data_1P20 # _entry.id 1P20 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 1P20 pdb_00001p20 10.2210/pdb1p20/pdb NDB DD0056 ? ? RCSB RCSB018914 ? ? WWPDB D_1000018914 ? ? # 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 2003-05-13 2 'Structure model' 1 1 2008-04-29 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-11 5 'Structure model' 1 4 2024-02-14 6 'Structure model' 1 5 2024-04-03 # _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' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' 7 6 '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 4 'Structure model' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 'Structure model' struct_site 8 6 'Structure model' pdbx_initial_refinement_model # 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' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 19 5 'Structure model' '_pdbx_struct_conn_angle.value' 20 5 'Structure model' '_struct_conn.pdbx_dist_value' 21 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 22 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 23 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 24 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 27 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 28 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 29 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 30 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 31 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 32 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 33 5 'Structure model' '_struct_conn.ptnr2_symmetry' 34 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 35 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 36 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1P20 _pdbx_database_status.recvd_initial_deposition_date 2003-04-14 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Howerton, S.B.' 1 'Nagpal, A.' 2 'Williams, L.D.' 3 # _citation.id primary _citation.title 'Surprising Roles of Electrostatic Interactions in DNA-Ligand Complexes' _citation.journal_abbrev Biopolymers _citation.journal_volume 69 _citation.page_first 87 _citation.page_last 99 _citation.year 2003 _citation.journal_id_ASTM BIPMAA _citation.country US _citation.journal_id_ISSN 0006-3525 _citation.journal_id_CSD 0161 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 12717724 _citation.pdbx_database_id_DOI 10.1002/bip.10319 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Howerton, S.B.' 1 ? primary 'Nagpal, A.' 2 ? primary 'Williams, L.D.' 3 ? # 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 "5'-D(*CP*GP*AP*TP*CP*G)-3'" 1809.217 1 ? ? ? ? 2 non-polymer syn DOXORUBICIN 543.519 1 ? ? ? ? 3 non-polymer syn 'THALLIUM (I) ION' 204.383 3 ? ? ? ? 4 water nat water 18.015 58 ? ? ? ? # _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 DOXORUBICIN DM2 3 'THALLIUM (I) ION' TL 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DA n 1 4 DT n 1 5 DC n 1 6 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DM2 non-polymer . DOXORUBICIN ADRIAMYCIN 'C27 H29 N O11' 543.519 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 TL non-polymer . 