data_381D # _entry.id 381D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 381D pdb_0000381d 10.2210/pdb381d/pdb RCSB DDF077 ? ? WWPDB D_1000178849 ? ? # 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 1998-07-13 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2014-11-26 5 'Structure model' 1 4 2024-02-21 # _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' Other 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' 7 5 'Structure model' 'Refinement description' # 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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 5 'Structure model' software 5 5 'Structure model' struct_conn 6 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_software.name' 4 5 'Structure model' '_struct_conn.pdbx_dist_value' 5 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 9 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 10 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 11 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 12 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 13 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 14 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 15 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 16 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 17 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 18 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 19 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 381D _pdbx_database_status.recvd_initial_deposition_date 1998-02-18 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Dutta, R.' 1 'Gao, Y.-G.' 2 'Priebe, W.' 3 'Wang, A.H.-J.' 4 # _citation.id primary _citation.title ;Binding of the modified daunorubicin WP401 adjacent to a T-G base pair induces the reverse Watson-Crick conformation: crystal structures of the WP401-TGGCCG and WP401-CGG[br5C]CG complexes. ; _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 26 _citation.page_first 3001 _citation.page_last 3005 _citation.year 1998 _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 9611247 _citation.pdbx_database_id_DOI 10.1093/nar/26.12.3001 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Dutta, R.' 1 ? primary 'Gao, Y.G.' 2 ? primary 'Priebe, W.' 3 ? primary 'Wang, A.H.' 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 man ;DNA (5'-D(*TP*GP*GP*CP*CP*G)-3') ; 1825.216 1 ? ? ? ? 2 polymer man ;DNA (5'-D(*TP*GP*(G49)P*CP*CP*G)-3') ; 1839.243 1 ? ? ? ? 3 non-polymer syn "2'-BROMO-4'-EPIDAUNORUBICIN" 606.416 2 ? ? ? ? 4 water nat water 18.015 26 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DT)(DG)(DG)(DC)(DC)(DG)' TGGCCG A ? 2 polydeoxyribonucleotide no yes '(DT)(DG)(G49)(DC)(DC)(DG)' TGGCCG B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 "2'-BROMO-4'-EPIDAUNORUBICIN" DM8 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DG n 1 3 DG n 1 4 DC n 1 5 DC n 1 6 DG n 2 1 DT n 2 2 DG n 2 3 G49 n 2 4 DC n 2 5 DC n 2 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 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 DM8 non-polymer . "2'-BROMO-4'-EPIDAUNORUBICIN" 'WP401; DAUNOMYCIN DERIVATIVE; DAUNORUBICIN DERIVATIVE' 'C27 H28 Br N O10' 606.416 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 G49 'DNA linking' n "N2-METHYL-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O7 P' 361.248 HOH non-polymer . WATER ? 