data_442D # _entry.id 442D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 442D pdb_0000442d 10.2210/pdb442d/pdb NDB DD0003 ? ? RCSB RCSB001335 ? ? WWPDB D_1000001335 ? ? # 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 2000-02-02 2 'Structure model' 1 1 2008-04-26 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-03-07 5 'Structure model' 1 4 2023-12-27 # _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 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 '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' diffrn_source 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 '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' '_diffrn_source.source' 2 5 'Structure model' '_database_2.pdbx_DOI' 3 5 'Structure model' '_database_2.pdbx_database_accession' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 19 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 20 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 21 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 22 5 'Structure model' '_pdbx_struct_conn_angle.value' 23 5 'Structure model' '_struct_conn.pdbx_dist_value' 24 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 25 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 27 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 28 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 29 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 30 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 31 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 32 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 33 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 34 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 35 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 36 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 37 5 'Structure model' '_struct_conn.ptnr2_symmetry' 38 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 39 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 40 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 442D _pdbx_database_status.recvd_initial_deposition_date 1999-01-14 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Clark, G.R.' 1 'Squire, C.J.' 2 'Martin, R.F.' 3 'White, J.' 4 # 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 ;Structures of m-iodo Hoechst-DNA complexes in crystals with reduced solvent content: implications for minor groove binder drug design. ; 'Nucleic Acids Res.' 28 1252 1258 2000 NARHAD UK 0305-1048 0389 ? 10666470 10.1093/nar/28.5.1252 1 'Intermolecular interactions and water structure in a condensed phase B-DNA crystal' 'Nucleic Acids Res.' 28 1259 1265 2000 NARHAD UK 0305-1048 0389 ? ? 10.1093/nar/28.5.1259 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Squire, C.J.' 1 ? primary 'Baker, L.J.' 2 ? primary 'Clark, G.R.' 3 ? primary 'Martin, R.F.' 4 ? primary 'White, J.' 5 ? 1 'Clark, G.R.' 6 ? 1 'Squire, C.J.' 7 ? 1 'Baker, L.J.' 8 ? 1 'Martin, R.F.' 9 ? 1 'White, J.' 10 ? # 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*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') ; 3663.392 2 ? ? ? ? 2 non-polymer syn "2'-(3-IODO-4-METHOXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE" 565.429 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 4 water nat water 18.015 49 ? ? ? ? # _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)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "2'-(3-IODO-4-METHOXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE" IB 3 'MAGNESIUM ION' MG 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 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 IB non-polymer . "2'-(3-IODO-4-METHOXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE" ? 