data_1DA1 # _entry.id 1DA1 # _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 1DA1 pdb_00001da1 10.2210/pdb1da1/pdb RCSB ZDFB14 ? ? WWPDB D_1000172696 ? ? # 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 1993-07-15 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_conn 5 4 'Structure model' struct_conn_type 6 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_conn.conn_type_id' 4 4 'Structure model' '_struct_conn.id' 5 4 'Structure model' '_struct_conn.pdbx_dist_value' 6 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 7 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 8 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 9 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 10 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 11 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 12 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 13 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 14 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 15 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 16 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 17 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 18 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 19 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 20 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 21 4 'Structure model' '_struct_conn_type.id' 22 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 23 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 24 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1DA1 _pdbx_database_status.recvd_initial_deposition_date 1992-10-17 _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 'Brown, T.' 1 'Kneale, G.' 2 'Hunter, W.N.' 3 'Kennard, O.' 4 # _citation.id primary _citation.title 'Structural characterisation of the bromouracil.guanine base pair mismatch in a Z-DNA fragment.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 14 _citation.page_first 1801 _citation.page_last 1809 _citation.year 1986 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 3951996 _citation.pdbx_database_id_DOI 10.1093/nar/14.4.1801 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Brown, T.' 1 ? primary 'Kneale, G.' 2 ? primary 'Hunter, W.N.' 3 ? primary 'Kennard, O.' 4 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*(BRU)P*GP*CP*GP*CP*G)-3') ; 1890.086 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 water nat water 18.015 67 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(BRU)(DG)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can UGCGCG _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 'MAGNESIUM ION' MG 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 BRU n 1 2 DG n 1 3 DC n 1 4 DG 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 BRU 'DNA linking' n "5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE" ? 'C9 H12 Br N2 O8 P' 387.078 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 HOH non-polymer . WATER ? 