'H2 O' 18.015 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DT 1 1 1 DT T A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DC 4 4 4 DC C 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 2 1 DT 1 7 7 DT T B . n B 2 2 DG 2 8 8 DG G B . n B 2 3 G49 3 9 9 G49 +G B . n B 2 4 DC 4 10 10 DC C B . n B 2 5 DC 5 11 11 DC C B . n B 2 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 3 DM8 1 14 14 DM8 DM8 A . D 3 DM8 1 13 9 DM8 DM8 B . E 4 HOH 1 21 21 HOH HOH A . E 4 HOH 2 22 22 HOH HOH A . E 4 HOH 3 25 25 HOH HOH A . E 4 HOH 4 27 27 HOH HOH A . E 4 HOH 5 34 34 HOH HOH A . E 4 HOH 6 36 36 HOH HOH A . E 4 HOH 7 37 37 HOH HOH A . E 4 HOH 8 38 38 HOH HOH A . E 4 HOH 9 39 39 HOH HOH A . F 4 HOH 1 15 15 HOH HOH B . F 4 HOH 2 16 16 HOH HOH B . F 4 HOH 3 17 17 HOH HOH B . F 4 HOH 4 18 18 HOH HOH B . F 4 HOH 5 19 19 HOH HOH B . F 4 HOH 6 20 20 HOH HOH B . F 4 HOH 7 23 23 HOH HOH B . F 4 HOH 8 24 24 HOH HOH B . F 4 HOH 9 26 26 HOH HOH B . F 4 HOH 10 28 28 HOH HOH B . F 4 HOH 11 29 29 HOH HOH B . F 4 HOH 12 30 30 HOH HOH B . F 4 HOH 13 31 31 HOH HOH B . F 4 HOH 14 32 32 HOH HOH B . F 4 HOH 15 33 33 HOH HOH B . F 4 HOH 16 35 35 HOH HOH B . F 4 HOH 17 40 40 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR refinement . ? 1 bioteX 'data reduction' 'V. 1.1' ? 2 bioteX 'data scaling' 'V. 1.1' ? 3 # _cell.entry_id 381D _cell.length_a 37.200 _cell.length_b 37.200 _cell.length_c 70.530 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 381D _symmetry.space_group_name_H-M 'P 43 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall ? # _exptl.entry_id 381D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.33 _exptl_crystal.density_percent_sol 63.06 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 298.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.00 _exptl_crystal_grow.pdbx_details 'pH 6.00, VAPOR DIFFUSION, temperature 298.00K' _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 BACL2 ? ? ? 1 3 1 'SODIUM CACODYLATE' ? ? ? 1 4 1 SPERMINE ? ? ? 1 5 1 MPD ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 123.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type RIGAKU _diffrn_detector.pdbx_collection_date 1997-07-22 _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 ? _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 381D _reflns.observed_criterion_sigma_I 1.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 37.200 _reflns.d_resolution_high 1.900 _reflns.number_obs 3483 _reflns.number_all ? _reflns.percent_possible_obs 81.000 _reflns.pdbx_Rmerge_I_obs 0.056 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 4.300 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _refine.entry_id 381D _refine.ls_number_reflns_obs 2781 _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 10.000 _refine.ls_d_res_high 2.100 _refine.ls_percent_reflns_obs 73.240 _refine.ls_R_factor_obs 0.245 _refine.ls_R_factor_all 0.247 _refine.ls_R_factor_R_work 0.245 _refine.ls_R_factor_R_free 0.318 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.000 _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.ls_redundancy_reflns_obs ? _refine.pdbx_overall_phase_error ? _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.