data_236D # _entry.id 236D # _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 236D pdb_0000236d 10.2210/pdb236d/pdb RCSB DDF056 ? ? WWPDB D_1000177623 ? ? # 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 1996-01-31 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-14 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 4 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 236D _pdbx_database_status.recvd_initial_deposition_date 1995-06-22 _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 'Gao, Y.-G.' 1 'Wang, A.H.-J.' 2 # _citation.id primary _citation.title ;Crystal structures of four morpholino-doxorubicin anticancer drugs complexed with d(CGTACG) and d(CGATCG): implications in drug-DNA crosslink. ; _citation.journal_abbrev J.Biomol.Struct.Dyn. _citation.journal_volume 13 _citation.page_first 103 _citation.page_last 117 _citation.year 1995 _citation.journal_id_ASTM JBSDD6 _citation.country US _citation.journal_id_ISSN 0739-1102 _citation.journal_id_CSD 0646 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 8527023 _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Gao, Y.G.' 1 ? primary 'Wang, A.H.' 2 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*CP*GP*AP*TP*CP*G)-3') ; 1809.217 1 ? ? ? ? 2 non-polymer syn "3'-DESAMINO-3'-(3-CYANO-4-MORPHOLINYL)-DOXORUBICIN" 638.619 1 ? ? ? ? 3 water nat water 18.015 61 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DA)(DT)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGATCG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "3'-DESAMINO-3'-(3-CYANO-4-MORPHOLINYL)-DOXORUBICIN" CMD 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DA n 1 4 DT n 1 5 DC n 1 6 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight CMD non-polymer . "3'-DESAMINO-3'-(3-CYANO-4-MORPHOLINYL)-DOXORUBICIN" ? 'C32 H34 N2 O12' 638.619 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 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DT 4 4 4 DT T A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 CMD 1 7 7 CMD CMD A . C 3 HOH 1 8 8 HOH HOH A . C 3 HOH 2 9 9 HOH HOH A . C 3 HOH 3 10 10 HOH HOH A . C 3 HOH 4 11 11 HOH HOH A . C 3 HOH 5 12 12 HOH HOH A . C 3 HOH 6 13 13 HOH HOH A . C 3 HOH 7 14 14 HOH HOH A . C 3 HOH 8 15 15 HOH HOH A . C 3 HOH 9 16 16 HOH HOH A . C 3 HOH 10 17 17 HOH HOH A . C 3 HOH 11 18 18 HOH HOH A . C 3 HOH 12 19 19 HOH HOH A . C 3 HOH 13 20 20 HOH HOH A . C 3 HOH 14 21 21 HOH HOH A . C 3 HOH 15 22 22 HOH HOH A . C 3 HOH 16 23 23 HOH HOH A . C 3 HOH 17 24 24 HOH HOH A . C 3 HOH 18 25 25 HOH HOH A . C 3 HOH 19 26 26 HOH HOH A . C 3 HOH 20 27 27 HOH HOH A . C 3 HOH 21 28 28 HOH HOH A . C 3 HOH 22 29 29 HOH HOH A . C 3 HOH 23 30 30 HOH HOH A . C 3 HOH 24 31 31 HOH HOH A . C 3 HOH 25 32 32 HOH HOH A . C 3 HOH 26 33 33 HOH HOH A . C 3 HOH 27 34 34 HOH HOH A . C 3 HOH 28 35 35 HOH HOH A . C 3 HOH 29 36 36 HOH HOH