'THALLIUM (I) ION' ? 'Tl 1' 204.383 # 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 DM2 1 7 7 DM2 DM2 A . C 3 TL 1 8 1 TL TL A . D 3 TL 1 9 2 TL TL A . E 3 TL 1 10 3 TL TL A . F 4 HOH 1 11 10 HOH HOH A . F 4 HOH 2 12 11 HOH HOH A . F 4 HOH 3 13 12 HOH HOH A . F 4 HOH 4 14 13 HOH HOH A . F 4 HOH 5 15 15 HOH HOH A . F 4 HOH 6 16 16 HOH HOH A . F 4 HOH 7 17 17 HOH HOH A . F 4 HOH 8 18 18 HOH HOH A . F 4 HOH 9 19 19 HOH HOH A . F 4 HOH 10 20 20 HOH HOH A . F 4 HOH 11 21 21 HOH HOH A . F 4 HOH 12 22 22 HOH HOH A . F 4 HOH 13 23 23 HOH HOH A . F 4 HOH 14 24 24 HOH HOH A . F 4 HOH 15 25 25 HOH HOH A . F 4 HOH 16 26 26 HOH HOH A . F 4 HOH 17 27 27 HOH HOH A . F 4 HOH 18 28 28 HOH HOH A . F 4 HOH 19 29 29 HOH HOH A . F 4 HOH 20 30 30 HOH HOH A . F 4 HOH 21 31 31 HOH HOH A . F 4 HOH 22 32 32 HOH HOH A . F 4 HOH 23 33 33 HOH HOH A . F 4 HOH 24 34 34 HOH HOH A . F 4 HOH 25 35 35 HOH HOH A . F 4 HOH 26 36 36 HOH HOH A . F 4 HOH 27 37 37 HOH HOH A . F 4 HOH 28 38 38 HOH HOH A . F 4 HOH 29 39 39 HOH HOH A . F 4 HOH 30 40 40 HOH HOH A . F 4 HOH 31 41 41 HOH HOH A . F 4 HOH 32 42 42 HOH HOH A . F 4 HOH 33 43 43 HOH HOH A . F 4 HOH 34 44 44 HOH HOH A . F 4 HOH 35 45 45 HOH HOH A . F 4 HOH 36 46 46 HOH HOH A . F 4 HOH 37 47 48 HOH HOH A . F 4 HOH 38 48 50 HOH HOH A . F 4 HOH 39 49 51 HOH HOH A . F 4 HOH 40 50 53 HOH HOH A . F 4 HOH 41 51 54 HOH HOH A . F 4 HOH 42 52 55 HOH HOH A . F 4 HOH 43 53 56 HOH HOH A . F 4 HOH 44 54 57 HOH HOH A . F 4 HOH 45 55 60 HOH HOH A . F 4 HOH 46 56 61 HOH HOH A . F 4 HOH 47 57 62 HOH HOH A . F 4 HOH 48 58 64 HOH HOH A . F 4 HOH 49 59 65 HOH HOH A . F 4 HOH 50 60 66 HOH HOH A . F 4 HOH 51 61 68 HOH HOH A . F 4 HOH 52 62 69 HOH HOH A . F 4 HOH 53 63 70 HOH HOH A . F 4 HOH 54 64 71 HOH HOH A . F 4 HOH 55 65 74 HOH HOH A . F 4 HOH 56 66 79 HOH HOH A . F 4 HOH 57 67 80 HOH HOH A . F 4 HOH 58 68 81 HOH HOH A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement . ? 1 CNS phasing . ? 2 # _cell.entry_id 1P20 _cell.length_a 27.894 _cell.length_b 27.894 _cell.length_c 52.270 _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 1P20 _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.cell_setting tetragonal _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.Int_Tables_number 92 # _exptl.entry_id 1P20 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.69 _exptl_crystal.density_percent_sol 54.29 _exptl_crystal.density_meas ? _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 295 _exptl_crystal_grow.pH 6.4 _exptl_crystal_grow.pdbx_details 'd(CGATCG), Tl acetate, Mg acetate, MPD, spermine acetate, adriamycin, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K' _exptl_crystal_grow.temp_details ? _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.conc _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.details 1 1 1 'Tl acetate' ? ? ? 