'H2 O' 18.015 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 BRU 1 1 1 BRU +U 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 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n B 1 1 BRU 1 7 7 BRU +U B . n B 1 2 DG 2 8 8 DG G B . n B 1 3 DC 3 9 9 DC C B . n B 1 4 DG 4 10 10 DG G B . n B 1 5 DC 5 11 11 DC C B . n B 1 6 DG 6 12 12 DG G B . n # loop_ _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 MG 1 13 13 MG MG B . D 3 HOH 1 15 15 HOH HOH A . D 3 HOH 2 17 17 HOH HOH A . D 3 HOH 3 18 18 HOH HOH A . D 3 HOH 4 20 20 HOH HOH A . D 3 HOH 5 22 22 HOH HOH A . D 3 HOH 6 23 23 HOH HOH A . D 3 HOH 7 24 24 HOH HOH A . D 3 HOH 8 26 26 HOH HOH A . D 3 HOH 9 28 28 HOH HOH A . D 3 HOH 10 30 30 HOH HOH A . D 3 HOH 11 31 31 HOH HOH A . D 3 HOH 12 32 32 HOH HOH A . D 3 HOH 13 38 38 HOH HOH A . D 3 HOH 14 41 41 HOH HOH A . D 3 HOH 15 43 43 HOH HOH A . D 3 HOH 16 44 44 HOH HOH A . D 3 HOH 17 45 45 HOH HOH A . D 3 HOH 18 47 47 HOH HOH A . D 3 HOH 19 55 55 HOH HOH A . D 3 HOH 20 62 62 HOH HOH A . D 3 HOH 21 63 63 HOH HOH A . D 3 HOH 22 67 67 HOH HOH A . D 3 HOH 23 73 73 HOH HOH A . D 3 HOH 24 74 74 HOH HOH A . D 3 HOH 25 75 75 HOH HOH A . D 3 HOH 26 76 76 HOH HOH A . E 3 HOH 1 14 14 HOH HOH B . E 3 HOH 2 16 16 HOH HOH B . E 3 HOH 3 19 19 HOH HOH B . E 3 HOH 4 21 21 HOH HOH B . E 3 HOH 5 25 25 HOH HOH B . E 3 HOH 6 27 27 HOH HOH B . E 3 HOH 7 29 29 HOH HOH B . E 3 HOH 8 33 33 HOH HOH B . E 3 HOH 9 34 34 HOH HOH B . E 3 HOH 10 35 35 HOH HOH B . E 3 HOH 11 36 36 HOH HOH B . E 3 HOH 12 37 37 HOH HOH B . E 3 HOH 13 39 39 HOH HOH B . E 3 HOH 14 40 40 HOH HOH B . E 3 HOH 15 42 42 HOH HOH B . E 3 HOH 16 46 46 HOH HOH B . E 3 HOH 17 48 48 HOH HOH B . E 3 HOH 18 49 49 HOH HOH B . E 3 HOH 19 50 50 HOH HOH B . E 3 HOH 20 51 51 HOH HOH B . E 3 HOH 21 52 52 HOH HOH B . E 3 HOH 22 53 53 HOH HOH B . E 3 HOH 23 54 54 HOH HOH B . E 3 HOH 24 56 56 HOH HOH B . E 3 HOH 25 57 57 HOH HOH B . E 3 HOH 26 58 58 HOH HOH B . E 3 HOH 27 59 59 HOH HOH B . E 3 HOH 28 60 60 HOH HOH B . E 3 HOH 29 61 61 HOH HOH B . E 3 HOH 30 64 64 HOH HOH B . E 3 HOH 31 65 65 HOH HOH B . E 3 HOH 32 66 66 HOH HOH B . E 3 HOH 33 68 68 HOH HOH B . E 3 HOH 34 69 69 HOH HOH B . E 3 HOH 35 70 70 HOH HOH B . E 3 HOH 36 71 71 HOH HOH B . E 3 HOH 37 72 72 HOH HOH B . E 3 HOH 38 77 77 HOH HOH B . E 3 HOH 39 78 78 HOH HOH B . E 3 HOH 40 79 79 HOH HOH B . E 3 HOH 41 80 80 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1DA1 _cell.length_a 17.940 _cell.length_b 30.850 _cell.length_c 49.950 _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 1DA1 _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 # _exptl.entry_id 1DA1 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.83 _exptl_crystal.density_percent_sol 32.72 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 277.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.20 _exptl_crystal_grow.pdbx_details 'pH 8.20, VAPOR DIFFUSION, temperature 277.00K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 MGCL2 ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 1 BIS-TRIS-PROPANE_HCL ? ? ? 1 5 1 'NA ACETATE' ? ? ? 1 6 2 WATER ? ? ? 1 7 2 ISOPROPANOL ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 277.