A . C 3 HOH 30 37 37 HOH HOH A . C 3 HOH 31 38 38 HOH HOH A . C 3 HOH 32 39 39 HOH HOH A . C 3 HOH 33 40 40 HOH HOH A . C 3 HOH 34 41 41 HOH HOH A . C 3 HOH 35 42 42 HOH HOH A . C 3 HOH 36 43 43 HOH HOH A . C 3 HOH 37 44 44 HOH HOH A . C 3 HOH 38 45 45 HOH HOH A . C 3 HOH 39 46 46 HOH HOH A . C 3 HOH 40 47 47 HOH HOH A . C 3 HOH 41 48 48 HOH HOH A . C 3 HOH 42 49 49 HOH HOH A . C 3 HOH 43 50 50 HOH HOH A . C 3 HOH 44 51 51 HOH HOH A . C 3 HOH 45 52 52 HOH HOH A . C 3 HOH 46 53 53 HOH HOH A . C 3 HOH 47 54 54 HOH HOH A . C 3 HOH 48 55 55 HOH HOH A . C 3 HOH 49 56 56 HOH HOH A . C 3 HOH 50 57 57 HOH HOH A . C 3 HOH 51 58 58 HOH HOH A . C 3 HOH 52 59 59 HOH HOH A . C 3 HOH 53 60 60 HOH HOH A . C 3 HOH 54 61 61 HOH HOH A . C 3 HOH 55 62 62 HOH HOH A . C 3 HOH 56 63 63 HOH HOH A . C 3 HOH 57 64 64 HOH HOH A . C 3 HOH 58 65 65 HOH HOH A . C 3 HOH 59 66 66 HOH HOH A . C 3 HOH 60 67 67 HOH HOH A . C 3 HOH 61 68 68 HOH HOH A . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 236D _cell.length_a 28.186 _cell.length_b 28.186 _cell.length_c 53.352 _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 236D _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 # _exptl.entry_id 236D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.93 _exptl_crystal.density_percent_sol 58.00 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH 6.00 _exptl_crystal_grow.pdbx_details 'pH 6.00, VAPOR DIFFUSION' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 BACL2 ? ? ? 1 4 1 'NA CACODYLATE' ? ? ? 1 5 1 SPERMINE ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 298.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'RIGAKU AFC-5' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type RIGAKU _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 236D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high 1.700 _reflns.number_obs ? _reflns.number_all ? _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 236D _refine.ls_number_reflns_obs 1652 _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 1.800 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.2190000 _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 120 _refine_hist.pdbx_number_atoms_ligand 46 _refine_hist.number_atoms_solvent 61 _refine_hist.number_atoms_total 227 _refine_hist.d_res_high 1.800 _refine_hist.d_res_low . # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function n_bond_d 0.016 ? ? ? 'X-RAY DIFFRACTION' ? n_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_planar_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_hb_or_metal_coord ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_angle_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_angle_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_bond_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_dihedral_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_impr_tor ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_plane_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_chiral_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_singtor_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? n_multtor_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? n_xhyhbond_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 236D _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 236D _struct.title ;CRYSTAL STRUCTURE OF FOUR MORPHOLINO-DOXORUBICIN ANTICANCER DRUGS COMPLEXED WITH D(CGTACG) AND D(CGATCG): IMPLICATIONS IN DRUG-DNA CROSSLINK ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 236D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'RIGHT HANDED DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 236D _struct_ref.pdbx_db_accession 236D _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 236D _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 236D _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 6 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 6 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0.0000000000 -1.0000000000 0.0000000000 28.1860000000 -1.0000000000 0.0000000000 0.0000000000 28.1860000000 0.0000000000 0.0000000000 -1.0000000000 26.6760000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 1 A DG 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 1 A DG 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 1 A DG 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 A DT 4 N3 ? ? A DA 3 A DT 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 A DT 4 O4 ? ? A DA 3 A DT 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 A DA 3 N1 ? ? A DT 4 A DA 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 A DA 3 N6 ? ? A DT 4 A DA 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 2 N1 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 2 O6 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 2 N2 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 1 N3 ? ? A DG 6 A DC 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 1 O2 ? ? A DG 6 A DC 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 1 N4 ? ? A DG 6 A DC 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A CMD 7 ? 10 'BINDING SITE FOR RESIDUE CMD A 7' 1 ? ? ? ? ? ? ? # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 10 DC A 1 ? DC A 1 . ? 8_665 ? 2 AC1 10 DG A 2 ? DG A 2 . ? 8_665 ? 3 AC1 10 DA A 3 ? DA A 3 . ? 8_665 ? 4 AC1 10 DT A 4 ? DT A 4 . ? 1_555 ? 5 AC1 10 DT A 4 ? DT A 4 . ? 8_665 ? 6 AC1 10 DC A 5 ? DC A 5 . ? 1_555 ? 7 AC1 10 DG A 6 ? DG A 6 . ? 1_555 ? 8 AC1 10 HOH C . ? HOH A 43 . ? 1_555 ? 9 AC1 10 HOH C . ? HOH A 58 . ? 5_545 ? 10 AC1 10 HOH C . ? HOH A 61 . ? 