'C26 H26 I N6 O 1' 565.429 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 # 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 DG 4 4 4 DG G A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DT 8 8 8 DT T A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DC 11 11 11 DC C A . n A 1 12 DG 12 12 12 DG G A . n B 1 1 DC 1 13 13 DC C B . n B 1 2 DG 2 14 14 DG G B . n B 1 3 DC 3 15 15 DC C B . n B 1 4 DG 4 16 16 DG G B . n B 1 5 DA 5 17 17 DA A B . n B 1 6 DA 6 18 18 DA A B . n B 1 7 DT 7 19 19 DT T B . n B 1 8 DT 8 20 20 DT T B . n B 1 9 DC 9 21 21 DC C B . n B 1 10 DG 10 22 22 DG G B . n B 1 11 DC 11 23 23 DC C B . n B 1 12 DG 12 24 24 DG G B . 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 C 2 IB 1 25 25 IB IB A . D 3 MG 1 26 26 MG MO4 A . E 3 MG 1 27 27 MG MO3 A . F 4 HOH 1 29 29 HOH HOH A . F 4 HOH 2 30 30 HOH HOH A . F 4 HOH 3 32 32 HOH HOH A . F 4 HOH 4 33 33 HOH HOH A . F 4 HOH 5 35 35 HOH HOH A . F 4 HOH 6 36 36 HOH HOH A . F 4 HOH 7 39 39 HOH HOH A . F 4 HOH 8 40 40 HOH HOH A . F 4 HOH 9 43 43 HOH HOH A . F 4 HOH 10 45 45 HOH HOH A . F 4 HOH 11 46 46 HOH HOH A . F 4 HOH 12 47 47 HOH HOH A . F 4 HOH 13 48 48 HOH HOH A . F 4 HOH 14 49 49 HOH HOH A . F 4 HOH 15 50 50 HOH HOH A . F 4 HOH 16 51 51 HOH HOH A . F 4 HOH 17 52 52 HOH HOH A . F 4 HOH 18 53 53 HOH HOH A . F 4 HOH 19 55 55 HOH HOH A . F 4 HOH 20 57 57 HOH HOH A . F 4 HOH 21 60 60 HOH HOH A . F 4 HOH 22 65 65 HOH HOH A . F 4 HOH 23 67 67 HOH HOH A . F 4 HOH 24 68 68 HOH HOH A . F 4 HOH 25 71 71 HOH HOH A . F 4 HOH 26 72 26 HOH MO4 A . F 4 HOH 27 73 26 HOH MO4 A . F 4 HOH 28 74 26 HOH MO4 A . F 4 HOH 29 75 26 HOH MO4 A . F 4 HOH 30 76 27 HOH MO3 A . F 4 HOH 31 77 27 HOH MO3 A . F 4 HOH 32 78 27 HOH MO3 A . G 4 HOH 1 28 28 HOH HOH B . G 4 HOH 2 31 31 HOH HOH B . G 4 HOH 3 34 34 HOH HOH B . G 4 HOH 4 37 37 HOH HOH B . G 4 HOH 5 38 38 HOH HOH B . G 4 HOH 6 41 41 HOH HOH B . G 4 HOH 7 42 42 HOH HOH B . G 4 HOH 8 44 44 HOH HOH B . G 4 HOH 9 54 54 HOH HOH B . G 4 HOH 10 56 56 HOH HOH B . G 4 HOH 11 58 58 HOH HOH B . G 4 HOH 12 59 59 HOH HOH B . G 4 HOH 13 61 61 HOH HOH B . G 4 HOH 14 63 63 HOH HOH B . G 4 HOH 15 64 64 HOH HOH B . G 4 HOH 16 69 69 HOH HOH B . G 4 HOH 17 70 70 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 SHELXL-97 refinement . ? 2 SAINT 'data reduction' . ? 3 SAINT 'data scaling' . ? 4 SADABS 'data scaling' . ? 5 X-PLOR phasing . ? 6 # _cell.entry_id 442D _cell.length_a 24.560 _cell.length_b 33.850 _cell.length_c 61.150 _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 442D _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 # _exptl.entry_id 442D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 29.09 _exptl_crystal.density_Matthews 1.73 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details 'pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K' _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 MGCL2 ? ? ? 1 2 1 SPERMINE ? ? ? 1 3 1 MPD ? ? ? 1 4 1 METHANOL ? ? ? 1 5 1 'SODIUM CACODYLATE' ? ? ? 