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'SYNTEX P21' _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 ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1DA1 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 2.250 _reflns.number_obs 1105 _reflns.number_all 1336 _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 1DA1 _refine.ls_number_reflns_obs 1105 _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 ? _refine.ls_d_res_high 2.250 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.156 _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 240 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 67 _refine_hist.number_atoms_total 310 _refine_hist.d_res_high 2.250 _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 1DA1 _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 1DA1 _struct.title 'STRUCTURAL CHARACTERISATION OF THE BROMOURACIL-GUANINE BASE PAIR MISMATCH IN A Z-DNA FRAGMENT' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1DA1 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DOUBLE HELIX, MODIFIED, MISMATCHED, 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 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1DA1 _struct_ref.pdbx_db_accession 1DA1 _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 1DA1 A 1 ? 6 ? 1DA1 1 ? 6 ? 1 6 2 1 1DA1 B 1 ? 6 ? 1DA1 7 ? 12 ? 7 12 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A BRU 1 "O3'" ? ? ? 1_555 A DG 2 P ? ? A BRU 1 A DG 2 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale2 covale both ? B BRU 1 "O3'" ? ? ? 1_555 B DG 2 P ? ? B BRU 7 B DG 8 1_555 ? ? ? ? ? ? ? 1.602 ? ? metalc1 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? B MG 13 B HOH 66 1_555 ? ? ? ? ? ? ? 2.048 ? ? hydrog1 hydrog ? ? A BRU 1 N3 ? ? ? 1_555 B DG 6 O6 ? ? A BRU 1 B DG 12 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog2 hydrog ? ? A BRU 1 O2 ? ? ? 1_555 B DG 6 N1 ? ? A BRU 1 B DG 12 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog3 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B BRU 1 O2 ? ? A DG 6 B BRU 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog16 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B BRU 1 N3 ? ? A DG 6 B BRU 7 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id B _struct_site.pdbx_auth_comp_id MG _struct_site.pdbx_auth_seq_id 13 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 2 _struct_site.details 'BINDING SITE FOR RESIDUE MG B 13' # 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 2 DG B 6 ? DG B 12 . ? 1_555 ? 2 AC1 2 HOH E . ? HOH B 66 . ? 1_555 ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 B _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 29 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 B _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 60 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.08 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 "O5'" _pdbx_validate_symm_contact.auth_asym_id_1 B _pdbx_validate_symm_contact.auth_comp_id_1 BRU _pdbx_validate_symm_contact.auth_seq_id_1 7 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 61 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 2_555 _pdbx_validate_symm_contact.dist 2.16 # 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 P A DG 2 ? ? OP1 A DG 2 ? ? 1.593 1.485 0.108 0.017 N 2 1 P A DG 2 ? ? "O5'" A DG 2 ? ? 1.737 1.593 0.144 0.010 N 3 1 "O5'" A DG 2 ? ? "C5'" A DG 2 ? ? 