 31 31 HOH HOH D . M 4 HOH 2 32 32 HOH HOH D . M 4 HOH 3 33 33 HOH HOH D . M 4 HOH 4 35 35 HOH HOH D . M 4 HOH 5 36 36 HOH HOH D . M 4 HOH 6 45 45 HOH HOH D . M 4 HOH 7 51 51 HOH HOH D . M 4 HOH 8 52 52 HOH HOH D . M 4 HOH 9 53 53 HOH HOH D . M 4 HOH 10 59 59 HOH HOH D . M 4 HOH 11 62 62 HOH HOH D . M 4 HOH 12 63 63 HOH HOH D . M 4 HOH 13 69 69 HOH HOH D . M 4 HOH 14 70 70 HOH HOH D . M 4 HOH 15 71 71 HOH HOH D . M 4 HOH 16 72 72 HOH HOH D . M 4 HOH 17 73 73 HOH HOH D . M 4 HOH 18 81 81 HOH HOH D . M 4 HOH 19 85 85 HOH HOH D . M 4 HOH 20 86 86 HOH HOH D . M 4 HOH 21 87 87 HOH HOH D . M 4 HOH 22 93 93 HOH HOH D . M 4 HOH 23 105 105 HOH HOH D . M 4 HOH 24 111 111 HOH HOH D . M 4 HOH 25 113 113 HOH HOH D . M 4 HOH 26 129 129 HOH HOH D . M 4 HOH 27 134 134 HOH HOH D . M 4 HOH 28 137 137 HOH HOH D . M 4 HOH 29 144 144 HOH HOH D . M 4 HOH 30 149 149 HOH HOH D . M 4 HOH 31 150 150 HOH HOH D . M 4 HOH 32 151 151 HOH HOH D . M 4 HOH 33 153 153 HOH HOH D . M 4 HOH 34 158 158 HOH HOH D . M 4 HOH 35 162 162 HOH HOH D . M 4 HOH 36 173 173 HOH HOH D . M 4 HOH 37 176 176 HOH HOH D . M 4 HOH 38 179 179 HOH HOH D . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 198D _cell.length_a 52.996 _cell.length_b 52.996 _cell.length_c 33.065 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 198D _symmetry.space_group_name_H-M 'P 31' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 # _exptl.entry_id 198D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.70 _exptl_crystal.density_percent_sol 66.80 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _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, SITTING DROP, 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 MGCL2 ? ? ? 1 4 1 'NA CACODYLATE' ? ? ? 1 5 1 SPERMINE_HCL ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 298.00 _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 198D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 2.000 _reflns.number_obs ? _reflns.number_all 7276 _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 198D _refine.ls_number_reflns_obs 3768 _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 18.000 _refine.ls_d_res_high 1.970 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1880000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _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 480 _refine_hist.pdbx_number_atoms_ligand 158 _refine_hist.number_atoms_solvent 160 _refine_hist.number_atoms_total 798 _refine_hist.d_res_high 1.970 _refine_hist.d_res_low 18.000 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function n_bond_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_planar_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_hb_or_metal_coord ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_angle_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_angle_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_bond_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_dihedral_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_impr_tor ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_d 0.025 0.025 ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_angle_d 0.040 0.040 ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_d 0.068 0.035 ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_angle_d 0.037 0.045 ? ? 