1 6 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 293 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'BRUKER SMART' _diffrn_detector.pdbx_collection_date 1997-09-27 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator GRAPHITE _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.7107 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type SIEMENS _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 0.7107 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 442D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low ? _reflns.d_resolution_high 1.6 _reflns.number_obs 10398 _reflns.number_all 10398 _reflns.percent_possible_obs 97.5 _reflns.pdbx_Rmerge_I_obs 0.0760000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.04 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.600 _reflns_shell.d_res_low 1.657 _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_obs 0.2520000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 442D _refine.ls_number_reflns_obs 10031 _refine.ls_number_reflns_all 12649 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 4.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.0 _refine.ls_d_res_high 1.6 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1490000 _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 THROUGHOUT _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 RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _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 486 _refine_hist.pdbx_number_atoms_ligand 43 _refine_hist.number_atoms_solvent 42 _refine_hist.number_atoms_total 571 _refine_hist.d_res_high 1.6 _refine_hist.d_res_low 8.0 # 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 s_bond_d 0.007 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes ? ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr ? ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps ? ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 442D _pdbx_refine.R_factor_all_no_cutoff ? _pdbx_refine.R_factor_obs_no_cutoff ? _pdbx_refine.free_R_factor_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff ? _pdbx_refine.free_R_val_test_set_ct_no_cutoff ? _pdbx_refine.R_factor_all_4sig_cutoff ? _pdbx_refine.R_factor_obs_4sig_cutoff 0.1490000 _pdbx_refine.free_R_factor_4sig_cutoff 0.1670000 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 10.0 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 1016 _pdbx_refine.number_reflns_obs_4sig_cutoff 10031 _pdbx_refine.number_reflns_obs_no_cutoff ? _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 442D _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 442D _struct.title ;5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3', BENZIMIDAZOLE DERIVATIVE COMPLEX ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 442D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA, MINOR GROOVE BINDING, 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 2 ? D N N 3 ? E N N 3 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 442D _struct_ref.pdbx_db_accession 442D _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 442D A 1 ? 12 ? 442D 1 ? 12 ? 1 12 2 1 442D B 1 ? 12 ? 442D 13 ? 24 ? 13 24 # _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,C,D,E,F,G # _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 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? A DG 10 OP2 ? ? ? 1_555 E MG . MG ? ? A DG 10 A MG 27 1_555 ? ? ? ? ? ? ? 2.150 ? ? metalc2 metalc ? ? A DG 12 OP1 ? ? ? 1_555 D MG . MG ? ? A DG 12 A MG 26 1_555 ? ? ? ? ? ? ? 2.078 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 A HOH 72 1_555 ? ? ? ? ? ? ? 2.155 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 A HOH 73 1_555 ? ? ? ? ? ? ? 2.055 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 A HOH 74 1_555 ? ? ? ? ? ? ? 2.107 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 A HOH 75 1_555 ? ? ? ? ? ? ? 2.132 ? ? metalc7 metalc ? ? D MG . MG ? ? ? 1_555 B DT 8 OP1 ? ? A MG 26 B DT 20 4_456 ? ? ? ? ? ? ? 2.060 ? ? metalc8 metalc ? ? E MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 27 A HOH 76 1_555 ? ? ? ? ? ? ? 