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 243 _refine_hist.pdbx_number_atoms_ligand 78 _refine_hist.number_atoms_solvent 26 _refine_hist.number_atoms_total 347 _refine_hist.d_res_high 2.100 _refine_hist.d_res_low 10.000 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function x_bond_d 0.009 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 0.96 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 381D _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 381D _struct.title ;BINDING OF THE MODIFIED DAUNORUBICIN WP401 ADJACENT TO A T-G BASE PAIR INDUCES THE REVERSE WATSON-CRICK CONFORMATION: CRYSTAL STRUCTURES OF THE WP401-TGGCCG AND WP401-CGG[BR5C]CG COMPLEXES ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 381D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'RIGHT HANDED DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, 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 2 ? C N N 3 ? D N N 3 ? E N N 4 ? F N N 4 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 381D 381D ? ? ? 2 2 PDB 381D 381D ? ? ? # 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 381D A 1 ? 6 ? 381D 1 ? 6 ? 1 6 2 2 381D B 1 ? 6 ? 381D 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,F # _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.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 covale1 covale both ? B DG 2 "O3'" ? ? ? 1_555 B G49 3 P ? ? B DG 8 B G49 9 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale2 covale one ? B G49 3 "O3'" ? ? ? 1_555 B DC 4 P ? ? B G49 9 B DC 10 1_555 ? ? ? ? ? ? ? 1.585 ? ? covale3 covale none ? B G49 3 CM2 ? ? ? 1_555 D DM8 . "N3'" ? ? B G49 9 B DM8 13 1_555 ? ? ? ? ? ? ? 1.430 ? ? hydrog1 hydrog ? ? A DT 1 N3 ? ? ? 1_555 B DG 6 O6 ? ? A DT 1 B DG 12 1_555 ? ? ? ? ? ? TYPE_27_PAIR ? ? ? hydrog2 hydrog ? ? A DT 1 O4 ? ? ? 1_555 B DG 6 N1 ? ? A DT 1 B DG 12 1_555 ? ? ? ? ? ? TYPE_27_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 DG 3 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 3 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 3 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 3 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B G49 3 N1 ? ? A DC 4 B G49 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B G49 3 O6 ? ? A DC 4 B G49 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B G49 3 N2 ? ? A DC 4 B G49 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 DT 1 O4 ? ? A DG 6 B DT 7 1_555 ? ? ? ? ? ? TYPE_27_PAIR ? ? ? hydrog16 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DT 1 N3 ? ? A DG 6 B DT 7 1_555 ? ? ? ? ? ? TYPE_27_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # 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 B DM8 13 ? 6 'BINDING SITE FOR RESIDUE DM8 B 13' AC2 Software A DM8 14 ? 6 'BINDING SITE FOR RESIDUE DM8 A 14' 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 6 DC A 5 ? DC A 5 . ? 1_555 ? 2 AC1 6 DG A 6 ? DG A 6 . ? 1_555 ? 3 AC1 6 DG A 6 ? DG A 6 . ? 6_565 ? 4 AC1 6 DT B 1 ? DT B 7 . ? 1_555 ? 5 AC1 6 DG B 2 ? DG B 8 . ? 1_555 ? 6 AC1 6 G49 B 3 ? G49 B 9 . ? 