'X-RAY DIFFRACTION' ? n_plane_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_chiral_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_singtor_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? n_multtor_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? n_xhyhbond_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 198D _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 198D _struct.title 'A TRIGONAL FORM OF THE IDARUBICIN-D(CGATCG) COMPLEX: CRYSTAL AND MOLECULAR STRUCTURE AT 2.0 ANGSTROMS RESOLUTION' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 198D _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 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 2 ? H N N 2 ? I N N 2 ? J N N 4 ? K N N 4 ? L N N 4 ? M N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 198D _struct_ref.pdbx_db_accession 198D _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 198D A 1 ? 6 ? 198D 1 ? 6 ? 1 6 2 1 198D B 1 ? 6 ? 198D 7 ? 12 ? 7 12 3 1 198D C 1 ? 6 ? 198D 13 ? 18 ? 13 18 4 1 198D D 1 ? 6 ? 198D 19 ? 24 ? 19 24 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F,G,J,K 2 1 C,D,H,I,L,M # _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_ _struct_biol.id 1 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 _struct_conn.pdbx_role 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 DA 3 N1 ? ? ? 1_555 B DT 4 N3 ? ? A DA 3 B DT 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 3 B DT 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 3 N1 ? ? A DT 4 B DA 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 3 N6 ? ? A DT 4 B DA 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? C DC 1 N3 ? ? ? 1_555 D DG 6 N1 ? ? C DC 13 D DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C DC 1 N4 ? ? ? 1_555 D DG 6 O6 ? ? C DC 13 D DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C DC 1 O2 ? ? ? 1_555 D DG 6 N2 ? ? C DC 13 D DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C DG 2 N1 ? ? ? 1_555 D DC 5 N3 ? ? C DG 14 D DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C DG 2 N2 ? ? ? 1_555 D DC 5 O2 ? ? C DG 14 D DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C DG 2 O6 ? ? ? 1_555 D DC 5 N4 ? ? C DG 14 D DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C DA 3 N1 ? ? ? 1_555 D DT 4 N3 ? ? C DA 15 D DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C DA 3 N6 ? ? ? 1_555 D DT 4 O4 ? ? C DA 15 D DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C DT 4 N3 ? ? ? 1_555 D DA 3 N1 ? ? C DT 16 D DA 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C DT 4 O4 ? ? ? 1_555 D DA 3 N6 ? ? C DT 16 D DA 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C DC 5 N3 ? ? ? 1_555 D DG 2 N1 ? ? C DC 17 D DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C DC 5 N4 ? ? ? 1_555 D DG 2 O6 ? ? C DC 17 D DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C DC 5 O2 ? ? ? 1_555 D DG 2 N2 ? ? C DC 17 D DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C DG 6 N1 ? ? ? 