1.733 ? ? metalc9 metalc ? ? E MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 27 A HOH 77 1_555 ? ? ? ? ? ? ? 2.166 ? ? metalc10 metalc ? ? E MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 27 A HOH 78 1_555 ? ? ? ? ? ? ? 2.339 ? ? metalc11 metalc ? ? E MG . MG ? ? ? 1_555 B DT 7 OP1 ? ? A MG 27 B DT 19 4_556 ? ? ? ? ? ? ? 2.057 ? ? metalc12 metalc ? ? E MG . MG ? ? ? 1_555 B DC 11 OP1 ? ? A MG 27 B DC 23 2_655 ? ? ? ? ? ? ? 2.338 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OP2 ? A DG 10 ? A DG 10 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 O ? F HOH . ? A HOH 76 ? 1_555 163.4 ? 2 OP2 ? A DG 10 ? A DG 10 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 O ? F HOH . ? A HOH 77 ? 1_555 87.6 ? 3 O ? F HOH . ? A HOH 76 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 O ? F HOH . ? A HOH 77 ? 1_555 85.2 ? 4 OP2 ? A DG 10 ? A DG 10 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 O ? F HOH . ? A HOH 78 ? 1_555 82.3 ? 5 O ? F HOH . ? A HOH 76 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 O ? F HOH . ? A HOH 78 ? 1_555 82.6 ? 6 O ? F HOH . ? A HOH 77 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 O ? F HOH . ? A HOH 78 ? 1_555 88.4 ? 7 OP2 ? A DG 10 ? A DG 10 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DT 7 ? B DT 19 ? 4_556 94.5 ? 8 O ? F HOH . ? A HOH 76 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DT 7 ? B DT 19 ? 4_556 91.0 ? 9 O ? F HOH . ? A HOH 77 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DT 7 ? B DT 19 ? 4_556 173.2 ? 10 O ? F HOH . ? A HOH 78 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DT 7 ? B DT 19 ? 4_556 85.5 ? 11 OP2 ? A DG 10 ? A DG 10 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DC 11 ? B DC 23 ? 2_655 101.4 ? 12 O ? F HOH . ? A HOH 76 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DC 11 ? B DC 23 ? 2_655 94.6 ? 13 O ? F HOH . ? A HOH 77 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DC 11 ? B DC 23 ? 2_655 99.9 ? 14 O ? F HOH . ? A HOH 78 ? 1_555 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DC 11 ? B DC 23 ? 2_655 171.0 ? 15 OP1 ? B DT 7 ? B DT 19 ? 4_556 MG ? E MG . ? A MG 27 ? 1_555 OP1 ? B DC 11 ? B DC 23 ? 2_655 86.1 ? 16 OP1 ? A DG 12 ? A DG 12 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 72 ? 1_555 90.4 ? 17 OP1 ? A DG 12 ? A DG 12 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 73 ? 1_555 90.8 ? 18 O ? F HOH . ? A HOH 72 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 73 ? 1_555 175.7 ? 19 OP1 ? A DG 12 ? A DG 12 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 74 ? 1_555 94.5 ? 20 O ? F HOH . ? A HOH 72 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 74 ? 1_555 86.7 ? 21 O ? F HOH . ? A HOH 73 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 74 ? 1_555 89.1 ? 22 OP1 ? A DG 12 ? A DG 12 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 75 ? 1_555 85.4 ? 23 O ? F HOH . ? A HOH 72 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 75 ? 1_555 97.2 ? 24 O ? F HOH . ? A HOH 73 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 75 ? 1_555 87.0 ? 25 O ? F HOH . ? A HOH 74 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 O ? F HOH . ? A HOH 75 ? 1_555 176.1 ? 26 OP1 ? A DG 12 ? A DG 12 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 OP1 ? B DT 8 ? B DT 20 ? 4_456 171.0 ? 27 O ? F HOH . ? A HOH 72 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 OP1 ? B DT 8 ? B DT 20 ? 4_456 94.6 ? 28 O ? F HOH . ? A HOH 73 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 OP1 ? B DT 8 ? B DT 20 ? 4_456 84.7 ? 29 O ? F HOH . ? A HOH 74 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 OP1 ? B DT 8 ? B DT 20 ? 