1.574 1.440 0.134 0.016 N 4 1 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.607 1.512 0.095 0.007 N 5 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 1.661 1.529 0.132 0.010 N 6 1 "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.596 1.519 0.077 0.010 N 7 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.555 1.420 0.135 0.011 N 8 1 P A DC 3 ? ? "O5'" A DC 3 ? ? 1.753 1.593 0.160 0.010 N 9 1 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? 1.593 1.529 0.064 0.010 N 10 1 "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.647 1.519 0.128 0.010 N 11 1 P A DG 4 ? ? "O5'" A DG 4 ? ? 1.728 1.593 0.135 0.010 N 12 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.608 1.512 0.096 0.007 N 13 1 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 1.649 1.529 0.120 0.010 N 14 1 "C2'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.602 1.519 0.083 0.010 N 15 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.550 1.420 0.130 0.011 N 16 1 P A DC 5 ? ? "O5'" A DC 5 ? ? 1.663 1.593 0.070 0.010 N 17 1 "C4'" A DC 5 ? ? "C3'" A DC 5 ? ? 1.643 1.529 0.114 0.010 N 18 1 "C2'" A DC 5 ? ? "C1'" A DC 5 ? ? 1.642 1.519 0.123 0.010 N 19 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? 1.522 1.420 0.102 0.011 N 20 1 P A DG 6 ? ? OP1 A DG 6 ? ? 1.602 1.485 0.117 0.017 N 21 1 P A DG 6 ? ? "O5'" A DG 6 ? ? 1.698 1.593 0.105 0.010 N 22 1 "O5'" A DG 6 ? ? "C5'" A DG 6 ? ? 1.579 1.440 0.139 0.016 N 23 1 "C4'" A DG 6 ? ? "C3'" A DG 6 ? ? 1.676 1.529 0.147 0.010 N 24 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? 1.564 1.420 0.144 0.011 N 25 1 P B DG 8 ? ? OP1 B DG 8 ? ? 1.593 1.485 0.108 0.017 N 26 1 P B DG 8 ? ? "O5'" B DG 8 ? ? 1.712 1.593 0.119 0.010 N 27 1 "O5'" B DG 8 ? ? "C5'" B DG 8 ? ? 1.546 1.440 0.106 0.016 N 28 1 "C5'" B DG 8 ? ? "C4'" B DG 8 ? ? 1.584 1.512 0.072 0.007 N 29 1 "C4'" B DG 8 ? ? "C3'" B DG 8 ? ? 1.669 1.529 0.140 0.010 N 30 1 "C2'" B DG 8 ? ? "C1'" B DG 8 ? ? 1.605 1.519 0.086 0.010 N 31 1 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? 1.564 1.420 0.144 0.011 N 32 1 P B DC 9 ? ? "O5'" B DC 9 ? ? 1.748 1.593 0.155 0.010 N 33 1 "C4'" B DC 9 ? ? "C3'" B DC 9 ? ? 1.615 1.529 0.086 0.010 N 34 1 "C2'" B DC 9 ? ? "C1'" B DC 9 ? ? 1.656 1.519 0.137 0.010 N 35 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? 1.490 1.420 0.070 0.011 N 36 1 P B DG 10 ? ? OP1 B DG 10 ? ? 1.598 1.485 0.113 0.017 N 37 1 P B DG 10 ? ? "O5'" B DG 10 ? ? 1.699 1.593 0.106 0.010 N 38 1 "O5'" B DG 10 ? ? "C5'" B DG 10 ? ? 1.592 1.440 0.152 0.016 N 39 1 "C4'" B DG 10 ? ? "C3'" B DG 10 ? ? 1.682 1.529 0.153 0.010 N 40 1 "C2'" B DG 10 ? ? "C1'" B DG 10 ? ? 1.637 1.519 0.118 0.010 N 41 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? 1.520 1.420 0.100 0.011 N 42 1 "O3'" B DG 10 ? ? P B DC 11 ? ? 1.741 1.607 0.134 0.012 Y 43 1 "O5'" B DC 11 ? ? "C5'" B DC 11 ? ? 1.555 1.440 0.115 0.016 N 44 1 "C4'" B DC 11 ? ? "C3'" B DC 11 ? ? 1.641 1.529 0.112 0.010 N 45 1 "C2'" B DC 11 ? ? "C1'" B DC 11 ? ? 1.638 1.519 0.119 0.010 N 46 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? 1.517 1.420 0.097 0.011 N 47 1 P B DG 12 ? ? "O5'" B DG 12 ? ? 1.726 1.593 0.133 0.010 N 48 1 "O5'" B DG 12 ? ? "C5'" B DG 12 ? ? 1.572 1.440 0.132 0.016 N 49 1 "C5'" B DG 12 ? ? "C4'" B DG 12 ? ? 1.599 1.512 0.087 0.007 N 50 1 "C4'" B DG 12 ? ? "C3'" B DG 12 ? ? 