1_555 ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 67 _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 A _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 67 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 7_555 _pdbx_validate_symm_contact.dist 1.60 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 P _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 DC _pdbx_validate_rmsd_bond.auth_seq_id_1 5 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 "O5'" _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DC _pdbx_validate_rmsd_bond.auth_seq_id_2 5 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.659 _pdbx_validate_rmsd_bond.bond_target_value 1.593 _pdbx_validate_rmsd_bond.bond_deviation 0.066 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.010 _pdbx_validate_rmsd_bond.linker_flag 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 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 118.52 121.90 -3.38 0.40 N 2 1 N1 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 122.55 118.90 3.65 0.60 N 3 1 "O5'" A DG 2 ? ? P A DG 2 ? ? OP1 A DG 2 ? ? 120.32 110.70 9.62 1.20 N 4 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 96.34 102.40 -6.06 0.80 N 5 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 114.92 108.30 6.62 0.30 N 6 1 N1 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 123.46 116.20 7.26 0.90 N 7 1 N3 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 113.03 119.90 -6.87 0.70 N 8 1 C5 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 123.68 128.60 -4.92 0.60 N 9 1 "O5'" A DA 3 ? ? P A DA 3 ? ? OP1 A DA 3 ? ? 118.67 110.70 7.97 1.20 N 10 1 C6 A DA 3 ? ? N1 A DA 3 ? ? C2 A DA 3 ? ? 125.05 118.60 6.45 0.60 N 11 1 N1 A DA 3 ? ? C2 A DA 3 ? ? N3 A DA 3 ? ? 123.89 129.30 -5.41 0.50 N 12 1 C5 A DA 3 ? ? C6 A DA 3 ? ? N1 A DA 3 ? ? 113.24 117.70 -4.46 0.50 N 13 1 "O5'" A DT 4 ? ? P A DT 4 ? ? OP1 A DT 4 ? ? 122.70 110.70 12.00 1.20 N 14 1 "C3'" A DT 4 ? ? "O3'" A DT 4 ? ? P A DC 5 ? ? 132.31 119.70 12.61 1.20 Y 15 1 "O5'" A DC 5 ? ? "C5'" A DC 5 ? ? "C4'" A DC 5 ? ? 102.78 109.40 -6.62 0.80 N 16 1 "C3'" A DC 5 ? ? "C2'" A DC 5 ? ? "C1'" A DC 5 ? ? 96.82 102.40 -5.58 0.80 N 17 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 118.62 108.30 10.32 0.30 N 18 1 C2 A DC 5 ? ? N3 A DC 5 ? ? C4 A DC 5 ? ? 123.39 119.90 3.49 0.50 N 19 1 "O4'" A DG 6 ? ? "C4'" A DG 6 ? ? "C3'" A DG 6 ? ? 101.69 104.50 -2.81 0.40 N 20 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.25 108.30 2.95 0.30 N 21 1 C5 A DG 6 ? ? C6 A DG 6 ? ? N1 A DG 6 ? ? 115.16 111.50 3.66 0.50 N 22 1 N3 A DG 6 ? ? C2 A DG 6 ? ? N2 A DG 6 ? ? 