1 2 1 'Mg acetate' ? ? ? 1 3 1 'spermine acetate' ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 93 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV' _diffrn_detector.pdbx_collection_date 2001-08-03 _diffrn_detector.details 'Osmic blue multilayer confocal' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _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 RUH3R' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 # _reflns.entry_id 1P20 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 1.26 _reflns.d_resolution_low 100 _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.number_obs ? _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1P20 _refine.ls_d_res_high 1.34 _refine.ls_d_res_low 35 _refine.pdbx_ls_sigma_F 2.0 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 5559 _refine.ls_number_reflns_obs 4302 _refine.ls_number_reflns_R_free 457 _refine.ls_percent_reflns_obs 85.5 _refine.ls_R_factor_all 0.189 _refine.ls_R_factor_obs 0.189 _refine.ls_R_factor_R_work 0.193 _refine.ls_R_factor_R_free 0.215 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_R_free 10.6 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 'NDB Entry DDF044' _refine.pdbx_ls_cross_valid_method 'throughout refinement except final round' _refine.pdbx_R_Free_selection_details random _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values 'Parkinson & Berman, 1996' _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model isotropic _refine.B_iso_mean 13.8 _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.details ? _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.overall_SU_B ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 120 _refine_hist.pdbx_number_atoms_ligand 42 _refine_hist.number_atoms_solvent 58 _refine_hist.number_atoms_total 220 _refine_hist.d_res_high 1.34 _refine_hist.d_res_low 35 # 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 c_angle_deg 1.67 ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d 0.02 ? ? ? 'X-RAY DIFFRACTION' ? # _struct.entry_id 1P20 _struct.title 'Surprising Roles of Electrostatic Interactions in DNA-Ligand Complexes' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1P20 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'adriamycin, intercalation, electrostatics, thallium, 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 3 ? F N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1P20 _struct_ref.pdbx_db_accession 1P20 _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 1P20 _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 1P20 _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,D,E,F # 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 27.8940000000 -1.0000000000 0.0000000000 0.0000000000 27.8940000000 0.0000000000 0.0000000000 -1.0000000000 26.1350000000 # _struct_biol.id 1 _struct_biol.details 'The second part of the biological assembly is generated by the two fold axis: -Y,-X,1/2-Z' _struct_biol.pdbx_parent_biol_id ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? A DG 2 O6 ? ? ? 