data_3GO3 # _entry.id 3GO3 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.281 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3GO3 NDB DD0107 RCSB RCSB052102 WWPDB D_1000052102 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 185D unspecified 'SOLUTION STRUCTURE OF D(GACGTC) COMPLEXED WITH TRIOSTIN A' PDB 193D unspecified 'SOLUTION STRUCTURE OF D(ACACGTGT) COMPLEXED WITH QUINOMYCIN UK-6305' PDB 1PFE unspecified 'CRYSTAL STRUCTURE OF D(GCGTACG) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P6322' PDB 1VS2 unspecified 'CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH TRIOSIN A' PDB 1XVK unspecified 'CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P632' PDB 1XVN unspecified 'CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P632' PDB 1XVR unspecified 'CRYSTAL STRUCTURE OF D(CGTACG) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP C21' PDB 2ADW unspecified 'CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P42212' PDB 2DA8 unspecified 'SOLUTION STRUCTURE OF D(GATATC) COMPLEXED WITH A MODIFIED TRIOSTIN A AT POSITIONS 4 AND 8' # _pdbx_database_status.entry_id 3GO3 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2009-03-18 _pdbx_database_status.status_code REL _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 # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Pfoh, R.' 1 'Cuesta-Seijo, J.A.' 2 'Sheldrick, G.M.' 3 # _citation.id primary _citation.title 'Interaction of an Echinomycin-DNA Complex with Manganese Ion' _citation.journal_abbrev 'Acta Crystallogr.,Sect.F' _citation.journal_volume 65 _citation.page_first 660 _citation.page_last ? _citation.year 2009 _citation.journal_id_ASTM ? _citation.country DK _citation.journal_id_ISSN 1744-3091 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 19574634 _citation.pdbx_database_id_DOI 10.1107/S1744309109019654 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Pfoh, R.' 1 primary 'Cuesta-Seijo, J.A.' 2 primary 'Sheldrick, G.M.' 3 # _cell.entry_id 3GO3 _cell.length_a 26.544 _cell.length_b 26.544 _cell.length_c 162.129 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _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 3GO3 _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 _symmetry.space_group_name_Hall ? # 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(*AP*CP*GP*TP*AP*CP*GP*T)-3'" 2426.617 2 ? ? ? ? 2 polymer nat ECHINOMYCIN 809.008 2 ? ? ? ? 3 non-polymer syn 'MANGANESE (II) ION' 54.938 2 ? ? ? ? 4 non-polymer syn 'DI(HYDROXYETHYL)ETHER' 106.120 1 ? ? ? ? 5 non-polymer syn 2-CARBOXYQUINOXALINE 174.156 4 ? ? ? ? 6 water nat water 18.015 45 ? ? ? ? # _entity_name_com.entity_id 2 _entity_name_com.name 'QUINOMYCIN A' # 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 '(DA)(DC)(DG)(DT)(DA)(DC)(DG)(DT)' ACGTACGT A,B ? 