115.58 119.90 -4.32 0.70 N # _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 CMD C1 C Y N 1 CMD C2 C Y N 2 CMD C3 C Y N 3 CMD C4 C Y N 4 CMD O4 O N N 5 CMD C5 C Y N 6 CMD C6 C N N 7 CMD O6 O N N 8 CMD C7 C Y N 9 CMD C8 C Y N 10 CMD O8 O N N 11 CMD C9 C Y N 12 CMD C10 C N S 13 CMD O10 O N N 14 CMD C11 C N N 15 CMD C12 C N S 16 CMD O12 O N N 17 CMD C13 C N N 18 CMD O13 O N N 19 CMD C14 C N N 20 CMD O14 O N N 21 CMD C15 C N N 22 CMD C16 C Y N 23 CMD C17 C Y N 24 CMD O17 O N N 25 CMD C18 C Y N 26 CMD C19 C N N 27 CMD O19 O N N 28 CMD C20 C Y N 29 CMD C21 C N N 30 CMD "C1'" C N R 31 CMD "C2'" C N N 32 CMD "C3'" C N S 33 CMD "C4'" C N S 34 CMD "O4'" O N N 35 CMD "C5'" C N S 36 CMD "O5'" O N N 37 CMD "C6'" C N N 38 CMD "N3'" N N N 39 CMD C33 C N S 40 CMD C23 C N N 41 CMD O16 O N N 42 CMD C63 C N N 43 CMD C53 C N N 44 CMD C73 C N N 45 CMD N73 N N N 46 CMD H1 H N N 47 CMD H2 H N N 48 CMD H3 H N N 49 CMD HO8 H N N 50 CMD H10 H N N 51 CMD H111 H N N 52 CMD H112 H N N 53 CMD HO12 H N N 54 CMD H141 H N N 55 CMD H142 H N N 56 CMD HO14 H N N 57 CMD H151 H N N 58 CMD H152 H N N 59 CMD HO17 H N N 60 CMD H211 H N N 61 CMD H212 H N N 62 CMD H213 H N N 63 CMD "H1'" H N N 64 CMD "H2'1" H N N 65 CMD "H2'2" H N N 66 CMD "H3'" H N N 67 CMD "H4'" H N N 68 CMD "HO4'" H N N 69 CMD "H5'" H N N 70 CMD "H6'1" H N N 71 CMD "H6'2" H N N 72 CMD "H6'3" H N N 73 CMD H33 H N N 74 CMD H231 H N N 75 CMD H232 H N N 76 CMD H631 H N N 77 CMD H632 H N N 78 CMD H531 H N N 79 CMD H532 H N N 80 DA OP3 O N N 81 DA P P N N 82 DA OP1 O N N 83 DA OP2 O N N 84 DA "O5'" O N N 85 DA "C5'" C N N 86 DA "C4'" C N R 87 DA "O4'" O N N 88 DA "C3'" C N S 89 DA "O3'" O N N 90 DA "C2'" C N N 91 DA "C1'" C N R 92 DA N9 N Y N 93 DA C8 C Y N 94 DA N7 N Y N 95 DA C5 C Y N 96 DA C6 C Y N 97 DA N6 N N N 98 DA N1 N Y N 99 DA C2 C Y N 100 DA N3 N Y N 101 DA C4 C Y N 102 DA HOP3 H N N 103 DA HOP2 H N N 104 DA "H5'" H N N 105 DA "H5''" H N N 106 DA "H4'" H N N 107 DA "H3'" H N N 108 DA "HO3'" H N N 109 DA "H2'" H N N 110 DA "H2''" H N N 111 DA "H1'" H N N 112 DA H8 H N N 113 DA H61 H N N 114 DA H62 H N N 115 DA H2 H N N 116 DC OP3 O N N 117 DC P P N N 118 DC OP1 O N N 119 DC OP2 O N N 120 DC "O5'" O N N 121 DC "C5'" C N N 122 DC "C4'" C N R 123 DC "O4'" O N N 124 DC "C3'" C N S 125 DC "O3'" O N N 126 DC "C2'" C N N 127 DC "C1'" C N R 128 DC N1 N N N 129 DC C2 C N N 130 DC O2 O N N 131 DC N3 N N N 132 DC C4 C N N 133 DC N4 N N N 134 DC C5 C N N 135 DC C6 C N N 136 DC HOP3 H N N 137 DC HOP2 H N N 138 DC "H5'" H N N 139 DC "H5''" H N N 140 DC "H4'" H N N 141 DC "H3'" H N N 142 DC "HO3'" H N N 143 DC "H2'" H N N 144 DC "H2''" H N N 145 DC "H1'" H N N 146 DC H41 H N N 147 DC H42 H N N 148 DC H5 H N N 149 DC H6 H N N 150 DG OP3 O N N 151 DG P P N N 152 DG OP1 O N N 153 DG OP2 O N N 154 DG "O5'" O N N 155 DG "C5'" C N N 156 DG "C4'" C N R 157 DG "O4'" O N N 158 DG "C3'" C N S 159 DG "O3'" O N N 160 DG "C2'" C N N 161 DG "C1'" C N R 162 DG N9 N Y N 163 DG C8 C Y N 164 DG N7 N Y N 165 DG C5 C Y N 166 DG C6 C N N 167 DG O6 O N N 168 DG N1 N N N 169 DG C2 C N N 170 DG N2 N N N 171 DG N3 N N N 172 DG C4 C Y N 173 DG HOP3 H N N 174 DG HOP2 H N N 175 DG "H5'" H N N 176 DG "H5''" H N N 177 DG "H4'" H N N 178 DG "H3'" H N N 179 DG "HO3'" H N N 180 DG "H2'" H