1_555 D TL . TL ? ? A DG 2 A TL 9 1_555 ? ? ? ? ? ? ? 2.910 ? ? metalc2 metalc ? ? A DG 2 N7 ? ? ? 1_555 D TL . TL ? ? A DG 2 A TL 9 1_555 ? ? ? ? ? ? ? 2.804 ? ? metalc3 metalc ? ? A DG 6 O6 ? ? ? 1_555 C TL . TL ? ? A DG 6 A TL 8 1_555 ? ? ? ? ? ? ? 2.897 ? ? metalc4 metalc ? ? A DG 6 N7 ? ? ? 1_555 C TL . TL ? ? A DG 6 A TL 8 1_555 ? ? ? ? ? ? ? 2.753 ? ? metalc5 metalc ? ? A DG 6 N7 ? ? ? 1_555 E TL . TL ? ? A DG 6 A TL 10 1_555 ? ? ? ? ? ? ? 2.719 ? ? metalc6 metalc ? ? B DM2 . O6 ? ? ? 1_555 C TL . TL ? ? A DM2 7 A TL 8 1_555 ? ? ? ? ? ? ? 3.111 ? ? metalc7 metalc ? ? B DM2 . O4 ? ? ? 1_555 C TL . TL ? ? A DM2 7 A TL 8 1_555 ? ? ? ? ? ? ? 3.107 ? ? metalc8 metalc ? ? B DM2 . O4 ? ? ? 1_555 E TL . TL ? ? A DM2 7 A TL 10 1_555 ? ? ? ? ? ? ? 3.145 ? ? metalc9 metalc ? ? B DM2 . O6 ? ? ? 1_555 E TL . TL ? ? A DM2 7 A TL 10 1_555 ? ? ? ? ? ? ? 3.035 ? ? metalc10 metalc ? ? D TL . TL ? ? ? 1_555 F HOH . O ? ? A TL 9 A HOH 29 8_665 ? ? ? ? ? ? ? 2.701 ? ? metalc11 metalc ? ? D TL . TL ? ? ? 1_555 F HOH . O ? ? A TL 9 A HOH 55 1_555 ? ? ? ? ? ? ? 2.388 ? ? metalc12 metalc ? ? D TL . TL ? ? ? 1_555 F HOH . O ? ? A TL 9 A HOH 68 1_555 ? ? ? ? ? ? ? 1.846 ? ? metalc13 metalc ? ? E TL . TL ? ? ? 1_555 F HOH . O ? ? A TL 10 A HOH 59 1_555 ? ? ? ? ? ? ? 2.292 ? ? 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 ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O6 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 N7 ? A DG 2 ? A DG 2 ? 1_555 66.0 ? 2 O6 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 29 ? 8_665 63.2 ? 3 N7 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 29 ? 8_665 80.1 ? 4 O6 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 55 ? 1_555 127.8 ? 5 N7 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 55 ? 1_555 72.3 ? 6 O ? F HOH . ? A HOH 29 ? 8_665 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 55 ? 1_555 80.3 ? 7 O6 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 68 ? 1_555 113.9 ? 8 N7 ? A DG 2 ? A DG 2 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 68 ? 1_555 96.1 ? 9 O ? F HOH . ? A HOH 29 ? 8_665 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 68 ? 1_555 175.9 ? 10 O ? F HOH . ? A HOH 55 ? 1_555 TL ? D TL . ? A TL 9 ? 1_555 O ? F HOH . ? A HOH 68 ? 1_555 100.2 ? 11 O6 ? A DG 6 ? A DG 6 ? 1_555 TL ? C TL . ? A TL 8 ? 1_555 N7 ? A DG 6 ? A DG 6 ? 1_555 66.4 ? 12 O6 ? A DG 6 ? A DG 6 ? 1_555 TL ? C TL . ? A TL 8 ? 1_555 O6 ? B DM2 . ? A DM2 7 ? 1_555 70.2 ? 13 N7 ? A DG 6 ? A DG 6 ? 1_555 TL ? C TL . ? A TL 8 ? 1_555 O6 ? B DM2 . ? A DM2 7 ? 1_555 71.8 ? 14 O6 ? A DG 6 ? A DG 6 ? 1_555 TL ? C TL . ? A TL 8 ? 1_555 O4 ? B DM2 . ? A DM2 7 ? 1_555 99.8 ? 15 N7 ? A DG 6 ? A DG 6 ? 1_555 TL ? C TL . ? A TL 8 ? 1_555 O4 ? B DM2 . ? A DM2 7 ? 1_555 120.2 ? 16 O6 ? B DM2 . ? A DM2 7 ? 1_555 TL ? C TL . ? A TL 8 ? 1_555 O4 ? B DM2 . ? A DM2 7 ? 1_555 49.7 ? 17 N7 ? A DG 6 ? A DG 6 ? 