2 'polypeptide(L)' no yes '(DSN)A(N2C)(MVA)(DSN)A(NCY)(MVA)' SAXVSAXV C,D ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DA n 1 2 DC n 1 3 DG n 1 4 DT n 1 5 DA n 1 6 DC n 1 7 DG n 1 8 DT n 2 1 DSN n 2 2 ALA n 2 3 N2C y 2 3 NCY y 2 4 MVA n 2 5 DSN n 2 6 ALA n 2 7 NCY y 2 7 N2C y 2 8 MVA n # _entity_src_nat.entity_id 2 _entity_src_nat.pdbx_src_id 1 _entity_src_nat.pdbx_alt_source_flag sample _entity_src_nat.pdbx_beg_seq_num ? _entity_src_nat.pdbx_end_seq_num ? _entity_src_nat.common_name ? _entity_src_nat.pdbx_organism_scientific 'STREPTOMYCES ECHINATUS' _entity_src_nat.pdbx_ncbi_taxonomy_id 67293 _entity_src_nat.genus ? _entity_src_nat.species ? _entity_src_nat.strain ? _entity_src_nat.tissue ? _entity_src_nat.tissue_fraction ? _entity_src_nat.pdbx_secretion ? _entity_src_nat.pdbx_fragment ? _entity_src_nat.pdbx_variant ? _entity_src_nat.pdbx_cell_line ? _entity_src_nat.pdbx_atcc ? _entity_src_nat.pdbx_cellular_location ? _entity_src_nat.pdbx_organ ? _entity_src_nat.pdbx_organelle ? _entity_src_nat.pdbx_cell ? _entity_src_nat.pdbx_plasmid_name ? _entity_src_nat.pdbx_plasmid_details ? _entity_src_nat.details ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform 1 PDB 3GO3 1 ? ? 3GO3 ? 2 NOR NOR01126 2 ? ? NOR01126 ? # 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 3GO3 A 1 ? 8 ? 3GO3 1 ? 8 ? 1 8 2 1 3GO3 B 1 ? 8 ? 3GO3 101 ? 108 ? 101 108 3 2 3GO3 C 1 ? 8 ? NOR01126 1 ? 8 ? 1 8 4 2 3GO3 D 1 ? 8 ? NOR01126 1 ? 8 ? 1 8 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 3 3GO3 N2C C 3 ? NOR NOR01126 NCY 3 MICROHETEROGENEITY 3 1 3 3GO3 NCY C 7 ? NOR NOR01126 N2C 7 MICROHETEROGENEITY 7 2 4 3GO3 N2C D 3 ? NOR NOR01126 NCY 3 MICROHETEROGENEITY 3 3 4 3GO3 NCY D 7 ? NOR NOR01126 N2C 7 MICROHETEROGENEITY 7 4 # 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 ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 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 DSN 'D-peptide linking' . D-SERINE ? 'C3 H7 N O3' 105.093 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 MN non-polymer . 'MANGANESE (II) ION' ? 'Mn 2' 54.938 MVA 'L-peptide linking' n N-METHYLVALINE ? 'C6 H13 N O2' 131.173 N2C 'L-peptide linking' . N,S-DIMETHYLCYSTEINE ? 'C5 H11 N O2 S' 149.211 NCY 'L-peptide linking' . N-METHYLCYSTEINE ? 'C4 H9 N O2 S' 135.185 PEG non-polymer . 'DI(HYDROXYETHYL)ETHER' ? 'C4 H10 O3' 106.120 QUI non-polymer . 2-CARBOXYQUINOXALINE ? 'C9 H6 N2 O2' 174.156 # _exptl.entry_id 3GO3 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.94 _exptl_crystal.density_percent_sol 58.19 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;24% V/V PEG 200, 6% W/V PEG 3350, 16MM MANGANESE(II) CHLORIDE, 20MM SPERMINE TETRACHLORIDE, 0.1M MES BUFFER (PH 6.0), VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K ; # 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 'PEG 200' ? ? ? 1 2 1 'PEG 3500' ? ? ? 1 3 1 'manganese(II) chloride' ? ? ? 1 4 1 'spermine tetrachloride' ? ? ? 1 5 1 MES ? ? ? 1 6 1 H2O ? ? ? 1 7 2 'PEG 200' ? ? ? 1 8 2 'PEG 3500' ? ? ? 1 9 2 'manganese(II) chloride' ? ? ? 1 10 2 'spermine tetrachloride' ? ? ? 1 11 2 MES ? ? ? 1 12 2 H2O ? ? ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100 ? 1 2 100 ? 1 3 100 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 CCD 'MARMOSAIC 225 mm CCD' 2008-05-23 ? 2 'IMAGE PLATE' 'MAR scanner 345 mm plate' 2004-12-23 ? 