1.663 1.529 0.134 0.010 N 51 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? 1.544 1.420 0.124 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 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 109.00 103.10 5.90 0.90 N 2 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 96.85 102.40 -5.55 0.80 N 3 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? "C2'" A DG 2 ? ? 113.95 106.80 7.15 0.50 N 4 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.18 108.30 1.88 0.30 N 5 1 "O4'" A DC 3 ? ? "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? 109.75 106.00 3.75 0.60 N 6 1 "C5'" A DC 3 ? ? "C4'" A DC 3 ? ? "O4'" A DC 3 ? ? 118.88 109.80 9.08 1.10 N 7 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? "C2'" A DC 3 ? ? 110.18 106.80 3.38 0.50 N 8 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 117.76 108.30 9.46 0.30 N 9 1 "O4'" A DG 4 ? ? "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 110.50 106.00 4.50 0.60 N 10 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 129.66 115.70 13.96 1.20 N 11 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? "C2'" A DG 4 ? ? 113.39 106.80 6.59 0.50 N 12 1 "C3'" A DG 4 ? ? "O3'" A DG 4 ? ? P A DC 5 ? ? 135.74 119.70 16.04 1.20 Y 13 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? "C2'" A DC 5 ? ? 110.74 106.80 3.94 0.50 N 14 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 111.30 108.30 3.00 0.30 N 15 1 "C3'" A DG 6 ? ? "C2'" A DG 6 ? ? "C1'" A DG 6 ? ? 96.71 102.40 -5.69 0.80 N 16 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? "C2'" A DG 6 ? ? 113.56 106.80 6.76 0.50 N 17 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.51 108.30 3.21 0.30 N 18 1 "C4'" B DG 8 ? ? "C3'" B DG 8 ? ? "C2'" B DG 8 ? ? 109.60 103.10 6.50 0.90 N 19 1 "C3'" B DG 8 ? ? "C2'" B DG 8 ? ? "C1'" B DG 8 ? ? 97.35 102.40 -5.05 0.80 N 20 1 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? "C2'" B DG 8 ? ? 114.33 106.80 7.53 0.50 N 21 1 "O5'" B DC 9 ? ? P B DC 9 ? ? OP2 B DC 9 ? ? 118.37 110.70 7.67 1.20 N 22 1 "C3'" B DC 9 ? ? "C2'" B DC 9 ? ? "C1'" B DC 9 ? ? 96.56 102.40 -5.84 0.80 N 23 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? N1 B DC 9 ? ? 113.98 108.30 5.68 0.30 N 24 1 "O4'" B DG 10 ? ? "C4'" B DG 10 ? ? "C3'" B DG 10 ? ? 110.10 106.00 4.10 0.60 N 25 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? "C2'" B DG 10 ? ? 114.30 106.80 7.50 0.50 N 26 1 OP1 B DC 11 ? ? P B DC 11 ? ? OP2 B DC 11 ? ? 110.38 119.60 -9.22 1.50 N 27 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? "C2'" B DC 11 ? ? 111.35 106.80 4.55 0.50 N 28 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 114.04 108.30 5.74 0.30 N 29 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? "C2'" B DG 12 ? ? 111.51 106.80 4.71 0.50 N 30 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 112.52 108.30 4.22 0.30 N # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A BRU 1 A BRU 1 ? DU ? 