N N 181 DG "H2''" H N N 182 DG "H1'" H N N 183 DG H8 H N N 184 DG H1 H N N 185 DG H21 H N N 186 DG H22 H N N 187 DT OP3 O N N 188 DT P P N N 189 DT OP1 O N N 190 DT OP2 O N N 191 DT "O5'" O N N 192 DT "C5'" C N N 193 DT "C4'" C N R 194 DT "O4'" O N N 195 DT "C3'" C N S 196 DT "O3'" O N N 197 DT "C2'" C N N 198 DT "C1'" C N R 199 DT N1 N N N 200 DT C2 C N N 201 DT O2 O N N 202 DT N3 N N N 203 DT C4 C N N 204 DT O4 O N N 205 DT C5 C N N 206 DT C7 C N N 207 DT C6 C N N 208 DT HOP3 H N N 209 DT HOP2 H N N 210 DT "H5'" H N N 211 DT "H5''" H N N 212 DT "H4'" H N N 213 DT "H3'" H N N 214 DT "HO3'" H N N 215 DT "H2'" H N N 216 DT "H2''" H N N 217 DT "H1'" H N N 218 DT H3 H N N 219 DT H71 H N N 220 DT H72 H N N 221 DT H73 H N N 222 DT H6 H N N 223 HOH O O N N 224 HOH H1 H N N 225 HOH H2 H N N 226 # 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 CMD C1 C2 doub Y N 1 CMD C1 C20 sing Y N 2 CMD C1 H1 sing N N 3 CMD C2 C3 sing Y N 4 CMD C2 H2 sing N N 5 CMD C3 C4 doub Y N 6 CMD C3 H3 sing N N 7 CMD C4 O4 sing N N 8 CMD C4 C5 sing Y N 9 CMD O4 C21 sing N N 10 CMD C5 C6 sing N N 11 CMD C5 C20 doub Y N 12 CMD C6 O6 doub N N 13 CMD C6 C7 sing N N 14 CMD C7 C8 doub Y N 15 CMD C7 C18 sing Y N 16 CMD C8 O8 sing N N 17 CMD C8 C9 sing Y N 18 CMD O8 HO8 sing N N 19 CMD C9 C10 sing N N 20 CMD C9 C16 doub Y N 21 CMD C10 O10 sing N N 22 CMD C10 C11 sing N N 23 CMD C10 H10 sing N N 24 CMD O10 "C1'" sing N N 25 CMD C11 C12 sing N N 26 CMD C11 H111 sing N N 27 CMD C11 H112 sing N N 28 CMD C12 O12 sing N N 29 CMD C12 C13 sing N N 30 CMD C12 C15 sing N N 31 CMD O12 HO12 sing N N 32 CMD C13 O13 doub N N 33 CMD C13 C14 sing N N 34 CMD C14 O14 sing N N 35 CMD C14 H141 sing N N 36 CMD C14 H142 sing N N 37 CMD O14 HO14 sing N N 38 CMD C15 C16 sing N N 39 CMD C15 H151 sing N N 40 CMD C15 H152 sing N N 41 CMD C16 C17 sing Y N 42 CMD C17 O17 sing N N 43 CMD C17 C18 doub Y N 44 CMD O17 HO17 sing N N 45 CMD C18 C19 sing N N 46 CMD C19 O19 doub N N 47 CMD C19 C20 sing N N 48 CMD C21 H211 sing N N 49 CMD C21 H212 sing N N 50 CMD C21 H213 sing N N 51 CMD "C1'" "C2'" sing N N 52 CMD "C1'" "O5'" sing N N 53 CMD "C1'" "H1'" sing N N 54 CMD "C2'" "C3'" sing N N 55 CMD "C2'" "H2'1" sing N N 56 CMD "C2'" "H2'2" sing N N 57 CMD "C3'" "C4'" sing N N 58 CMD "C3'" "N3'" sing N N 59 CMD "C3'" "H3'" sing N N 60 CMD "C4'" "O4'" sing N N 61 CMD "C4'" "C5'" sing N N 62 CMD "C4'" "H4'" sing N N 63 CMD "O4'" "HO4'" sing N N 64 CMD "C5'" "O5'" sing N N 65 CMD "C5'" "C6'" sing N N 66 CMD "C5'" "H5'" sing N N 67 CMD "C6'" "H6'1" sing N N 68 CMD "C6'" "H6'2" sing N N 69 CMD "C6'" "H6'3" sing N N 70 CMD "N3'" C33 sing N N 71 CMD "N3'" C53 sing N N 72 CMD C33 C23 sing N N 73 CMD C33 C73 sing N N 74 CMD C33 H33 sing N N 75 CMD C23 O16 sing N N 76 CMD C23 H231 sing N N 77 CMD C23 H232 sing N N 78 CMD O16 C63 sing N N 79 CMD C63 C53 sing N N 80 CMD C63 H631 sing N