3 CCD 'BRUKER SMART 6000' 2005-12-21 ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M 'SI 111 DOUBLE CRYSTAL' 'SINGLE WAVELENGTH' x-ray 2 1 M 'MULTI- LAYER' 'SINGLE WAVELENGTH' x-ray 3 1 M MULTI-LAYER SAD x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 1.00000 1.0 2 1.54178 1.0 # loop_ _diffrn_source.diffrn_id _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 1 SYNCHROTRON 'SLS BEAMLINE X10SA' SLS X10SA 1.00000 ? 2 'ROTATING ANODE' MACSCIENCE ? ? 1.54178 ? 3 'ROTATING ANODE' MACSCIENCE ? ? 1.54178 ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 3GO3 _reflns.observed_criterion_sigma_I 1.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 30.000 _reflns.d_resolution_high 1.100 _reflns.number_obs 23140 _reflns.number_all ? _reflns.percent_possible_obs 92.2 _reflns.pdbx_Rmerge_I_obs 0.03280 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 24.0600 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.200 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.10 _reflns_shell.d_res_low 1.20 _reflns_shell.percent_possible_all 76.5 _reflns_shell.Rmerge_I_obs 0.20190 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.440 _reflns_shell.pdbx_redundancy 2.17 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 3GO3 _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all 22400 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 4.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.00 _refine.ls_d_res_high 1.10 _refine.ls_percent_reflns_obs 94.3 _refine.ls_R_factor_obs 0.162 _refine.ls_R_factor_all 0.163 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free 0.196 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.250 _refine.ls_number_reflns_R_free 1177 _refine.ls_number_parameters 4945 _refine.ls_number_restraints 6976 _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _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 BABINET _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method 'FREE R' _refine.details ;THE SKELETON OF ECHINOMYCIN IS NEARLY SYMMETRIC (NOT MODELLED TO DO SO), THE BRIDGE IS NOT. BOTH POSSIBLE ORIENTATIONS OF BINDING WERE OBSERVED, BUT SKELETON POSITIONS NEARLY OVERLAP, SO ONLY THE BRIDGE WAS MODELLED AS DISORDERED/MICROHETE ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'ENGH & HUBER' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _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.ls_redundancy_reflns_obs ? _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_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_analyze.entry_id 3GO3 _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 134 _refine_hist.pdbx_number_atoms_nucleic_acid 322 _refine_hist.pdbx_number_atoms_ligand 57 _refine_hist.number_atoms_solvent 45 _refine_hist.number_atoms_total 558 _refine_hist.d_res_high 1.10 _refine_hist.d_res_low 20.