1_555 ? 7 AC2 6 DT A 1 ? DT A 1 . ? 1_555 ? 8 AC2 6 DG A 2 ? DG A 2 . ? 1_555 ? 9 AC2 6 DG A 3 ? DG A 3 . ? 1_555 ? 10 AC2 6 DC A 5 ? DC A 5 . ? 6_565 ? 11 AC2 6 DC B 5 ? DC B 11 . ? 1_555 ? 12 AC2 6 DG B 6 ? DG B 12 . ? 1_555 ? # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 5 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.068 _pdbx_validate_planes.type 'SIDE CHAIN' # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id B _pdbx_struct_mod_residue.label_comp_id G49 _pdbx_struct_mod_residue.label_seq_id 3 _pdbx_struct_mod_residue.auth_asym_id B _pdbx_struct_mod_residue.auth_comp_id G49 _pdbx_struct_mod_residue.auth_seq_id 9 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DG _pdbx_struct_mod_residue.details ? # _struct_site_keywords.site_id 1 _struct_site_keywords.text INTERCALATION # 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 DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 DM8 C1 C Y N 72 DM8 C2 C Y N 73 DM8 C3 C Y N 74 DM8 C4 C Y N 75 DM8 C5 C N N 76 DM8 C6 C Y N 77 DM8 C7 C N S 78 DM8 C8 C N N 79 DM8 C9 C N S 80 DM8 C10 C N N 81 DM8 C11 C Y N 82 DM8 C12 C N N 83 DM8 C13 C N N 84 DM8 C14 C N N 85 DM8 C15 C Y N 86 DM8 C16 C Y N 87 DM8 C17 C Y N 88 DM8 C18 C Y N 89 DM8 C19 C Y N 90 DM8 C20 C Y N 91 DM8 C21 C N N 92 DM8 O4 O N N 93 DM8 O5 O N N 94 DM8 O6 O N N 95 DM8 O7 O N N 96 DM8 O9 O N N 97 DM8 O11 O N N 98 DM8 O12 O N N 99 DM8 O13 O N N 100 DM8 "C1'" C N R 101 DM8 "C2'" C N R 102 DM8 "C3'" C N R 103 DM8 "C4'" C N R 104 DM8 "C5'" C N S 105 DM8 "C6'" C N N 106 DM8 "O5'" O N N 107 DM8 "O4'" O N N 108 DM8 "N3'" N N N 109 DM8 BR BR N N 110 DM8 H1 H N N 111 DM8 H2 H N N 112 DM8 H3 H N N 113 DM8 H7 H N N 114 DM8 H81 H N N 115 DM8 H82 H N N 116 DM8 H101 H N N 117 DM8 H102 H N N 118 DM8 H141 H N N 119 DM8 H142 H N N 120 DM8 H143 H N N 121 DM8 H211 H N N 122 DM8 H212 H N N 123 DM8 H213 H N N 124 DM8 H6 H N N 125 DM8 H9 H N N 126 DM8 H11 H N N 127 DM8 "H1'" H N N 128 DM8 "H2'" H N N 129 DM8 "H3'" H N N 130 DM8 "H4'" H N N 131 DM8 "H5'" H N N 132 DM8 "H6'1" H N N 133 DM8 "H6'2" H N N 134 DM8 "H6'3" H N N 135 DM8 "HO4'" H N N 136 DM8 "HN'1" H N N 137 DM8 "HN'2" H N N 138 DT OP3 O N N 139 DT P P N N 140 DT OP1 O N N 141 DT OP2 O N N 142 DT "O5'" O N N 143 DT "C5'" C N N 144 DT "C4'" C N R 145 DT "O4'" O N N 146 DT "C3'" C N S 147 DT "O3'" O N N 148 DT "C2'" C N N 149 DT "C1'" C N R 150 DT N1 N N N 151 DT C2 C N N 152 DT O2 O N N 153 DT N3 N N N 154 DT C4 C N N 155 DT O4 O N N 156 DT C5 C N N 157 DT C7 C N N 158 DT C6 C N N 159 DT HOP3 H N N 160 DT HOP2 H N N 161 DT "H5'" H N N 162 DT "H5''" H N N 163 DT "H4'" H N N 164 DT "H3'" H N N 165 DT "HO3'" H N N 166 DT "H2'" H N N 167 DT "H2''" H N N 168 DT "H1'" H N N 169 DT H3 H N N 170 DT H71 H N N 171 DT H72 H N N 172 DT H73 H N N 173 DT H6 H N N 174 G49 P P N N 175 G49 O1P O N N 176 G49 O2P O N N 177 G49 O3P O N N 178 G49 "O5'" O N N 179 G49 "C5'" C N N 180 G49 "C4'" C N R 181 G49 "O4'" O N N 182 G49 "C3'" C N S 183 G49 "O3'" O N N 184 G49 "C2'" C N N 185 G49 "C1'" C N R 186 G49 N9 N Y N 187 G49 C8 C Y N 188 G49 N7 N Y N 189 G49 C5 C Y N 190 G49 C6 C N N 191 G49 O6 O N N 192 G49 N1 N N N 193 G49 C2 C N N 194 G49 N2 N N N 195 G49 CM2 C N N 196 G49 N3 N N N 197 G49 C4 C