N 81 CMD C63 H632 sing N N 82 CMD C53 H531 sing N N 83 CMD C53 H532 sing N N 84 CMD C73 N73 trip N N 85 DA OP3 P sing N N 86 DA OP3 HOP3 sing N N 87 DA P OP1 doub N N 88 DA P OP2 sing N N 89 DA P "O5'" sing N N 90 DA OP2 HOP2 sing N N 91 DA "O5'" "C5'" sing N N 92 DA "C5'" "C4'" sing N N 93 DA "C5'" "H5'" sing N N 94 DA "C5'" "H5''" sing N N 95 DA "C4'" "O4'" sing N N 96 DA "C4'" "C3'" sing N N 97 DA "C4'" "H4'" sing N N 98 DA "O4'" "C1'" sing N N 99 DA "C3'" "O3'" sing N N 100 DA "C3'" "C2'" sing N N 101 DA "C3'" "H3'" sing N N 102 DA "O3'" "HO3'" sing N N 103 DA "C2'" "C1'" sing N N 104 DA "C2'" "H2'" sing N N 105 DA "C2'" "H2''" sing N N 106 DA "C1'" N9 sing N N 107 DA "C1'" "H1'" sing N N 108 DA N9 C8 sing Y N 109 DA N9 C4 sing Y N 110 DA C8 N7 doub Y N 111 DA C8 H8 sing N N 112 DA N7 C5 sing Y N 113 DA C5 C6 sing Y N 114 DA C5 C4 doub Y N 115 DA C6 N6 sing N N 116 DA C6 N1 doub Y N 117 DA N6 H61 sing N N 118 DA N6 H62 sing N N 119 DA N1 C2 sing Y N 120 DA C2 N3 doub Y N 121 DA C2 H2 sing N N 122 DA N3 C4 sing Y N 123 DC OP3 P sing N N 124 DC OP3 HOP3 sing N N 125 DC P OP1 doub N N 126 DC P OP2 sing N N 127 DC P "O5'" sing N N 128 DC OP2 HOP2 sing N N 129 DC "O5'" "C5'" sing N N 130 DC "C5'" "C4'" sing N N 131 DC "C5'" "H5'" sing N N 132 DC "C5'" "H5''" sing N N 133 DC "C4'" "O4'" sing N N 134 DC "C4'" "C3'" sing N N 135 DC "C4'" "H4'" sing N N 136 DC "O4'" "C1'" sing N N 137 DC "C3'" "O3'" sing N N 138 DC "C3'" "C2'" sing N N 139 DC "C3'" "H3'" sing N N 140 DC "O3'" "HO3'" sing N N 141 DC "C2'" "C1'" sing N N 142 DC "C2'" "H2'" sing N N 143 DC "C2'" "H2''" sing N N 144 DC "C1'" N1 sing N N 145 DC "C1'" "H1'" sing N N 146 DC N1 C2 sing N N 147 DC N1 C6 sing N N 148 DC C2 O2 doub N N 149 DC C2 N3 sing N N 150 DC N3 C4 doub N N 151 DC C4 N4 sing N N 152 DC C4 C5 sing N N 153 DC N4 H41 sing N N 154 DC N4 H42 sing N N 155 DC C5 C6 doub N N 156 DC C5 H5 sing N N 157 DC C6 H6 sing N N 158 DG OP3 P sing N N 159 DG OP3 HOP3 sing N N 160 DG P OP1 doub N N 161 DG P OP2 sing N N 162 DG P "O5'" sing N N 163 DG OP2 HOP2 sing N N 164 DG "O5'" "C5'" sing N N 165 DG "C5'" "C4'" sing N N 166 DG "C5'" "H5'" sing N N 167 DG "C5'" "H5''" sing N N 168 DG "C4'" "O4'" sing N N 169 DG "C4'" "C3'" sing N N 170 DG "C4'" "H4'" sing N N 171 DG "O4'" "C1'" sing N N 172 DG "C3'" "O3'" sing N N 173 DG "C3'" "C2'" sing N N 174 DG "C3'" "H3'" sing N N 175 DG "O3'" "HO3'" sing N N 176 DG "C2'" "C1'" sing N N 177 DG "C2'" "H2'" sing N N 178 DG "C2'" "H2''" sing N N 179 DG "C1'" N9 sing N N 180 DG "C1'" "H1'" sing N N 181 DG N9 C8 sing Y N 182 DG N9 C4 sing Y N 183 DG C8 N7 doub Y N 184 DG C8 H8 sing N N 185 DG N7 C5 sing Y N 186 DG C5 C6 sing N N 187 DG C5 C4 doub Y N 188 DG C6 O6 doub N N 189 DG C6 N1 sing N N 190 DG N1 C2 sing N N 191 DG N1 H1 sing N N 192 DG C2 N2 sing N N 193 DG C2 N3 doub N N 194 DG N2 H21 sing N N 195 DG N2 H22 