2 B BRU 1 B BRU 7 ? DU ? # 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 BRU N1 N N N 1 BRU C2 C N N 2 BRU N3 N N N 3 BRU C4 C N N 4 BRU C5 C N N 5 BRU C6 C N N 6 BRU O2 O N N 7 BRU O4 O N N 8 BRU BR BR N N 9 BRU "C1'" C N R 10 BRU "C2'" C N N 11 BRU "C3'" C N S 12 BRU "C4'" C N R 13 BRU "O3'" O N N 14 BRU "O4'" O N N 15 BRU "C5'" C N N 16 BRU "O5'" O N N 17 BRU P P N N 18 BRU OP1 O N N 19 BRU OP2 O N N 20 BRU OP3 O N N 21 BRU HN3 H N N 22 BRU H6 H N N 23 BRU "H1'" H N N 24 BRU "H2'" H N N 25 BRU "H2''" H N N 26 BRU "H3'" H N N 27 BRU "H4'" H N N 28 BRU "HO3'" H N N 29 BRU "H5'" H N N 30 BRU "H5''" H N N 31 BRU HOP2 H N N 32 BRU HOP3 H N N 33 DC OP3 O N N 34 DC P P N N 35 DC OP1 O N N 36 DC OP2 O N N 37 DC "O5'" O N N 38 DC "C5'" C N N 39 DC "C4'" C N R 40 DC "O4'" O N N 41 DC "C3'" C N S 42 DC "O3'" O N N 43 DC "C2'" C N N 44 DC "C1'" C N R 45 DC N1 N N N 46 DC C2 C N N 47 DC O2 O N N 48 DC N3 N N N 49 DC C4 C N N 50 DC N4 N N N 51 DC C5 C N N 52 DC C6 C N N 53 DC HOP3 H N N 54 DC HOP2 H N N 55 DC "H5'" H N N 56 DC "H5''" H N N 57 DC "H4'" H N N 58 DC "H3'" H N N 59 DC "HO3'" H N N 60 DC "H2'" H N N 61 DC "H2''" H N N 62 DC "H1'" H N N 63 DC H41 H N N 64 DC H42 H N N 65 DC H5 H N N 66 DC H6 H N N 67 DG OP3 O N N 68 DG P P N N 69 DG OP1 O N N 70 DG OP2 O N N 71 DG "O5'" O N N 72 DG "C5'" C N N 73 DG "C4'" C N R 74 DG "O4'" O N N 75 DG "C3'" C N S 76 DG "O3'" O N N 77 DG "C2'" C N N 78 DG "C1'" C N R 79 DG N9 N Y N 80 DG C8 C Y N 81 DG N7 N Y N 82 DG C5 C Y N 83 DG C6 C N N 84 DG O6 O N N 85 DG N1 N N N 86 DG C2 C N N 87 DG N2 N N N 88 DG N3 N N N 89 DG C4 C Y N 90 DG HOP3 H N N 91 DG HOP2 H N N 92 DG "H5'" H N N 93 DG "H5''" H N N 94 DG "H4'" H N N 95 DG "H3'" H N N 96 DG "HO3'" H N N 97 DG "H2'" H N N 98 DG "H2''" H N N 99 DG "H1'" H N N 100 DG H8 H N N 101 DG H1 H N N 102 DG H21 H N N 103 DG H22 H N N 104 HOH O O N N 105 HOH H1 H N N 106 HOH H2 H N N 107 MG MG MG N N 108 # 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 BRU N1 C2 sing N N 1 BRU N1 C6 sing N N 2 BRU N1 "C1'" sing N N 3 BRU C2 N3 sing N N 4 BRU C2 O2 doub N N 5 BRU N3 C4 sing N N 6 BRU N3 HN3 sing N N 7 BRU C4 C5 sing N N 8 BRU C4 O4 doub N N 9 BRU C5 C6 doub N N 10 BRU C5 BR sing N N 11 BRU C6 H6 sing N N 12 BRU "C1'" "C2'" sing N N 13 BRU "C1'" "O4'" sing N N 14 BRU "C1'" "H1'" sing N N 15 BRU "C2'" "C3'" sing N N 16 BRU "C2'" "H2'" sing N N 17 BRU "C2'" "H2''" sing N N 18 BRU "C3'" "C4'" sing N N 19 BRU "C3'" "O3'" sing N N 20 BRU "C3'" "H3'" sing N N 21 BRU "C4'" "O4'" sing N N 22 BRU "C4'" "C5'" sing N N 23 BRU "C4'" "H4'" sing N N 24 BRU "O3'" "HO3'" sing N N 25 BRU "C5'" "O5'" sing N N 26 BRU "C5'" "H5'" sing N N 27 BRU "C5'" "H5''" sing N N 28 BRU "O5'" P sing N N 29 BRU P OP1 doub N N 30 BRU P OP2 sing N N 31 BRU P OP3 sing N N 32 BRU OP2 HOP2 sing N N 33 BRU OP3 HOP3 sing N N 34 DC OP3 P sing N N 35 DC OP3 HOP3 sing N N 36 DC P OP1 doub N N 37 DC P OP2 sing N N 38 DC P "O5'" sing N N 39 DC OP2 HOP2 sing N N 40 DC "O5'" "C5'" sing N N 41 DC "C5'" "C4'" sing N N 42 DC "C5'" "H5'" sing N N 43 DC "C5'" "H5''" sing N N 44 DC "C4'" "O4'" sing N N 45 DC "C4'" "C3'" sing N N 46 DC "C4'" "H4'" sing N N 47 DC "O4'" "C1'" sing N N 48 DC "C3'" "O3'" sing N N 49 DC "C3'" "C2'" sing N N 50 DC "C3'" "H3'" sing N N 51 DC "O3'" "HO3'" sing N N 52 DC "C2'" "C1'" sing N N 53 DC "C2'" "H2'" sing N N 54 DC "C2'" "H2''" sing N N 55 DC "C1'" N1 sing N N 56 DC "C1'" "H1'" sing N N 57 DC N1 C2 sing N N 58 DC N1 C6 sing N N 59 DC C2 O2 doub N N 60 DC C2 N3 sing N N 61 DC N3 C4 doub N N 62 DC C4 N4 sing