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function s_bond_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.033 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.229 ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol 0.083 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.055 ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.041 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.050 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.065 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.077 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.entry_id 3GO3 _pdbx_refine.R_factor_all_no_cutoff 0.163 _pdbx_refine.R_factor_obs_no_cutoff 0.162 _pdbx_refine.free_R_factor_no_cutoff 0.196 _pdbx_refine.free_R_error_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 5.250 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 1177 _pdbx_refine.R_factor_all_4sig_cutoff 0.157 _pdbx_refine.R_factor_obs_4sig_cutoff 0.156 _pdbx_refine.free_R_factor_4sig_cutoff 0.191 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5.280 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 1040 _pdbx_refine.number_reflns_obs_4sig_cutoff 19703 # _struct.entry_id 3GO3 _struct.title 'Interactions of an echinomycin-DNA complex with manganese(II) ions' _struct.pdbx_descriptor 'ECHINOMYCIN/DNA Complex, 2-CARBOXYQUINOXALINE, DI(HYDROXYETHYL)ETHER' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3GO3 _struct_keywords.pdbx_keywords DNA/ANTIBIOTIC _struct_keywords.text 'BISINTERCALATOR, HOOGSTEEN BASEPAIR, DEPSIPEPTIDE, QUINOXALINE, THIOACETAL, ANTIBIOTIC, ANTITUMOR, DNA-ANTIBIOTIC COMPLEX' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 3 ? H N N 5 ? I N N 5 ? J N N 5 ? K N N 5 ? L N N 6 ? M N N 6 ? N N N 6 ? # _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 metalc1 metalc ? ? E MN . MN ? ? ? 1_555 A DG 3 N7 ? ? A MN 401 A DG 3 1_555 ? ? ? ? ? ? ? 2.357 ? metalc2 metalc ? ? E MN . MN ? ? ? 1_555 L HOH . O ? ? A MN 401 A HOH 2029 1_555 ? ? ? ? ? ? ? 2.444 ? metalc3 metalc ? ? E MN . MN ? ? ? 1_555 L HOH . O ? ? A MN 401 A HOH 2030 1_555 ? ? ? ? ? ? ? 2.382 ? metalc4 metalc ? ? G MN . MN ? ? ? 1_555 M HOH . O ? ? B MN 401 B HOH 2012 1_555 ? ? ? ? ? ? ? 2.162 ? metalc5 metalc ? ? G MN . MN ? ? ? 1_555 M HOH . O ? ? B MN 401 B HOH 2014 1_555 ? ? ? ? ? ? ? 2.188 ? metalc6 metalc ? ? G MN . MN ? ? ? 1_555 A DC 6 OP2 ? ? B MN 401 A DC 6 7_655 ? ? ? ? ? ? ? 2.085 ? metalc7 metalc ? ? G MN . MN ? ? ? 1_555 B DG 7 N7 ? ? B MN 401 B DG 107 1_555 ? ? ? ? ? ? ? 2.299 ? metalc8 metalc ? ? G MN . MN ? ? ? 1_555 M HOH . O ? ? B MN 401 B HOH 2011 1_555 ? ? ? ? ? ? ? 2.173 ? metalc9 metalc ? ? G MN . MN ? ? ? 1_555 M HOH . O ? ? B MN 401 B HOH 2013 1_555 ? ? ? ? ? ? ? 2.191 ? covale1 covale ? ? H QUI . C ? ? ? 1_555 C DSN 1 N ? ? C QUI 0 C DSN 1 1_555 ? ? ? ? ? ? ? 1.351 ? covale2 covale ? ? C DSN 1 OG ? ? ? 1_555 C MVA 8 C ? ? C DSN 1 C MVA 8 1_555 ? ? ? ? ? ? ? 1.306 ? covale3 covale ? ? C DSN 1 C ? ? ? 1_555 C ALA 2 N ? ? C DSN 1 C ALA 2 1_555 ? ? ? ? ? ? ? 1.343 ? covale4 covale ? ? C ALA 2 C ? ? ? 1_555 C N2C 3 N A ? C ALA 2 C N2C 3 1_555 ? ? ? ? ? ? ? 1.331 ? covale5 covale ? ? C ALA 2 C ? ? ? 1_555 C NCY 3 N B ? C ALA 2 C NCY 3 1_555 ? ? ? ? ? ? ? 1.331 ? covale6 covale ? ? C N2C 3 C A ? ? 1_555 C MVA 4 N ? ? C N2C 3 C MVA 4 1_555 ? ? ? ? ? ? ? 