sing N N 196 DG N3 C4 sing N N 197 DT OP3 P sing N N 198 DT OP3 HOP3 sing N N 199 DT P OP1 doub N N 200 DT P OP2 sing N N 201 DT P "O5'" sing N N 202 DT OP2 HOP2 sing N N 203 DT "O5'" "C5'" sing N N 204 DT "C5'" "C4'" sing N N 205 DT "C5'" "H5'" sing N N 206 DT "C5'" "H5''" sing N N 207 DT "C4'" "O4'" sing N N 208 DT "C4'" "C3'" sing N N 209 DT "C4'" "H4'" sing N N 210 DT "O4'" "C1'" sing N N 211 DT "C3'" "O3'" sing N N 212 DT "C3'" "C2'" sing N N 213 DT "C3'" "H3'" sing N N 214 DT "O3'" "HO3'" sing N N 215 DT "C2'" "C1'" sing N N 216 DT "C2'" "H2'" sing N N 217 DT "C2'" "H2''" sing N N 218 DT "C1'" N1 sing N N 219 DT "C1'" "H1'" sing N N 220 DT N1 C2 sing N N 221 DT N1 C6 sing N N 222 DT C2 O2 doub N N 223 DT C2 N3 sing N N 224 DT N3 C4 sing N N 225 DT N3 H3 sing N N 226 DT C4 O4 doub N N 227 DT C4 C5 sing N N 228 DT C5 C7 sing N N 229 DT C5 C6 doub N N 230 DT C7 H71 sing N N 231 DT C7 H72 sing N N 232 DT C7 H73 sing N N 233 DT C6 H6 sing N N 234 HOH O H1 sing N N 235 HOH O H2 sing N N 236 # _ndb_struct_conf_na.entry_id 236D _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 A DG 6 8_665 0.114 -0.138 0.095 7.154 -0.087 -0.379 1 A_DC1:DG6_A A 1 ? A 6 ? 19 1 1 A DG 2 1_555 A DC 5 8_665 -0.075 -0.324 -0.153 -13.543 1.607 0.306 2 A_DG2:DC5_A A 2 ? A 5 ? 19 1 1 A DA 3 1_555 A DT 4 8_665 0.318 -0.153 -0.193 -9.483 -1.999 3.796 3 A_DA3:DT4_A A 3 ? A 4 ? 20 1 1 A DT 4 1_555 A DA 3 8_665 -0.318 -0.153 -0.193 9.483 -1.999 3.796 4 A_DT4:DA3_A A 4 ? A 3 ? 20 1 1 A DC 5 1_555 A DG 2 8_665 0.075 -0.324 -0.153 13.543 1.607 0.306 5 A_DC5:DG2_A A 5 ? A 2 ? 19 1 1 A DG 6 1_555 A DC 1 8_665 -0.114 -0.138 0.095 -7.154 -0.087 -0.379 6 A_DG6:DC1_A A 6 ? A 1 ? 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 A DG 6 8_665 A DG 2 1_555 A DC 5 8_665 1.151 0.936 7.012 1.891 -3.157 36.161 2.443 -1.281 6.958 -5.070 -3.037 36.341 1 AA_DC1DG2:DC5DG6_AA A 1 ? A 6 ? A 2 ? A 5 ? 1 A DG 2 1_555 A DC 5 8_665 A DA 3 1_555 A DT 4 8_665 -1.019 0.458 3.367 -1.843 2.120 32.936 0.432 1.466 3.439 3.731 3.243 33.052 2 AA_DG2DA3:DT4DC5_AA A 2 ? A 5 ? A 3 ? A 4 ? 1 A DA 3 1_555 A DT 4 8_665 A DT 4 1_555 A DA 3 8_665 0.000 -0.286 2.977 0.000 3.660 26.384 -1.488 0.000 2.912 7.971 0.000 26.632 3 AA_DA3DT4:DA3DT4_AA A 3 ? A 4 ? A 4 ? A 3 ? 1 A DT 4 1_555 A DA 3 8_665 A DC 5 1_555 A DG 2 8_665 1.019 0.458 3.367 1.843 2.120 32.936 0.432 -1.466 3.439 3.731 -3.243 33.052 4 AA_DT4DC5:DG2DA3_AA A 4 ? A 3 ? A 5 ? A 2 ? 1 A DC 5 1_555 A DG 2 8_665 A DG 6 1_555 A DC 1 8_665 -1.151 0.936 7.012 -1.891 -3.157 36.161 2.443 1.281 6.958 -5.070 3.037 36.341 5 AA_DC5DG6:DC1DG2_AA A 5 ? A 2 ? A 6 ? A 1 ? # _atom_sites.entry_id 236D _atom_sites.fract_transf_matrix[1][1] 0.035479 _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] 0.035479 _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] 0.018743 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_