1_555 D DC 1 N3 ? ? C DG 18 D DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C DG 6 N2 ? ? ? 1_555 D DC 1 O2 ? ? C DG 18 D DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C DG 6 O6 ? ? ? 1_555 D DC 1 N4 ? ? C DG 18 D DC 19 1_555 ? ? ? ? ? ? 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 DM5 25 ? 12 'BINDING SITE FOR RESIDUE DM5 A 25' AC2 Software B DM5 26 ? 8 'BINDING SITE FOR RESIDUE DM5 B 26' AC3 Software D DM5 27 ? 10 'BINDING SITE FOR RESIDUE DM5 D 27' AC4 Software D DM5 28 ? 7 'BINDING SITE FOR RESIDUE DM5 D 28' AC5 Software A SPM 29 ? 9 'BINDING SITE FOR RESIDUE SPM A 29' 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 12 DC A 1 ? DC A 1 . ? 3_664 ? 2 AC1 12 DT A 4 ? DT A 4 . ? 1_555 ? 3 AC1 12 DC A 5 ? DC A 5 . ? 1_555 ? 4 AC1 12 DG A 6 ? DG A 6 . ? 1_555 ? 5 AC1 12 HOH J . ? HOH A 44 . ? 1_555 ? 6 AC1 12 DC B 1 ? DC B 7 . ? 1_555 ? 7 AC1 12 DG B 2 ? DG B 8 . ? 1_555 ? 8 AC1 12 DA B 3 ? DA B 9 . ? 1_555 ? 9 AC1 12 DG B 6 ? DG B 12 . ? 3_664 ? 10 AC1 12 HOH K . ? HOH B 98 . ? 1_555 ? 11 AC1 12 DG C 6 ? DG C 18 . ? 3_664 ? 12 AC1 12 HOH L . ? HOH C 47 . ? 3_664 ? 13 AC2 8 DC A 1 ? DC A 1 . ? 1_555 ? 14 AC2 8 DG A 2 ? DG A 2 . ? 1_555 ? 15 AC2 8 DA A 3 ? DA A 3 . ? 1_555 ? 16 AC2 8 HOH J . ? HOH A 95 . ? 2_655 ? 17 AC2 8 DG B 2 ? DG B 8 . ? 2_655 ? 18 AC2 8 DT B 4 ? DT B 10 . ? 1_555 ? 19 AC2 8 DC B 5 ? DC B 11 . ? 1_555 ? 20 AC2 8 DG B 6 ? DG B 12 . ? 1_555 ? 21 AC3 10 DG A 6 ? DG A 6 . ? 2_655 ? 22 AC3 10 DT C 4 ? DT C 16 . ? 1_555 ? 23 AC3 10 DC C 5 ? DC C 17 . ? 1_555 ? 24 AC3 10 DG C 6 ? DG C 18 . ? 1_555 ? 25 AC3 10 DC D 1 ? DC D 19 . ? 1_555 ? 26 AC3 10 DG D 2 ? DG D 20 . ? 1_555 ? 27 AC3 10 DA D 3 ? DA D 21 . ? 1_555 ? 28 AC3 10 DG D 6 ? DG D 24 . ? 2_665 ? 29 AC3 10 HOH M . ? HOH D 33 . ? 1_555 ? 30 AC3 10 HOH M . ? HOH D 81 . ? 1_555 ? 31 AC4 7 DC C 1 ? DC C 13 . ? 1_555 ? 32 AC4 7 DG C 2 ? DG C 14 . ? 1_555 ? 33 AC4 7 HOH L . ? HOH C 154 . ? 1_555 ? 34 AC4 7 DG D 2 ? DG D 20 . ? 3_564 ? 35 AC4 7 DC D 5 ? DC D 23 . ? 1_555 ? 36 AC4 7 DG D 6 ? DG D 24 . ? 1_555 ? 37 AC4 7 HOH M . ? HOH D 33 . ? 3_564 ? 38 AC5 9 DC A 1 ? DC A 1 . ? 3_664 ? 39 AC5 9 DA A 3 ? DA A 3 . ? 1_555 ? 40 AC5 9 DT A 4 ? DT A 4 . ? 1_555 ? 41 AC5 9 DC A 5 ? DC A 5 . ? 1_555 ? 42 AC5 9 DG A 6 ? DG A 6 . ? 1_555 ? 43 AC5 9 HOH J . ? HOH A 95 . ? 1_555 ? 44 AC5 9 DC C 5 ? DC C 17 . ? 3_664 ? 45 AC5 9 DG C 6 ? DG C 18 . ? 3_664 ? 46 AC5 9 HOH M . ? HOH D 81 . ? 3_664 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 C6 A DG 2 ? ? N1 A DG 2 ? ? 1.341 1.391 -0.050 0.007 N 2 1 C5 A DT 4 ? ? C6 A DT 4 ? ? 1.383 1.339 0.044 0.007 N 3 1 "C5'" A DC 5 ? ? "C4'" A DC 5 ? ? 1.558 1.512 0.046 0.007 N 4 1 "C5'" A DG 6 ? ? "C4'" A DG 6 ? ? 1.588 1.512 0.076 0.007 N 5 1 N1 A DG 6 ? ? C2 A DG 6 ? ? 1.318 1.373 -0.055 0.008 N 6 1 C2 B DG 8 ? ? N3 B DG 8 ? ? 1.272 1.323 -0.051 0.008 N 7 1 "O4'" B DT 10 ? ? "C1'" B DT 10 ? ? 1.488 1.420 0.068 0.011 N 8 1 C2 C DT 16 ? ? O2 C DT 16 ? ? 1.275 1.220 0.055 0.008 N 9 1 C4 C DT 16 ? ? O4 C DT 16 ? ? 1.288 1.228 0.060 0.009 N 10 1 "O4'" C DC 17 ? ? "C4'" C DC 17 ? ? 1.385 1.446 -0.061 0.010 N 11 1 C5 C DG 18 ? ? N7 C DG 18 ? ? 