N N 63 DC C4 C5 sing N N 64 DC N4 H41 sing N N 65 DC N4 H42 sing N N 66 DC C5 C6 doub N N 67 DC C5 H5 sing N N 68 DC C6 H6 sing N N 69 DG OP3 P sing N N 70 DG OP3 HOP3 sing N N 71 DG P OP1 doub N N 72 DG P OP2 sing N N 73 DG P "O5'" sing N N 74 DG OP2 HOP2 sing N N 75 DG "O5'" "C5'" sing N N 76 DG "C5'" "C4'" sing N N 77 DG "C5'" "H5'" sing N N 78 DG "C5'" "H5''" sing N N 79 DG "C4'" "O4'" sing N N 80 DG "C4'" "C3'" sing N N 81 DG "C4'" "H4'" sing N N 82 DG "O4'" "C1'" sing N N 83 DG "C3'" "O3'" sing N N 84 DG "C3'" "C2'" sing N N 85 DG "C3'" "H3'" sing N N 86 DG "O3'" "HO3'" sing N N 87 DG "C2'" "C1'" sing N N 88 DG "C2'" "H2'" sing N N 89 DG "C2'" "H2''" sing N N 90 DG "C1'" N9 sing N N 91 DG "C1'" "H1'" sing N N 92 DG N9 C8 sing Y N 93 DG N9 C4 sing Y N 94 DG C8 N7 doub Y N 95 DG C8 H8 sing N N 96 DG N7 C5 sing Y N 97 DG C5 C6 sing N N 98 DG C5 C4 doub Y N 99 DG C6 O6 doub N N 100 DG C6 N1 sing N N 101 DG N1 C2 sing N N 102 DG N1 H1 sing N N 103 DG C2 N2 sing N N 104 DG C2 N3 doub N N 105 DG N2 H21 sing N N 106 DG N2 H22 sing N N 107 DG N3 C4 sing N N 108 HOH O H1 sing N N 109 HOH O H2 sing N N 110 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1DA1 'z-form double helix' 1DA1 'mismatched base pair' # 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 BRU 1 1_555 B DG 6 1_555 -1.885 -0.436 0.063 -4.092 7.428 1.352 1 A_BRU1:DG12_B A 1 ? B 12 ? 28 1 1 A DG 2 1_555 B DC 5 1_555 0.316 -0.283 0.122 -2.541 4.479 4.026 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B DG 4 1_555 -0.638 -0.285 0.123 8.941 2.370 5.471 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.175 -0.092 0.116 -0.946 -7.799 -0.488 4 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 -0.611 -0.184 0.654 -1.748 -1.185 -0.784 5 A_DC5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B BRU 1 1_555 2.091 -0.540 -0.392 -8.481 11.331 5.320 6 A_DG6:BRU7_B A 6 ? B 7 ? 28 ? # 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 BRU 1 1_555 B DG 6 1_555 A DG 2 1_555 B DC 5 1_555 0.170 4.989 3.908 -4.281 -0.013 -2.311 -58.657 -39.651 2.019 0.180 -61.647 -4.865 1 AA_BRU1DG2:DC11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B DC 5 1_555 A DC 3 1_555 B DG 4 1_555 0.004 -0.935 3.566 -1.616 -3.423 -55.650 1.214 -0.097 3.506 3.662 -1.729 -55.769 2 AA_DG2DC3:DG10DC11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B DG 4 1_555 A DG 4 1_555 B DC 3 1_555 -0.192 5.433 4.303 -0.456 -2.352 -5.569 -31.607 -5.648 6.046 22.860 -4.431 -6.062 3 AA_DC3DG4:DC9DG10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DG 4 1_555 B DC 3 1_555 A DC 5 1_555 B DG 2 1_555 0.205 -0.767 4.037 -2.545 0.007 -54.025 0.843 0.032 4.042 -0.008 -2.800 -54.081 4 AA_DG4DC5:DG8DC9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A DC 5 1_555 B DG 2 1_555 A DG 6 1_555 B BRU 1 1_555 0.205 4.975 4.164 11.212 -0.404 1.183 26.072 20.123 0.462 -3.028 -83.945 11.281 5 AA_DC5DG6:BRU7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # _atom_sites.entry_id 1DA1 _atom_sites.fract_transf_matrix[1][1] 0.055741 _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] 0.032415 _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] 0.020020 _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 BR C MG N O P # loop_