1_555 TL ? E TL . ? A TL 10 ? 1_555 O4 ? B DM2 . ? A DM2 7 ? 1_555 120.0 ? 18 N7 ? A DG 6 ? A DG 6 ? 1_555 TL ? E TL . ? A TL 10 ? 1_555 O6 ? B DM2 . ? A DM2 7 ? 1_555 73.5 ? 19 O4 ? B DM2 . ? A DM2 7 ? 1_555 TL ? E TL . ? A TL 10 ? 1_555 O6 ? B DM2 . ? A DM2 7 ? 1_555 50.0 ? 20 N7 ? A DG 6 ? A DG 6 ? 1_555 TL ? E TL . ? A TL 10 ? 1_555 O ? F HOH . ? A HOH 59 ? 1_555 102.6 ? 21 O4 ? B DM2 . ? A DM2 7 ? 1_555 TL ? E TL . ? A TL 10 ? 1_555 O ? F HOH . ? A HOH 59 ? 1_555 113.0 ? 22 O6 ? B DM2 . ? A DM2 7 ? 1_555 TL ? E TL . ? A TL 10 ? 1_555 O ? F HOH . ? A HOH 59 ? 1_555 110.0 ? # 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 DM2 7 ? 16 'BINDING SITE FOR RESIDUE DM2 A 7' AC2 Software A TL 8 ? 3 'BINDING SITE FOR RESIDUE TL A 8' AC3 Software A TL 9 ? 4 'BINDING SITE FOR RESIDUE TL A 9' AC4 Software A TL 10 ? 4 'BINDING SITE FOR RESIDUE TL A 10' # 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 16 DC A 1 ? DC A 1 . ? 8_665 ? 2 AC1 16 DG A 2 ? DG A 2 . ? 8_665 ? 3 AC1 16 DA A 3 ? DA A 3 . ? 8_665 ? 4 AC1 16 DT A 4 ? DT A 4 . ? 1_555 ? 5 AC1 16 DC A 5 ? DC A 5 . ? 1_555 ? 6 AC1 16 DG A 6 ? DG A 6 . ? 1_555 ? 7 AC1 16 TL C . ? TL A 8 . ? 1_555 ? 8 AC1 16 TL E . ? TL A 10 . ? 1_555 ? 9 AC1 16 HOH F . ? HOH A 13 . ? 1_555 ? 10 AC1 16 HOH F . ? HOH A 19 . ? 1_555 ? 11 AC1 16 HOH F . ? HOH A 32 . ? 1_555 ? 12 AC1 16 HOH F . ? HOH A 39 . ? 1_555 ? 13 AC1 16 HOH F . ? HOH A 40 . ? 1_555 ? 14 AC1 16 HOH F . ? HOH A 60 . ? 1_555 ? 15 AC1 16 HOH F . ? HOH A 67 . ? 1_555 ? 16 AC1 16 HOH F . ? HOH A 68 . ? 8_665 ? 17 AC2 3 DG A 6 ? DG A 6 . ? 1_555 ? 18 AC2 3 DM2 B . ? DM2 A 7 . ? 1_555 ? 19 AC2 3 TL E . ? TL A 10 . ? 1_555 ? 20 AC3 4 DG A 2 ? DG A 2 . ? 1_555 ? 21 AC3 4 HOH F . ? HOH A 29 . ? 8_665 ? 22 AC3 4 HOH F . ? HOH A 55 . ? 1_555 ? 23 AC3 4 HOH F . ? HOH A 68 . ? 1_555 ? 24 AC4 4 DG A 6 ? DG A 6 . ? 1_555 ? 25 AC4 4 DM2 B . ? DM2 A 7 . ? 1_555 ? 26 AC4 4 TL C . ? TL A 8 . ? 1_555 ? 27 AC4 4 HOH F . ? HOH A 59 . ? 1_555 ? # 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 "O3'" A DA 3 ? ? "C3'" A DA 3 ? ? 1.380 1.419 -0.039 0.006 N 2 1 P A DG 6 ? ? OP2 A DG 6 ? ? 1.365 1.485 -0.120 0.017 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 5 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.103 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DM2 C1 C Y N 108 DM2 C2 C Y N 109 DM2 C3 C Y N 110 DM2 C4 C Y N 111 DM2 O4 O N N 112 DM2 C5 C Y N 113 DM2 C6 C N N 114 DM2 O6 O N N 115 DM2 C7 C Y N 116 DM2 C8 C Y N 117 DM2 O8 O N N 118 DM2 C9 C Y N 119 DM2 C10 C N S 120 DM2 O10 O N N 121 DM2 C11 C N N 122 DM2 C12 C N S 123 DM2 O12 O N N 124 DM2 C13 C N N 125 DM2 O13 O N N 126 DM2 C14 C N N 127 DM2 O14 O N N 128 DM2 C15 C N N 129 DM2 C16 C Y N 130 DM2 C17 C Y N 131 DM2 O17 O N N 132 DM2 C18 C Y N 133 DM2 C19 C N N 134 DM2 O19 O N N 135 DM2 C20 C Y N 136 DM2 C21 C N N 137 DM2 "C1'" C N R 138 DM2 "C2'" C N N 139 DM2 "C3'" C N S 140 DM2 "N3'" N N N 141 DM2 "C4'" C N S 142 DM2 "O4'" O N N 143 DM2 "C5'" C N