1.427 1.388 0.039 0.006 N 12 1 N3 D DA 21 ? ? C4 D DA 21 ? ? 1.382 1.344 0.038 0.006 N 13 1 "C5'" D DT 22 ? ? "C4'" D DT 22 ? ? 1.559 1.512 0.047 0.007 N 14 1 "O4'" D DC 23 ? ? "C1'" D DC 23 ? ? 1.494 1.420 0.074 0.011 N # 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 ? ? "C2'" A DC 1 ? ? 110.12 106.80 3.32 0.50 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.17 108.30 2.87 0.30 N 3 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 115.31 108.30 7.01 0.30 N 4 1 C6 A DA 3 ? ? N1 A DA 3 ? ? C2 A DA 3 ? ? 122.54 118.60 3.94 0.60 N 5 1 N1 A DA 3 ? ? C2 A DA 3 ? ? N3 A DA 3 ? ? 125.06 129.30 -4.24 0.50 N 6 1 "C3'" A DA 3 ? ? "O3'" A DA 3 ? ? P A DT 4 ? ? 129.41 119.70 9.71 1.20 Y 7 1 "C3'" A DT 4 ? ? "O3'" A DT 4 ? ? P A DC 5 ? ? 129.29 119.70 9.59 1.20 Y 8 1 "O5'" A DC 5 ? ? "C5'" A DC 5 ? ? "C4'" A DC 5 ? ? 104.45 109.40 -4.95 0.80 N 9 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 117.33 108.30 9.03 0.30 N 10 1 "O4'" B DC 7 ? ? "C1'" B DC 7 ? ? N1 B DC 7 ? ? 112.83 108.30 4.53 0.30 N 11 1 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 112.42 108.30 4.12 0.30 N 12 1 C4 B DG 8 ? ? C5 B DG 8 ? ? N7 B DG 8 ? ? 107.67 110.80 -3.13 0.40 N 13 1 C8 B DG 8 ? ? N9 B DG 8 ? ? C4 B DG 8 ? ? 102.89 106.40 -3.51 0.40 N 14 1 N9 B DG 8 ? ? C4 B DG 8 ? ? C5 B DG 8 ? ? 109.46 105.40 4.06 0.40 N 15 1 N3 B DG 8 ? ? C2 B DG 8 ? ? N2 B DG 8 ? ? 115.58 119.90 -4.32 0.70 N 16 1 N1 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 115.86 119.90 -4.04 0.60 N 17 1 C5 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 132.34 128.60 3.74 0.60 N 18 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 114.91 108.30 6.61 0.30 N 19 1 N3 B DC 11 ? ? C4 B DC 11 ? ? C5 B DC 11 ? ? 119.07 121.90 -2.83 0.40 N 20 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 118.58 108.30 10.28 0.30 N 21 1 "O4'" C DC 13 ? ? "C4'" C DC 13 ? ? "C3'" C DC 13 ? ? 110.55 106.00 4.55 0.60 N 22 1 "O4'" C DG 14 ? ? "C1'" C DG 14 ? ? "C2'" C DG 14 ? ? 100.92 105.90 -4.98 0.80 N 23 1 "O4'" C DG 14 ? ? "C1'" C DG 14 ? ? N9 C DG 14 ? ? 117.83 108.30 9.53 0.30 N 24 1 C6 C DG 14 ? ? N1 C DG 14 ? ? C2 C DG 14 ? ? 121.21 125.10 -3.89 0.60 N 25 1 N1 C DG 14 ? ? C2 C DG 14 ? ? N3 C DG 14 ? ? 128.22 123.90 4.32 0.60 N 26 1 C4 C DG 14 ? ? C5 C DG 14 ? ? N7 C DG 14 ? ? 107.95 110.80 -2.85 0.40 N 27 1 C8 C DG 14 ? ? N9 C DG 14 ? ? C4 C DG 14 ? ? 103.51 106.40 -2.89 0.40 N 28 1 N9 C DG 14 ? ? C4 C DG 14 ? ? C5 C DG 14 ? ? 109.61 105.40 4.21 0.40 N 29 1 "O4'" C DA 15 ? ? "C1'" C DA 15 ? ? N9 C DA 15 ? ? 110.53 108.30 2.23 0.30 N 30 1 C6 C DA 15 ? ? N1 C DA 15 ? ? C2 C DA 15 ? ? 123.75 118.60 5.15 0.60 N 31 1 N1 C DA 15 ? ? C2 C DA 15 ? ? N3 C DA 15 ? ? 124.40 129.30 -4.90 0.50 N 32 1 C5 C DA 15 ? ? C6 C DA 15 ? ? N1 C DA 15 ? ? 114.22 117.70 -3.48 0.50 N 33 1 N1 C DA 15 ? ? C6 C DA 15 ? ? N6 C DA 15 ? ? 123.74 118.60 5.14 0.60 N 34 1 "C3'" C DA 15 ? ? "O3'" C DA 15 ? ? P C DT 16 ? ? 130.46 119.70 10.76 1.20 Y 35 1 "C1'" C DT 16 ? ? "O4'" C DT 16 ? ? "C4'" C DT 16 ? ? 115.19 110.30 4.89 0.70 N 36 1 "O4'" C DT 16 ? ? "C1'" C DT 16 ? ? N1 C DT 16 ? ? 111.63 108.30 3.33 0.30 N 37 1 N1 C DT 16 ? ? C2 C DT 16 ? ? N3 C DT 16 ? ? 