Y N 198 G49 H2P H N N 199 G49 H3P H N N 200 G49 "H5'1" H N N 201 G49 "H5'2" H N N 202 G49 "H4'" H N N 203 G49 "H3'" H N N 204 G49 HA H N N 205 G49 "H2'1" H N N 206 G49 "H2'2" H N N 207 G49 "H1'" H N N 208 G49 H8 H N N 209 G49 H1 H N N 210 G49 H2 H N N 211 G49 HM21 H N N 212 G49 HM22 H N N 213 G49 HM23 H N N 214 HOH O O N N 215 HOH H1 H N N 216 HOH H2 H N N 217 # 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 DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 DM8 C1 C2 doub Y N 75 DM8 C1 C15 sing Y N 76 DM8 C1 H1 sing N N 77 DM8 C2 C3 sing Y N 78 DM8 C2 H2 sing N N 79 DM8 C3 C4 doub Y N 80 DM8 C3 H3 sing N N 81 DM8 C4 C16 sing Y N 82 DM8 C4 O4 sing N N 83 DM8 C5 C16 sing N N 84 DM8 C5 C17 sing N N 85 DM8 C5 O5 doub N N 86 DM8 C6 C17 doub Y N 87 DM8 C6 C20 sing Y N 88 DM8 C6 O6 sing N N 89 DM8 C7 C8 sing N N 90 DM8 C7 C20 sing N N 91 DM8 C7 O7 sing N N 92 DM8 C7 H7 sing N N 93 DM8 C8 C9 sing N N 94 DM8 C8 H81 sing N N 95 DM8 C8 H82 sing N N 96 DM8 C9 C10 sing N N 97 DM8 C9 C13 sing N N 98 DM8 C9 O9 sing N N 99 DM8 C10 C19 sing N N 100 DM8 C10 H101 sing N N 101 DM8 C10 H102 sing N N 102 DM8 C11 C18 doub Y N 103 DM8 C11 C19 sing Y N 104 DM8 C11 O11 sing N N 105 DM8 C12 C15 sing N N 106 DM8 C12 C18 sing N N 107 DM8 C12 O12 doub N N 108 DM8 C13 C14 sing N N 109 DM8 C13 O13 doub N N 110 DM8 C14 H141 sing N N 111 DM8 C14 H142 sing N N 112 DM8 C14 H143 sing N N 113 DM8 C15 C16 doub Y N 114 DM8 C17 C18 sing Y N 115 DM8 C19 C20 doub Y N 116 DM8 C21 O4 sing N N 117 DM8 C21 H211 sing N N 118 DM8 C21 H212 sing N N 119 DM8 C21 H213 sing N N 120 DM8 O6 H6 sing N N 121 DM8 O7 "C1'" sing N N 122 DM8 O9 H9 sing N N 123 DM8 O11 H11 sing N N 124 DM8 "C1'" "C2'" sing N N 125 DM8 "C1'" "O5'" sing N N 126 DM8 "C1'" "H1'" sing N N 127 DM8 "C2'" "C3'" sing N N 128 DM8 "C2'" BR sing N N 129 DM8 "C2'" "H2'" sing N N 130 DM8 "C3'" "C4'" sing N N 131 DM8 "C3'" "N3'" sing N N 132 DM8 "C3'" "H3'" sing N N 133 DM8 "C4'" "C5'" sing N N 134 DM8 "C4'" "O4'" sing N N 135 DM8 "C4'" "H4'" sing N N 136 DM8 "C5'" "C6'" sing N N 137 DM8 "C5'" "O5'" sing N N 138 DM8 "C5'" "H5'" sing N N 139 DM8 "C6'" "H6'1" sing N N 140 DM8 "C6'" "H6'2" sing N N 141 DM8 "C6'" "H6'3" sing N N 142 DM8 "O4'" "HO4'" sing N N 143 DM8 "N3'" "HN'1" sing N N 144 DM8 "N3'" "HN'2" sing N N 145 DT OP3 P sing N N 146 DT OP3 HOP3 sing N N 147 DT P OP1 doub N N 148 DT P OP2 sing N N 149 DT P "O5'" sing N N 150 DT OP2 HOP2 sing N N 151 DT "O5'" "C5'" sing N N 152 DT "C5'" "C4'" sing N N 153 DT "C5'" "H5'" sing N N 154 DT "C5'" "H5''" sing N N 155 DT "C4'" "O4'" sing N N 156 DT "C4'" "C3'" sing N N 157 DT "C4'" "H4'" sing N N 158 DT "O4'" "C1'" sing N N 159 DT "C3'" "O3'" sing N N 160 DT "C3'" "C2'" sing N N 161 DT "C3'" "H3'" sing N N 162 DT "O3'" "HO3'" sing N N 163 DT "C2'" "C1'" sing N N 164 DT "C2'" "H2'" sing N N 165 DT "C2'" "H2''" sing N N 166 DT "C1'" N1 sing N N 167 DT "C1'" "H1'" sing N N 168 DT N1 C2 sing N N 169 DT N1 C6 sing N N 170 DT C2 O2 doub N N 171 DT C2 N3 sing N N 172 DT N3 C4 sing N N 173 DT N3 H3 sing N N 174 DT C4 O4 doub N N 175 DT C4 C5 sing N N 176 DT C5 C7 sing N N 177 DT C5 C6 doub N N 178 DT C7 H71 sing N N 179 DT C7 H72 sing N N 180 DT C7 H73 sing N N 181 DT C6 H6 sing N N 182 