S 144 DM2 "O5'" O N N 145 DM2 "C6'" C N N 146 DM2 H1 H N N 147 DM2 H2 H N N 148 DM2 H3 H N N 149 DM2 HO8 H N N 150 DM2 H10 H N N 151 DM2 H111 H N N 152 DM2 H112 H N N 153 DM2 HO12 H N N 154 DM2 H141 H N N 155 DM2 H142 H N N 156 DM2 HO14 H N N 157 DM2 H151 H N N 158 DM2 H152 H N N 159 DM2 HO17 H N N 160 DM2 H211 H N N 161 DM2 H212 H N N 162 DM2 H213 H N N 163 DM2 "H1'" H N N 164 DM2 "H2'1" H N N 165 DM2 "H2'2" H N N 166 DM2 "H3'" H N N 167 DM2 "HN'1" H N N 168 DM2 "HN'2" H N N 169 DM2 "H4'" H N N 170 DM2 "HO4'" H N N 171 DM2 "H5'" H N N 172 DM2 "H6'1" H N N 173 DM2 "H6'2" H N N 174 DM2 "H6'3" H N N 175 DT OP3 O N N 176 DT P P N N 177 DT OP1 O N N 178 DT OP2 O N N 179 DT "O5'" O N N 180 DT "C5'" C N N 181 DT "C4'" C N R 182 DT "O4'" O N N 183 DT "C3'" C N S 184 DT "O3'" O N N 185 DT "C2'" C N N 186 DT "C1'" C N R 187 DT N1 N N N 188 DT C2 C N N 189 DT O2 O N N 190 DT N3 N N N 191 DT C4 C N N 192 DT O4 O N N 193 DT C5 C N N 194 DT C7 C N N 195 DT C6 C N N 196 DT HOP3 H N N 197 DT HOP2 H N N 198 DT "H5'" H N N 199 DT "H5''" H N N 200 DT "H4'" H N N 201 DT "H3'" H N N 202 DT "HO3'" H N N 203 DT "H2'" H N N 204 DT "H2''" H N N 205 DT "H1'" H N N 206 DT H3 H N N 207 DT H71 H N N 208 DT H72 H N N 209 DT H73 H N N 210 DT H6 H N N 211 HOH O O N N 212 HOH H1 H N N 213 HOH H2 H N N 214 TL TL TL N N 215 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DM2 C1 C2 doub Y N 113 DM2 C1 C20 sing Y N 114 DM2 C1 H1 sing N N 115 DM2 C2 C3 sing Y N 116 DM2 C2 H2 sing N N 117 DM2 C3 C4 doub Y N 118 DM2 C3 H3 sing N N 119 DM2 C4 O4 sing N N 120 DM2 C4 C5 sing Y N 121 DM2 O4 C21 sing N N 122 DM2 C5 C6 sing N N 123 DM2 C5 C20 doub Y N 124 DM2 C6 O6 doub N N 125 DM2 C6 C7 sing N N 126 DM2 C7 C8 doub Y N 127 DM2 C7 C18 sing Y N 128 DM2 C8 O8 sing N N 129 DM2 C8 C9 sing Y N 130 DM2 O8 HO8 sing N N 131 DM2 C9 C10 sing N N 132 DM2 C9 C16 doub Y N 133 DM2 C10 O10 sing N N 134 DM2 C10 C11 sing N N 135 DM2 C10 H10 sing N N 136 DM2 O10 "C1'" sing N N 137 DM2 C11 C12 sing N N 138 DM2 C11 H111 sing N N 139 DM2 C11 H112 sing N N 140 DM2 C12 O12 sing N N 141 DM2 C12 C13 sing N N 142 DM2 C12 C15 sing N N 143 DM2 O12 HO12 sing N N 144 DM2 C13 O13 doub N N 145 DM2 C13 C14 sing N N 146 DM2 C14 O14 sing N N 147 DM2 C14 H141 sing N N 148 DM2 C14 H142 sing N N 149 DM2 O14 HO14 sing N N 150 DM2 C15 C16 sing N N 151 DM2 C15 H151 sing N N 152 DM2 C15 H152 sing N N 153 DM2 C16 C17 sing Y N 154 DM2 C17 O17 sing N N 155 DM2 C17 C18 doub Y N 156 DM2 O17 HO17 sing N N 157 DM2 C18 C19 sing N N 158 DM2 C19 O19 doub N N 159 DM2 C19 C20 sing N N 160 DM2 C21 H211 sing N N 161 DM2 C21 H212 sing N N 162 DM2 C21 H213 sing N N 163 DM2 "C1'" "C2'" sing N N 164 DM2 "C1'" "O5'" sing N N 165 DM2 "C1'" "H1'" sing N N 166 DM2 "C2'" "C3'" sing N N 167 DM2 "C2'" "H2'1" sing N N 168 DM2 "C2'" "H2'2" sing N N 169 DM2 "C3'" "N3'" sing N N 170 DM2 "C3'" "C4'" sing N N 171 DM2 "C3'" "H3'" sing N N 172 DM2 "N3'" "HN'1" sing N N 173 DM2 "N3'" "HN'2" sing N N 174 DM2 "C4'" "O4'" sing N N 