118.63 114.60 4.03 0.60 N 38 1 C2 C DT 16 ? ? N3 C DT 16 ? ? C4 C DT 16 ? ? 122.06 127.20 -5.14 0.60 N 39 1 N3 C DT 16 ? ? C4 C DT 16 ? ? C5 C DT 16 ? ? 119.86 115.20 4.66 0.60 N 40 1 C4 C DT 16 ? ? C5 C DT 16 ? ? C7 C DT 16 ? ? 123.05 119.00 4.05 0.60 N 41 1 C6 C DT 16 ? ? C5 C DT 16 ? ? C7 C DT 16 ? ? 118.91 122.90 -3.99 0.60 N 42 1 "C3'" C DT 16 ? ? "O3'" C DT 16 ? ? P C DC 17 ? ? 128.90 119.70 9.20 1.20 Y 43 1 "O4'" C DC 17 ? ? "C1'" C DC 17 ? ? N1 C DC 17 ? ? 125.21 108.30 16.91 0.30 N 44 1 C2 C DC 17 ? ? N3 C DC 17 ? ? C4 C DC 17 ? ? 124.39 119.90 4.49 0.50 N 45 1 N3 C DC 17 ? ? C4 C DC 17 ? ? C5 C DC 17 ? ? 118.45 121.90 -3.45 0.40 N 46 1 N1 C DC 17 ? ? C2 C DC 17 ? ? O2 C DC 17 ? ? 124.24 118.90 5.34 0.60 N 47 1 "C1'" C DG 18 ? ? "O4'" C DG 18 ? ? "C4'" C DG 18 ? ? 115.01 110.30 4.71 0.70 N 48 1 N3 C DG 18 ? ? C4 C DG 18 ? ? C5 C DG 18 ? ? 125.58 128.60 -3.02 0.50 N 49 1 N9 C DG 18 ? ? C4 C DG 18 ? ? C5 C DG 18 ? ? 108.60 105.40 3.20 0.40 N 50 1 "O4'" D DC 19 ? ? "C1'" D DC 19 ? ? N1 D DC 19 ? ? 114.17 108.30 5.87 0.30 N 51 1 C2 D DC 19 ? ? N3 D DC 19 ? ? C4 D DC 19 ? ? 124.06 119.90 4.16 0.50 N 52 1 N3 D DC 19 ? ? C4 D DC 19 ? ? C5 D DC 19 ? ? 118.48 121.90 -3.42 0.40 N 53 1 "O4'" D DG 20 ? ? "C1'" D DG 20 ? ? N9 D DG 20 ? ? 112.88 108.30 4.58 0.30 N 54 1 "O4'" D DA 21 ? ? "C1'" D DA 21 ? ? N9 D DA 21 ? ? 113.41 108.30 5.11 0.30 N 55 1 C6 D DA 21 ? ? N1 D DA 21 ? ? C2 D DA 21 ? ? 123.15 118.60 4.55 0.60 N 56 1 C5 D DA 21 ? ? C6 D DA 21 ? ? N1 D DA 21 ? ? 113.40 117.70 -4.30 0.50 N 57 1 N9 D DA 21 ? ? C4 D DA 21 ? ? C5 D DA 21 ? ? 109.11 105.80 3.31 0.40 N 58 1 N3 D DT 22 ? ? C2 D DT 22 ? ? O2 D DT 22 ? ? 118.04 122.30 -4.26 0.60 N 59 1 N3 D DT 22 ? ? C4 D DT 22 ? ? O4 D DT 22 ? ? 115.23 119.90 -4.67 0.60 N 60 1 "O4'" D DC 23 ? ? "C4'" D DC 23 ? ? "C3'" D DC 23 ? ? 112.16 106.00 6.16 0.60 N 61 1 "O4'" D DC 23 ? ? "C1'" D DC 23 ? ? N1 D DC 23 ? ? 116.72 108.30 8.42 0.30 N 62 1 "C3'" D DC 23 ? ? "O3'" D DC 23 ? ? P D DG 24 ? ? 127.50 119.70 7.80 1.20 Y 63 1 "O4'" D DG 24 ? ? "C4'" D DG 24 ? ? "C3'" D DG 24 ? ? 100.99 104.50 -3.51 0.40 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id C _pdbx_validate_planes.auth_seq_id 17 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.069 _pdbx_validate_planes.type 'SIDE CHAIN' # _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 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 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 DM5 C1 C Y N 108 DM5 C2 C Y N 109 DM5 C3 C Y N 110 DM5 C4 C Y N 111 DM5 C5 C Y N 112 DM5 C6 C N N 113 DM5 O6 O N N 114 DM5 C7 C Y N 115 DM5 C8 C Y N 116 DM5 O8 O N N 117 DM5 C9 C Y N 118 DM5 C10 C N S 119 DM5 O10 O N N 120 DM5 C11 C N N 121 DM5 C12 C N S 122 DM5 O12 O N N 123 DM5 C13 C N N 124 DM5 O13 O N N 125 DM5 C14 C N N 126 DM5 C15 C N N 127 DM5 C16 C Y N 128 DM5 C17 C Y N 129 DM5 O17 O N N 130 DM5 C18 C Y N 131 DM5 C19 C N N 132 DM5 O19 O N N 133 DM5 C20 C Y N 134 DM5 "C1'" C N R 135 DM5 "C2'" C N N 136 DM5 "C3'" C N S 137 DM5 "N3'" N N N 138 DM5 "C4'" C N S 139 DM5 "O4'" O N N 140 DM5 "C5'" C N S 141 DM5 "O5'" O N N 142 DM5 "C6'" C N N 143 