4_456 93.2 ? 30 O ? F HOH . ? A HOH 75 ? 1_555 MG ? D MG . ? A MG 26 ? 1_555 OP1 ? B DT 8 ? B DT 20 ? 4_456 86.6 ? # 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 IB 25 ? 11 'BINDING SITE FOR RESIDUE IB A 25' AC2 Software A MG 26 ? 6 'BINDING SITE FOR RESIDUE MG A 26' AC3 Software A MG 27 ? 6 'BINDING SITE FOR RESIDUE MG A 27' 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 DG A 4 ? DG A 4 . ? 1_555 ? 2 AC1 11 DA A 6 ? DA A 6 . ? 1_555 ? 3 AC1 11 DT A 7 ? DT A 7 . ? 1_555 ? 4 AC1 11 DT A 8 ? DT A 8 . ? 1_555 ? 5 AC1 11 HOH F . ? HOH A 46 . ? 1_555 ? 6 AC1 11 HOH F . ? HOH A 71 . ? 1_555 ? 7 AC1 11 DA B 6 ? DA B 18 . ? 1_555 ? 8 AC1 11 DT B 7 ? DT B 19 . ? 1_555 ? 9 AC1 11 DT B 8 ? DT B 20 . ? 1_555 ? 10 AC1 11 DC B 9 ? DC B 21 . ? 1_555 ? 11 AC1 11 DG B 10 ? DG B 22 . ? 1_555 ? 12 AC2 6 DG A 12 ? DG A 12 . ? 1_555 ? 13 AC2 6 HOH F . ? HOH A 72 . ? 1_555 ? 14 AC2 6 HOH F . ? HOH A 73 . ? 1_555 ? 15 AC2 6 HOH F . ? HOH A 74 . ? 1_555 ? 16 AC2 6 HOH F . ? HOH A 75 . ? 1_555 ? 17 AC2 6 DT B 8 ? DT B 20 . ? 4_456 ? 18 AC3 6 DG A 10 ? DG A 10 . ? 1_555 ? 19 AC3 6 HOH F . ? HOH A 76 . ? 1_555 ? 20 AC3 6 HOH F . ? HOH A 77 . ? 1_555 ? 21 AC3 6 HOH F . ? HOH A 78 . ? 1_555 ? 22 AC3 6 DT B 7 ? DT B 19 . ? 4_556 ? 23 AC3 6 DC B 11 ? DC B 23 . ? 2_655 ? # 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 "C5'" A DC 1 ? ? "C4'" A DC 1 ? ? 1.570 1.512 0.058 0.007 N 2 1 P A DG 2 ? ? "O5'" A DG 2 ? ? 1.671 1.593 0.078 0.010 N 3 1 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.567 1.512 0.055 0.007 N 4 1 "C5'" A DC 3 ? ? "C4'" A DC 3 ? ? 1.572 1.512 0.060 0.007 N 5 1 P A DG 4 ? ? "O5'" A DG 4 ? ? 1.696 1.593 0.103 0.010 N 6 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.562 1.512 0.050 0.007 N 7 1 P A DA 5 ? ? "O5'" A DA 5 ? ? 1.679 1.593 0.086 0.010 N 8 1 "C5'" A DA 5 ? ? "C4'" A DA 5 ? ? 1.560 1.512 0.048 0.007 N 9 1 P A DA 6 ? ? "O5'" A DA 6 ? ? 1.672 1.593 0.079 0.010 N 10 1 "C5'" A DA 6 ? ? "C4'" A DA 6 ? ? 1.567 1.512 0.055 0.007 N 11 1 P A DT 7 ? ? "O5'" A DT 7 ? ? 1.661 1.593 0.068 0.010 N 12 1 "C5'" A DT 7 ? ? "C4'" A DT 7 ? ? 1.567 1.512 0.055 0.007 N 13 1 "C5'" A DT 8 ? ? "C4'" A DT 8 ? ? 1.563 1.512 0.051 0.007 N 14 1 P A DC 9 ? ? "O5'" A DC 9 ? ? 1.686 1.593 0.093 0.010 N 15 1 "C5'" A DC 9 ? ? "C4'" A DC 9 ? ? 1.569 1.512 0.057 0.007 N 16 1 "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 1.564 1.512 0.052 0.007 N 17 1 P A DC 11 ? ? "O5'" A DC 11 ? ? 1.666 1.593 0.073 0.010 N 18 1 "C5'" A DC 11 ? ? "C4'" A DC 11 ? ? 1.565 1.512 0.053 0.007 N 19 1 P A DG 12 ? ? "O5'" A DG 12 ? ? 1.660 1.593 0.067 0.010 N 20 1 "C5'" A DG 12 ? ? "C4'" A DG 12 ? ? 1.561 1.512 0.049 0.007 N 21 1 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? 1.450 1.521 -0.071 0.010 N 22 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? 1.498 1.420 0.078 0.011 N 23 1 P B DG 14 ? ? "O5'" B DG 14 ? ? 1.662 1.593 0.069 0.010 N 24 1 "C5'" B DG 14 ? ? "C4'" B DG 14 ? ? 1.572 1.512 0.060 0.007 N 25 1 P B DC 15 ? ? "O5'" B DC 15 ? ? 1.667 1.593 0.074 0.010 N 26 1 "C5'" B DC 15 ? ? "C4'" B DC 15 ? ? 1.555 1.512 0.043 0.007 N 27 1 P B DG 16 ? ? "O5'" B DG 16 ? ? 1.656 1.593 0.063 0.010 N 28 1 "C5'" B DG 16 ? ? "C4'" B DG 16 ? ? 1.569 1.512 0.057 0.007 N 29 1 P B DA 17 ? ? "O5'" B DA 17 ? ? 1.654 1.593 0.061 0.010 N 30 1 "C5'" B DA 17 ? ? "C4'" B DA 17 ? ? 1.570 1.512 0.058 0.007 N 31 1 P B DA 18 ? ? "O5'" B DA 18 ? ? 1.654 1.593 0.061 0.010 N 32 1 "C5'" B DA 18 ? ? "C4'" B DA 18 ? ? 1.570 1.512 0.058 0.007 N 33 1 P B DT 19 ? ? "O5'" B DT 19 ? ? 1.692 1.593 0.099 0.010 N 34 1 "C5'" B DT 19 ? ? "C4'" B DT 19 ? ? 