175 DM2 "C4'" "C5'" sing N N 176 DM2 "C4'" "H4'" sing N N 177 DM2 "O4'" "HO4'" sing N N 178 DM2 "C5'" "O5'" sing N N 179 DM2 "C5'" "C6'" sing N N 180 DM2 "C5'" "H5'" sing N N 181 DM2 "C6'" "H6'1" sing N N 182 DM2 "C6'" "H6'2" sing N N 183 DM2 "C6'" "H6'3" sing N N 184 DT OP3 P sing N N 185 DT OP3 HOP3 sing N N 186 DT P OP1 doub N N 187 DT P OP2 sing N N 188 DT P "O5'" sing N N 189 DT OP2 HOP2 sing N N 190 DT "O5'" "C5'" sing N N 191 DT "C5'" "C4'" sing N N 192 DT "C5'" "H5'" sing N N 193 DT "C5'" "H5''" sing N N 194 DT "C4'" "O4'" sing N N 195 DT "C4'" "C3'" sing N N 196 DT "C4'" "H4'" sing N N 197 DT "O4'" "C1'" sing N N 198 DT "C3'" "O3'" sing N N 199 DT "C3'" "C2'" sing N N 200 DT "C3'" "H3'" sing N N 201 DT "O3'" "HO3'" sing N N 202 DT "C2'" "C1'" sing N N 203 DT "C2'" "H2'" sing N N 204 DT "C2'" "H2''" sing N N 205 DT "C1'" N1 sing N N 206 DT "C1'" "H1'" sing N N 207 DT N1 C2 sing N N 208 DT N1 C6 sing N N 209 DT C2 O2 doub N N 210 DT C2 N3 sing N N 211 DT N3 C4 sing N N 212 DT N3 H3 sing N N 213 DT C4 O4 doub N N 214 DT C4 C5 sing N N 215 DT C5 C7 sing N N 216 DT C5 C6 doub N N 217 DT C7 H71 sing N N 218 DT C7 H72 sing N N 219 DT C7 H73 sing N N 220 DT C6 H6 sing N N 221 HOH O H1 sing N N 222 HOH O H2 sing N N 223 # _ndb_struct_conf_na.entry_id 1P20 _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 0.196 -0.109 -0.108 8.097 1.792 -1.941 1 A_DC1:DG6_A A 1 ? A 6 ? 19 1 1 A DG 2 1_555 A DC 5 8_665 -0.238 0.028 -0.442 -19.632 -0.319 2.789 2 A_DG2:DC5_A A 2 ? A 5 ? 19 1 1 A DA 3 1_555 A DT 4 8_665 0.028 -0.140 0.086 -8.446 -3.698 1.951 3 A_DA3:DT4_A A 3 ? A 4 ? 20 1 1 A DT 4 1_555 A DA 3 8_665 -0.028 -0.140 0.086 8.446 -3.699 1.951 4 A_DT4:DA3_A A 4 ? A 3 ? 20 1 1 A DC 5 1_555 A DG 2 8_665 0.238 0.028 -0.442 19.632 -0.319 2.789 5 A_DC5:DG2_A A 5 ? A 2 ? 19 1 1 A DG 6 1_555 A DC 1 8_665 -0.196 -0.109 -0.108 -8.097 1.792 -1.941 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 1.471 1.249 7.071 1.785 -2.294 34.673 2.844 -1.872 7.041 -3.841 -2.988 34.791 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 -1.418 0.418 3.071 -5.639 -0.298 31.054 0.823 1.584 3.267 -0.551 10.424 31.550 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 -0.694 3.041 0.000 3.566 32.834 -1.777 0.000 2.951 6.285 0.000 33.022 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 1.418 0.418 3.071 5.639 -0.298 31.053 0.823 -1.584 3.267 -0.551 -10.424 31.550 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 -1.471 1.249 7.071 -1.785 -2.294 34.673 2.844 1.872 7.041 -3.842 2.988 34.791 5 AA_DC5DG6:DC1DG2_AA A 5 ? A 2 ? A 6 ? A 1 ? # _pdbx_initial_refinement_model.accession_code 151D _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details 'NDB Entry DDF044' # _atom_sites.entry_id 1P20 _atom_sites.fract_transf_matrix[1][1] 0.035850 _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] 0.035850 _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] 0.019131 _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 TL # loop_