DM5 H1 H N N 144 DM5 H2 H N N 145 DM5 H3 H N N 146 DM5 H4 H N N 147 DM5 HO8 H N N 148 DM5 H10 H N N 149 DM5 H111 H N N 150 DM5 H112 H N N 151 DM5 HO12 H N N 152 DM5 H141 H N N 153 DM5 H142 H N N 154 DM5 H143 H N N 155 DM5 H151 H N N 156 DM5 H152 H N N 157 DM5 HO17 H N N 158 DM5 "H1'" H N N 159 DM5 "H2'1" H N N 160 DM5 "H2'2" H N N 161 DM5 "H3'" H N N 162 DM5 "HN'1" H N N 163 DM5 "HN'2" H N N 164 DM5 "H4'" H N N 165 DM5 "HO4'" H N N 166 DM5 "H5'" H N N 167 DM5 "H6'1" H N N 168 DM5 "H6'2" H N N 169 DM5 "H6'3" H N N 170 DT OP3 O N N 171 DT P P N N 172 DT OP1 O N N 173 DT OP2 O N N 174 DT "O5'" O N N 175 DT "C5'" C N N 176 DT "C4'" C N R 177 DT "O4'" O N N 178 DT "C3'" C N S 179 DT "O3'" O N N 180 DT "C2'" C N N 181 DT "C1'" C N R 182 DT N1 N N N 183 DT C2 C N N 184 DT O2 O N N 185 DT N3 N N N 186 DT C4 C N N 187 DT O4 O N N 188 DT C5 C N N 189 DT C7 C N N 190 DT C6 C N N 191 DT HOP3 H N N 192 DT HOP2 H N N 193 DT "H5'" H N N 194 DT "H5''" H N N 195 DT "H4'" H N N 196 DT "H3'" H N N 197 DT "HO3'" H N N 198 DT "H2'" H N N 199 DT "H2''" H N N 200 DT "H1'" H N N 201 DT H3 H N N 202 DT H71 H N N 203 DT H72 H N N 204 DT H73 H N N 205 DT H6 H N N 206 HOH O O N N 207 HOH H1 H N N 208 HOH H2 H N N 209 SPM N1 N N N 210 SPM C2 C N N 211 SPM C3 C N N 212 SPM C4 C N N 213 SPM N5 N N N 214 SPM C6 C N N 215 SPM C7 C N N 216 SPM C8 C N N 217 SPM C9 C N N 218 SPM N10 N N N 219 SPM C11 C N N 220 SPM C12 C N N 221 SPM C13 C N N 222 SPM N14 N N N 223 SPM HN11 H N N 224 SPM HN12 H N N 225 SPM H21 H N N 226 SPM H22 H N N 227 SPM H31 H N N 228 SPM H32 H N N 229 SPM H41 H N N 230 SPM H42 H N N 231 SPM HN5 H N N 232 SPM H61 H N N 233 SPM H62 H N N 234 SPM H71 H N N 235 SPM H72 H N N 236 SPM H81 H N N 237 SPM H82 H N N 238 SPM H91 H N N 239 SPM H92 H N N 240 SPM HN0 H N N 241 SPM H111 H N N 242 SPM H112 H N N 243 SPM H121 H N N 244 SPM H122 H N N 245 SPM H131 H N N 246 SPM H132 H N N 247 SPM HN41 H N N 248 SPM HN42 H N N 249 # 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 DM5 C1 C2 doub Y N 113 DM5 C1 C20 sing Y N 114 DM5 C1 H1 sing N N 115 DM5 C2 C3 sing Y N 116 DM5 C2 H2 sing N N 117 DM5 C3 C4 doub Y N 118 DM5 C3 H3 sing N N 119 DM5 C4 C5 sing Y N 120 DM5 C4 H4 sing N N 121 DM5 C5 C6 sing N N 122 DM5 C5 C20 doub Y N 123 DM5 C6 O6 doub N N 124 DM5 C6 C7 sing N N 125 DM5 C7 C8 doub Y N 126 DM5 C7 C18 sing Y N 127 DM5 C8 O8 sing N N 128 DM5 C8 C9 sing Y N 129 DM5 O8 HO8 sing N N 130 DM5 C9 C10 sing N N 131 DM5 C9 C16 doub Y N 132 DM5 C10 O10 sing N N 133 DM5 C10 C11 sing N N 134 DM5 C10 H10 sing N N 135 DM5 O10 "C1'" sing N N 136 DM5 C11 C12 sing N N 137 DM5 C11 H111 sing N N 138 DM5 C11 H112 sing N N 139 DM5 C12 O12 sing N N 140 DM5 C12 C13 sing N N 141 DM5 C12 C15 sing N N 142 DM5 O12 HO12 sing N N 143 DM5 C13 O13 doub N N 144 DM5 C13 C14 sing N N 145 DM5 C14 H141 sing N N 146 DM5 C14 H142 sing N N 147 DM5 C14 H143 sing N N 148 DM5 C15 C16 sing N N 149 DM5 C15 H151 sing N N 150 DM5 C15 H152 sing N N 151 DM5 C16 C17 sing Y N 152 DM5 C17 O17 sing N N 153 DM5 C17 C18 doub Y N 154 DM5 O17 HO17 sing N N 155 DM5 C18 C19 sing N N 156 DM5 C19 O19 doub N N 157 DM5 C19 C20 sing N N 158 DM5 "C1'" "C2'" sing