G49 P O1P doub N N 183 G49 P O2P sing N N 184 G49 P O3P sing N N 185 G49 P "O5'" sing N N 186 G49 O2P H2P sing N N 187 G49 O3P H3P sing N N 188 G49 "O5'" "C5'" sing N N 189 G49 "C5'" "C4'" sing N N 190 G49 "C5'" "H5'1" sing N N 191 G49 "C5'" "H5'2" sing N N 192 G49 "C4'" "O4'" sing N N 193 G49 "C4'" "C3'" sing N N 194 G49 "C4'" "H4'" sing N N 195 G49 "O4'" "C1'" sing N N 196 G49 "C3'" "O3'" sing N N 197 G49 "C3'" "C2'" sing N N 198 G49 "C3'" "H3'" sing N N 199 G49 "O3'" HA sing N N 200 G49 "C2'" "C1'" sing N N 201 G49 "C2'" "H2'1" sing N N 202 G49 "C2'" "H2'2" sing N N 203 G49 "C1'" N9 sing N N 204 G49 "C1'" "H1'" sing N N 205 G49 N9 C8 sing Y N 206 G49 N9 C4 sing Y N 207 G49 C8 N7 doub Y N 208 G49 C8 H8 sing N N 209 G49 N7 C5 sing Y N 210 G49 C5 C6 sing N N 211 G49 C5 C4 doub Y N 212 G49 C6 O6 doub N N 213 G49 C6 N1 sing N N 214 G49 N1 C2 sing N N 215 G49 N1 H1 sing N N 216 G49 C2 N2 sing N N 217 G49 C2 N3 doub N N 218 G49 N2 CM2 sing N N 219 G49 N2 H2 sing N N 220 G49 CM2 HM21 sing N N 221 G49 CM2 HM22 sing N N 222 G49 CM2 HM23 sing N N 223 G49 N3 C4 sing N N 224 HOH O H1 sing N N 225 HOH O H2 sing N N 226 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 381D 'double helix' 381D '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 DT 1 1_555 B DG 6 1_555 -0.461 0.643 -0.302 7.006 -9.598 -163.318 1 A_DT1:DG12_B A 1 ? B 12 ? 27 2 1 A DG 2 1_555 B DC 5 1_555 -0.156 -0.043 -0.085 -9.205 0.259 6.585 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DG 3 1_555 B DC 4 1_555 -0.305 -0.079 0.125 3.514 -6.844 -1.589 3 A_DG3:DC10_B A 3 ? B 10 ? 19 1 1 A DC 4 1_555 B G49 3 1_555 0.291 -0.218 0.250 -7.953 -5.581 -5.013 4 A_DC4:G499_B A 4 ? B 9 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 0.404 -0.328 -0.108 9.697 8.419 3.830 5 A_DC5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B DT 1 1_555 0.508 -1.306 -0.122 -12.349 0.060 167.182 6 A_DG6:DT7_B A 6 ? B 7 ? 27 2 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DT 1 1_555 B DG 6 1_555 A DG 2 1_555 B DC 5 1_555 2.817 -0.525 6.894 -6.840 1.297 -26.928 0.402 2.218 7.387 -2.728 -14.386 -27.797 1 AA_DT1DG2:DC11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B DC 5 1_555 A DG 3 1_555 B DC 4 1_555 -0.625 0.176 3.044 -1.997 8.443 26.420 -1.556 0.847 2.994 17.871 4.226 27.784 2 AA_DG2DG3:DC10DC11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DG 3 1_555 B DC 4 1_555 A DC 4 1_555 B G49 3 1_555 -0.335 -0.358 3.572 -3.635 1.590 35.778 -0.827 -0.024 3.569 2.579 5.895 35.990 3 AA_DG3DC4:G499DC10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DC 4 1_555 B G49 3 1_555 A DC 5 1_555 B DG 2 1_555 1.312 0.329 3.062 5.548 5.194 30.935 -0.329 -1.400 3.253 9.557 -10.210 31.833 4 AA_DC4DC5:DG8G499_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 DT 1 1_555 -2.953 -6.180 -2.864 -165.972 32.024 -82.328 3.358 -0.132 -3.189 -16.366 -84.820 -171.750 5 AA_DC5DG6:DT7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # _atom_sites.entry_id 381D _atom_sites.fract_transf_matrix[1][1] 0.026882 _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] 0.026882 _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] 0.014178 _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 N O P # loop_