1.565 1.512 0.053 0.007 N 35 1 P B DT 20 ? ? "O5'" B DT 20 ? ? 1.660 1.593 0.067 0.010 N 36 1 "C5'" B DT 20 ? ? "C4'" B DT 20 ? ? 1.575 1.512 0.063 0.007 N 37 1 "C5'" B DC 21 ? ? "C4'" B DC 21 ? ? 1.581 1.512 0.069 0.007 N 38 1 P B DG 22 ? ? "O5'" B DG 22 ? ? 1.662 1.593 0.069 0.010 N 39 1 "C5'" B DG 22 ? ? "C4'" B DG 22 ? ? 1.566 1.512 0.054 0.007 N 40 1 P B DC 23 ? ? "O5'" B DC 23 ? ? 1.670 1.593 0.077 0.010 N 41 1 "C5'" B DC 23 ? ? "C4'" B DC 23 ? ? 1.567 1.512 0.055 0.007 N 42 1 "C5'" B DG 24 ? ? "C4'" B DG 24 ? ? 1.565 1.512 0.053 0.007 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 "O5'" A DC 1 ? ? "C5'" A DC 1 ? ? "C4'" A DC 1 ? ? 102.37 109.40 -7.03 0.80 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 101.37 108.00 -6.63 0.70 N 3 1 "O5'" A DG 2 ? ? "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 100.84 109.40 -8.56 0.80 N 4 1 "O3'" A DG 2 ? ? P A DC 3 ? ? "O5'" A DC 3 ? ? 89.06 104.00 -14.94 1.90 Y 5 1 "O5'" A DC 3 ? ? "C5'" A DC 3 ? ? "C4'" A DC 3 ? ? 100.95 109.40 -8.45 0.80 N 6 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 102.18 108.00 -5.82 0.70 N 7 1 N1 A DC 3 ? ? C2 A DC 3 ? ? O2 A DC 3 ? ? 113.44 118.90 -5.46 0.60 N 8 1 OP1 A DG 4 ? ? P A DG 4 ? ? OP2 A DG 4 ? ? 130.98 119.60 11.38 1.50 N 9 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 103.38 108.00 -4.62 0.70 N 10 1 "C3'" A DA 5 ? ? "O3'" A DA 5 ? ? P A DA 6 ? ? 133.88 119.70 14.18 1.20 Y 11 1 "O5'" A DA 6 ? ? "C5'" A DA 6 ? ? "C4'" A DA 6 ? ? 103.69 109.40 -5.71 0.80 N 12 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 103.77 108.00 -4.23 0.70 N 13 1 N1 A DT 7 ? ? "C1'" A DT 7 ? ? "C2'" A DT 7 ? ? 123.55 114.30 9.25 1.40 N 14 1 "O4'" A DT 7 ? ? "C1'" A DT 7 ? ? N1 A DT 7 ? ? 100.98 108.00 -7.02 0.70 N 15 1 "C3'" A DT 7 ? ? "O3'" A DT 7 ? ? P A DT 8 ? ? 127.49 119.70 7.79 1.20 Y 16 1 "O5'" A DT 8 ? ? "C5'" A DT 8 ? ? "C4'" A DT 8 ? ? 99.42 109.40 -9.98 0.80 N 17 1 "C1'" A DT 8 ? ? "O4'" A DT 8 ? ? "C4'" A DT 8 ? ? 103.78 110.10 -6.32 1.00 N 18 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? N1 A DT 8 ? ? 102.13 108.00 -5.87 0.70 N 19 1 C5 A DT 8 ? ? C6 A DT 8 ? ? N1 A DT 8 ? ? 119.80 123.70 -3.90 0.60 N 20 1 "O5'" A DC 9 ? ? "C5'" A DC 9 ? ? "C4'" A DC 9 ? ? 103.04 109.40 -6.36 0.80 N 21 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 110.28 108.30 1.98 0.30 N 22 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 97.54 102.40 -4.86 0.80 N 23 1 "O3'" A DG 10 ? ? P A DC 11 ? ? "O5'" A DC 11 ? ? 88.47 104.00 -15.53 1.90 Y 24 1 OP1 A DC 11 ? ? P A DC 11 ? ? OP2 A DC 11 ? ? 131.34 119.60 11.74 1.50 N 25 1 "O5'" A DC 11 ? ? "C5'" A DC 11 ? ? "C4'" A DC 11 ? ? 101.05 109.40 -8.35 0.80 N 26 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 103.53 108.00 -4.47 0.70 N 27 1 N1 A DC 11 ? ? C2 A DC 11 ? ? O2 A DC 11 ? ? 122.57 118.90 3.67 0.60 N 28 1 "O5'" A DG 12 ? ? "C5'" A DG 12 ? ? "C4'" A DG 12 ? ? 103.79 109.40 -5.61 0.80 N 29 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 101.59 108.00 -6.41 0.70 N 30 1 "O4'" B DC 13 ? ? "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? 113.25 106.00 7.25 0.60 N 31 1 "C1'" B DC 13 ? ? "O4'" B DC 13 ? ? "C4'" B DC 13 ? ? 100.41 110.10 -9.69 1.00 N 32 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? N1 B DC 13 ? ? 100.74 108.00 -7.26 0.70 N 33 1 OP1 B DG 14 ? ? P B DG 14 ? ? OP2 B DG 14 ? ? 128.76 119.60 9.16 1.50 N 34 1 "O5'" B DG 14 ? ? "C5'" B DG 14 ? ? "C4'" B DG 14 ? ? 100.49 109.40 -8.91 0.80 N 35 1 "O5'" B DC 15 ? ? "C5'" B DC 15 ? ? "C4'" B DC 15 ? ? 102.82 109.40 -6.58 0.80 N 36 1 "C1'" B DC 15 ? ? "O4'" B DC 15 ? ? "C4'" B DC 15 ? ? 