N N 159 DM5 "C1'" "O5'" sing N N 160 DM5 "C1'" "H1'" sing N N 161 DM5 "C2'" "C3'" sing N N 162 DM5 "C2'" "H2'1" sing N N 163 DM5 "C2'" "H2'2" sing N N 164 DM5 "C3'" "N3'" sing N N 165 DM5 "C3'" "C4'" sing N N 166 DM5 "C3'" "H3'" sing N N 167 DM5 "N3'" "HN'1" sing N N 168 DM5 "N3'" "HN'2" sing N N 169 DM5 "C4'" "O4'" sing N N 170 DM5 "C4'" "C5'" sing N N 171 DM5 "C4'" "H4'" sing N N 172 DM5 "O4'" "HO4'" sing N N 173 DM5 "C5'" "O5'" sing N N 174 DM5 "C5'" "C6'" sing N N 175 DM5 "C5'" "H5'" sing N N 176 DM5 "C6'" "H6'1" sing N N 177 DM5 "C6'" "H6'2" sing N N 178 DM5 "C6'" "H6'3" sing N N 179 DT OP3 P sing N N 180 DT OP3 HOP3 sing N N 181 DT P OP1 doub N N 182 DT P OP2 sing N N 183 DT P "O5'" sing N N 184 DT OP2 HOP2 sing N N 185 DT "O5'" "C5'" sing N N 186 DT "C5'" "C4'" sing N N 187 DT "C5'" "H5'" sing N N 188 DT "C5'" "H5''" sing N N 189 DT "C4'" "O4'" sing N N 190 DT "C4'" "C3'" sing N N 191 DT "C4'" "H4'" sing N N 192 DT "O4'" "C1'" sing N N 193 DT "C3'" "O3'" sing N N 194 DT "C3'" "C2'" sing N N 195 DT "C3'" "H3'" sing N N 196 DT "O3'" "HO3'" sing N N 197 DT "C2'" "C1'" sing N N 198 DT "C2'" "H2'" sing N N 199 DT "C2'" "H2''" sing N N 200 DT "C1'" N1 sing N N 201 DT "C1'" "H1'" sing N N 202 DT N1 C2 sing N N 203 DT N1 C6 sing N N 204 DT C2 O2 doub N N 205 DT C2 N3 sing N N 206 DT N3 C4 sing N N 207 DT N3 H3 sing N N 208 DT C4 O4 doub N N 209 DT C4 C5 sing N N 210 DT C5 C7 sing N N 211 DT C5 C6 doub N N 212 DT C7 H71 sing N N 213 DT C7 H72 sing N N 214 DT C7 H73 sing N N 215 DT C6 H6 sing N N 216 HOH O H1 sing N N 217 HOH O H2 sing N N 218 SPM N1 C2 sing N N 219 SPM N1 HN11 sing N N 220 SPM N1 HN12 sing N N 221 SPM C2 C3 sing N N 222 SPM C2 H21 sing N N 223 SPM C2 H22 sing N N 224 SPM C3 C4 sing N N 225 SPM C3 H31 sing N N 226 SPM C3 H32 sing N N 227 SPM C4 N5 sing N N 228 SPM C4 H41 sing N N 229 SPM C4 H42 sing N N 230 SPM N5 C6 sing N N 231 SPM N5 HN5 sing N N 232 SPM C6 C7 sing N N 233 SPM C6 H61 sing N N 234 SPM C6 H62 sing N N 235 SPM C7 C8 sing N N 236 SPM C7 H71 sing N N 237 SPM C7 H72 sing N N 238 SPM C8 C9 sing N N 239 SPM C8 H81 sing N N 240 SPM C8 H82 sing N N 241 SPM C9 N10 sing N N 242 SPM C9 H91 sing N N 243 SPM C9 H92 sing N N 244 SPM N10 C11 sing N N 245 SPM N10 HN0 sing N N 246 SPM C11 C12 sing N N 247 SPM C11 H111 sing N N 248 SPM C11 H112 sing N N 249 SPM C12 C13 sing N N 250 SPM C12 H121 sing N N 251 SPM C12 H122 sing N N 252 SPM C13 N14 sing N N 253 SPM C13 H131 sing N N 254 SPM C13 H132 sing N N 255 SPM N14 HN41 sing N N 256 SPM N14 HN42 sing N N 257 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 198D 'double helix' 198D '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 B DC 1 1_555 A DG 6 1_555 -0.122 -0.199 -0.258 10.020 2.785 -4.696 1 B_DC7:DG6_A B 7 ? A 6 ? 19 1 1 B DG 2 1_555 A DC 5 1_555 -0.159 -0.133 -0.357 -15.917 0.325 3.027 2 B_DG8:DC5_A B 8 ? A 5 ? 19 1 1 B DA 3 1_555 A DT 4 1_555 0.089 -0.232 -0.251 -5.124 -9.339 0.928 3 B_DA9:DT4_A B 9 ? A 4 ? 20 1 1 B DT 4 1_555 A DA 3 1_555 -0.354 -0.216 0.278 -2.573 -9.119 3.487 4 B_DT10:DA3_A B 10 ? A 3 ? 20 1 1 B DC 5 1_555 A DG 2 1_555 0.209 -0.219 -0.454 19.325 -2.285 -1.699 5 B_DC11:DG2_A B 11 ? A 2 ? 