103.78 110.10 -6.32 1.00 N 37 1 "O3'" B DC 15 ? ? P B DG 16 ? ? "O5'" B DG 16 ? ? 91.46 104.00 -12.54 1.90 Y 38 1 "O5'" B DG 16 ? ? "C5'" B DG 16 ? ? "C4'" B DG 16 ? ? 102.06 109.40 -7.34 0.80 N 39 1 "O5'" B DA 17 ? ? "C5'" B DA 17 ? ? "C4'" B DA 17 ? ? 101.42 109.40 -7.98 0.80 N 40 1 "O5'" B DA 18 ? ? "C5'" B DA 18 ? ? "C4'" B DA 18 ? ? 100.05 109.40 -9.35 0.80 N 41 1 "O5'" B DT 20 ? ? "C5'" B DT 20 ? ? "C4'" B DT 20 ? ? 102.83 109.40 -6.57 0.80 N 42 1 "O5'" B DC 21 ? ? "C5'" B DC 21 ? ? "C4'" B DC 21 ? ? 100.69 109.40 -8.71 0.80 N 43 1 "O4'" B DC 21 ? ? "C1'" B DC 21 ? ? N1 B DC 21 ? ? 102.73 108.00 -5.27 0.70 N 44 1 "C3'" B DC 21 ? ? "O3'" B DC 21 ? ? P B DG 22 ? ? 130.49 119.70 10.79 1.20 Y 45 1 "O5'" B DG 22 ? ? "C5'" B DG 22 ? ? "C4'" B DG 22 ? ? 102.83 109.40 -6.57 0.80 N 46 1 "O4'" B DG 22 ? ? "C1'" B DG 22 ? ? N9 B DG 22 ? ? 101.46 108.00 -6.54 0.70 N 47 1 "C3'" B DG 22 ? ? "O3'" B DG 22 ? ? P B DC 23 ? ? 130.15 119.70 10.45 1.20 Y 48 1 OP1 B DC 23 ? ? P B DC 23 ? ? OP2 B DC 23 ? ? 129.01 119.60 9.41 1.50 N 49 1 "O5'" B DC 23 ? ? "C5'" B DC 23 ? ? "C4'" B DC 23 ? ? 102.66 109.40 -6.74 0.80 N 50 1 "O5'" B DG 24 ? ? "C5'" B DG 24 ? ? "C4'" B DG 24 ? ? 103.00 109.40 -6.40 0.80 N 51 1 "O4'" B DG 24 ? ? "C1'" B DG 24 ? ? N9 B DG 24 ? ? 102.15 108.00 -5.85 0.70 N # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'MINOR GROOVE BINDER' # 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 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 IB CYT C Y N 147 IB C1 C Y N 148 IB C2 C Y N 149 IB C3 C Y N 150 IB C4 C Y N 151 IB C5 C Y N 152 IB O O N N 153 IB C6 C Y N 154 IB C7 C Y N 155 IB C8 C Y N 156 IB C9 C Y N 157 IB C10 C Y N 158 IB C11 C Y N 159 IB C12 C Y N 160 IB N1 N Y N 161 IB N2 N Y N 162 IB C13 C Y N 163 IB C14 C Y N 164 IB C15 C Y N 165 IB C16 C Y N 166 IB C17 C Y N 167 IB C18 C Y N 168 IB C19 C Y N 169 IB N3 N Y N 170 IB N4 N Y N 171 IB N6 N N N 172 IB N7 N N N 173 IB C20 C N N 174 IB C21 C N N 175 IB C22 C N N 176 IB C23 C N N 177 IB C24 C N N 178 IB I I N N 179 IB CN2 C N N 180 IB H2 H N N 181 IB H3 H N N 182 IB H5 H N N 183 IB H9 H N N 184 IB H10 H N N 185 IB H12 H N N 186 IB HN1 H N N 187 IB H16 H N N 188 IB H17 H N N 189 IB H19 H N N 190 IB HN3 H N N 191 IB HN7 H N N 192 IB H201 H N N 193 IB H202 H N N 194 IB H211 H N N 195 IB H212 H N N 196 IB H221 H N N 197 IB H222 H N N 198 IB H231 H N N 199 IB H232 H N N 200 IB H241 H N N 201 IB H242 H N N 202 IB H243 H N N 203 IB HN21 H N N 204 IB HN22 H N N 205 IB HN23 H N N 206 MG MG MG N N 207 # 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 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 IB CYT C2 doub Y N 152 IB CYT C4 sing Y N 153 IB CYT O sing N N 154 IB C1 C3 doub Y N 155 IB C1 C5 sing Y N 156 IB C1 C6 sing Y N 157 IB C2 C3 sing Y N 158 IB C2 H2 sing N N 159 IB C3 H3 sing N N 160 IB C4 C5 doub Y N 161 IB C4 I sing N N 162 IB C5 H5 sing N N 163 IB O CN2 sing N N 164 IB C6 N1 sing Y N 165 IB C6 N2 doub Y N 166 IB C7 C8 doub Y N 167 IB C7 C12 sing Y N 168 IB C7 N1 sing Y N 169 IB C8 C9 sing Y N 170 IB C8 N2 sing Y N 171 IB C9 C10 doub Y N 172 IB C9 H9 sing N N 173 IB C10 C11 sing Y N 174 IB C10 H10 sing N N 175 IB C11 C12 doub Y N 176 IB C11 C13 sing Y N 177 IB C12 H12 sing N N 178 IB N1 HN1 sing N N 179 IB C13 N3 sing Y N 180 IB C13 N4 doub Y N 181 IB C14 C15 doub Y N 182 IB C14 C19 sing Y N 183 IB C14 N3 sing Y N 184 IB C15 C16 sing Y N 185 IB C15 N4 sing Y N 186 IB C16 C17 doub Y N 187 IB C16 H16 sing N N 188 IB C17 C18 sing Y N 189 IB C17 H17 sing N N 190 IB C18 C19 doub Y N 191 IB C18 N6 sing N N 192 IB C19 H19 sing N N 193 IB N3 HN3 sing N N 194 IB N6 C20 sing N N 195 IB N6 C23 sing N N 196 