19 1 1 B DG 6 1_555 A DC 1 1_555 -0.059 -0.114 -0.055 -6.693 -1.889 3.018 6 B_DG12:DC1_A B 12 ? A 1 ? 19 1 1 D DC 1 1_555 C DG 6 1_555 0.151 -0.215 -0.195 11.208 1.934 -4.330 7 D_DC19:DG18_C D 19 ? C 18 ? 19 1 1 D DG 2 1_555 C DC 5 1_555 -0.163 -0.188 -0.265 -16.167 -0.785 -0.885 8 D_DG20:DC17_C D 20 ? C 17 ? 19 1 1 D DA 3 1_555 C DT 4 1_555 -0.093 -0.246 0.095 -5.938 -9.666 1.391 9 D_DA21:DT16_C D 21 ? C 16 ? 20 1 1 D DT 4 1_555 C DA 3 1_555 0.707 -0.401 0.004 2.896 -8.686 2.460 10 D_DT22:DA15_C D 22 ? C 15 ? 20 1 1 D DC 5 1_555 C DG 2 1_555 0.121 -0.142 -0.560 19.745 0.230 0.518 11 D_DC23:DG14_C D 23 ? C 14 ? 19 1 1 D DG 6 1_555 C DC 1 1_555 0.366 -0.043 -0.035 -3.010 1.257 0.571 12 D_DG24:DC13_C D 24 ? C 13 ? 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 B DC 1 1_555 A DG 6 1_555 B DG 2 1_555 A DC 5 1_555 1.408 1.107 7.130 4.656 0.482 33.968 1.710 -0.772 7.268 0.821 -7.922 34.279 1 BB_DC7DG8:DC5DG6_AA B 7 ? A 6 ? B 8 ? A 5 ? 1 B DG 2 1_555 A DC 5 1_555 B DA 3 1_555 A DT 4 1_555 -1.659 1.065 3.121 -3.165 0.665 34.859 1.672 2.292 3.273 1.108 5.270 35.005 2 BB_DG8DA9:DT4DC5_AA B 8 ? A 5 ? B 9 ? A 4 ? 1 B DA 3 1_555 A DT 4 1_555 B DT 4 1_555 A DA 3 1_555 0.236 -0.553 3.345 -3.532 -2.910 26.340 -0.419 -1.454 3.326 -6.325 7.676 26.728 3 BB_DA9DT10:DA3DT4_AA B 9 ? A 4 ? B 10 ? A 3 ? 1 B DT 4 1_555 A DA 3 1_555 B DC 5 1_555 A DG 2 1_555 1.041 1.440 2.788 8.362 0.081 36.899 2.213 -0.651 2.949 0.126 -13.006 37.802 4 BB_DT10DC11:DG2DA3_AA B 10 ? A 3 ? B 11 ? A 2 ? 1 B DC 5 1_555 A DG 2 1_555 B DG 6 1_555 A DC 1 1_555 -0.747 1.336 7.098 -4.981 1.986 34.389 1.568 -0.420 7.196 3.334 8.361 34.792 5 BB_DC11DG12:DC1DG2_AA B 11 ? A 2 ? B 12 ? A 1 ? 1 B DG 6 1_555 A DC 1 1_555 D DC 1 1_555 C DG 6 1_555 -0.418 -0.254 2.970 0.832 2.620 14.534 -2.995 2.263 2.851 10.236 -3.252 14.790 6 BD_DG12DC19:DG18DC1_CA B 12 ? A 1 ? D 19 ? C 18 ? 1 D DC 1 1_555 C DG 6 1_555 D DG 2 1_555 C DC 5 1_555 1.508 0.966 7.157 2.889 -2.061 34.456 2.320 -1.556 7.187 -3.467 -4.861 34.633 7 DD_DC19DG20:DC17DG18_CC D 19 ? C 18 ? D 20 ? C 17 ? 1 D DG 2 1_555 C DC 5 1_555 D DA 3 1_555 C DT 4 1_555 -1.234 0.822 3.168 -2.767 -2.255 29.969 2.028 1.820 3.197 -4.342 5.326 30.176 8 DD_DG20DA21:DT16DC17_CC D 20 ? C 17 ? D 21 ? C 16 ? 1 D DA 3 1_555 C DT 4 1_555 D DT 4 1_555 C DA 3 1_555 -0.002 -0.458 3.191 1.940 -0.428 37.619 -0.655 0.249 3.192 -0.663 -3.006 37.670 9 DD_DA21DT22:DA15DT16_CC D 21 ? C 16 ? D 22 ? C 15 ? 1 D DT 4 1_555 C DA 3 1_555 D DC 5 1_555 C DG 2 1_555 1.362 1.399 2.881 7.680 4.140 30.122 1.841 -1.130 3.279 7.764 -14.401 31.332 10 DD_DT22DC23:DG14DA15_CC D 22 ? C 15 ? D 23 ? C 14 ? 1 D DC 5 1_555 C DG 2 1_555 D DG 6 1_555 C DC 1 1_555 -1.283 1.361 7.049 -8.787 0.520 35.238 2.025 -0.655 7.171 0.842 14.242 36.287 11 DD_DC23DG24:DC13DG14_CC D 23 ? C 14 ? D 24 ? C 13 ? # _atom_sites.entry_id 198D _atom_sites.fract_transf_matrix[1][1] 0.018869 _atom_sites.fract_transf_matrix[1][2] 0.010894 _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] 0.021788 _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] 0.030243 _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_