IB N7 C21 sing N N 197 IB N7 C22 sing N N 198 IB N7 C24 sing N N 199 IB N7 HN7 sing N N 200 IB C20 C21 sing N N 201 IB C20 H201 sing N N 202 IB C20 H202 sing N N 203 IB C21 H211 sing N N 204 IB C21 H212 sing N N 205 IB C22 C23 sing N N 206 IB C22 H221 sing N N 207 IB C22 H222 sing N N 208 IB C23 H231 sing N N 209 IB C23 H232 sing N N 210 IB C24 H241 sing N N 211 IB C24 H242 sing N N 212 IB C24 H243 sing N N 213 IB CN2 HN21 sing N N 214 IB CN2 HN22 sing N N 215 IB CN2 HN23 sing N N 216 # _ndb_struct_conf_na.entry_id 442D _ndb_struct_conf_na.feature '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 DC 1 1_555 B DG 12 1_555 0.274 -0.066 -0.049 19.436 -12.671 -1.081 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.119 -0.185 -0.056 3.259 -12.388 -0.452 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.177 -0.103 0.250 -6.437 -15.424 3.276 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.191 -0.157 -0.040 4.251 -6.530 0.509 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.151 -0.097 -0.068 4.880 -14.421 3.244 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.068 -0.035 -0.068 -2.030 -21.726 12.845 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.087 -0.073 0.010 -8.313 -24.597 5.246 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.132 -0.028 -0.094 -14.259 -21.240 1.144 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.273 -0.108 -0.216 -10.026 7.981 -3.228 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.152 -0.085 0.324 15.442 -0.158 1.059 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.030 -0.163 0.181 6.968 -19.180 -3.977 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.225 -0.201 0.663 -0.307 -11.096 -4.455 12 A_DG12:DC13_B A 12 ? B 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 A DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 0.886 0.589 3.691 5.527 7.413 35.364 -0.257 -0.522 3.824 11.953 -8.911 36.515 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.314 0.204 3.478 -1.629 -1.797 35.377 0.615 -0.768 3.446 -2.954 2.677 35.457 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.215 0.913 3.138 3.231 6.993 40.306 0.555 0.653 3.220 10.037 -4.637 41.005 3 AA_DC3DG4:DC21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 0.153 -0.063 3.307 0.028 3.513 37.145 -0.568 -0.236 3.287 5.500 -0.044 37.305 4 AA_DG4DA5:DT20DC21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 -0.237 -0.121 3.338 -2.330 2.953 37.997 -0.566 0.063 3.328 4.523 3.568 38.176 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.435 -0.432 3.358 -0.188 0.748 32.870 -0.894 0.735 3.350 1.322 0.331 32.879 6 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.021 0.157 3.342 1.383 9.634 34.378 -1.181 0.241 3.263 15.909 -2.283 35.689 7 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 1.038 1.081 3.456 3.287 0.788 36.138 1.616 -1.172 3.555 1.267 -5.285 36.291 8 AA_DT8DC9:DG16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 -0.154 1.334 3.029 -6.747 -4.132 30.551 3.151 -0.854 2.799 -7.680 12.542 31.536 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.309 0.104 3.630 -1.486 -10.634 37.289 1.608 1.770 3.519 -16.224 2.267 38.752 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 -0.734 0.169 3.448 -7.566 4.641 38.540 -0.340 0.124 3.521 6.919 11.281 39.511 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # _atom_sites.entry_id 442D _atom_sites.fract_transf_matrix[1][1] 0.040717 _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] 0.029542 _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] 0.016353 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C I MG N O P # loop_