1.321 ? covale7 covale ? ? C NCY 3 SG B ? ? 1_555 C N2C 7 CB B ? C NCY 3 C N2C 7 1_555 ? ? ? ? ? ? ? 1.816 ? covale8 covale ? ? C NCY 3 C B ? ? 1_555 C MVA 4 N ? ? C NCY 3 C MVA 4 1_555 ? ? ? ? ? ? ? 1.321 ? covale9 covale ? ? C N2C 3 CB A ? ? 1_555 C NCY 7 SG A ? C N2C 3 C NCY 7 1_555 ? ? ? ? ? ? ? 1.807 ? covale10 covale ? ? C MVA 4 C ? ? ? 1_555 C DSN 5 OG ? ? C MVA 4 C DSN 5 1_555 ? ? ? ? ? ? ? 1.308 ? covale11 covale ? ? C DSN 5 C ? ? ? 1_555 C ALA 6 N ? ? C DSN 5 C ALA 6 1_555 ? ? ? ? ? ? ? 1.302 ? covale12 covale ? ? C DSN 5 N ? ? ? 1_555 I QUI . C ? ? C DSN 5 C QUI 9 1_555 ? ? ? ? ? ? ? 1.350 ? covale13 covale ? ? C ALA 6 C ? ? ? 1_555 C NCY 7 N A ? C ALA 6 C NCY 7 1_555 ? ? ? ? ? ? ? 1.337 ? covale14 covale ? ? C ALA 6 C ? ? ? 1_555 C N2C 7 N B ? C ALA 6 C N2C 7 1_555 ? ? ? ? ? ? ? 1.337 ? covale15 covale ? ? C N2C 7 C B ? ? 1_555 C MVA 8 N ? ? C N2C 7 C MVA 8 1_555 ? ? ? ? ? ? ? 1.339 ? covale16 covale ? ? C NCY 7 C A ? ? 1_555 C MVA 8 N ? ? C NCY 7 C MVA 8 1_555 ? ? ? ? ? ? ? 1.339 ? covale17 covale ? ? J QUI . C ? ? ? 1_555 D DSN 1 N ? ? D QUI 0 D DSN 1 1_555 ? ? ? ? ? ? ? 1.362 ? covale18 covale ? ? D DSN 1 OG ? ? ? 1_555 D MVA 8 C ? ? D DSN 1 D MVA 8 1_555 ? ? ? ? ? ? ? 1.321 ? covale19 covale ? ? D DSN 1 C ? ? ? 1_555 D ALA 2 N ? ? D DSN 1 D ALA 2 1_555 ? ? ? ? ? ? ? 1.347 ? covale20 covale ? ? D ALA 2 C ? ? ? 1_555 D NCY 3 N B ? D ALA 2 D NCY 3 1_555 ? ? ? ? ? ? ? 1.343 ? covale21 covale ? ? D ALA 2 C ? ? ? 1_555 D N2C 3 N A ? D ALA 2 D N2C 3 1_555 ? ? ? ? ? ? ? 1.343 ? covale22 covale ? ? D NCY 3 C B ? ? 1_555 D MVA 4 N ? ? D NCY 3 D MVA 4 1_555 ? ? ? ? ? ? ? 1.346 ? covale23 covale ? ? D NCY 3 SG B ? ? 1_555 D N2C 7 CB B ? D NCY 3 D N2C 7 1_555 ? ? ? ? ? ? ? 1.808 ? covale24 covale ? ? D N2C 3 C A ? ? 1_555 D MVA 4 N ? ? D N2C 3 D MVA 4 1_555 ? ? ? ? ? ? ? 1.346 ? covale25 covale ? ? D N2C 3 CB A ? ? 1_555 D NCY 7 SG A ? D N2C 3 D NCY 7 1_555 ? ? ? ? ? ? ? 1.806 ? covale26 covale ? ? D MVA 4 C ? ? ? 1_555 D DSN 5 OG ? ? D MVA 4 D DSN 5 1_555 ? ? ? ? ? ? ? 1.316 ? covale27 covale ? ? D DSN 5 N ? ? ? 1_555 K QUI . C ? ? D DSN 5 D QUI 9 1_555 ? ? ? ? ? ? ? 1.361 ? covale28 covale ? ? D DSN 5 C ? ? ? 1_555 D ALA 6 N ? ? D DSN 5 D ALA 6 1_555 ? ? ? ? ? ? ? 1.310 ? covale29 covale ? ? D ALA 6 C ? ? ? 1_555 D NCY 7 N A ? D ALA 6 D NCY 7 1_555 ? ? ? ? ? ? ? 1.325 ? covale30 covale ? ? D ALA 6 C ? ? ? 1_555 D N2C 7 N B ? D ALA 6 D N2C 7 1_555 ? ? ? ? ? ? ? 1.325 ? covale31 covale ? ? D NCY 7 C A ? ? 1_555 D MVA 8 N ? ? D NCY 7 D MVA 8 1_555 ? ? ? ? ? ? ? 1.325 ? covale32 covale ? ? D N2C 7 C B ? ? 1_555 D MVA 8 N ? ? D N2C 7 D MVA 8 1_555 ? ? ? ? ? ? ? 1.325 ? hydrog1 hydrog ? ? A DA 1 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 1 B DT 108 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 1 B DT 108 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 7 N1 ? ? A DC 2 B DG 107 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 7 O6 ? ? A DC 2 B DG 107 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 7 N2 ? ? A DC 2 B DG 107 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 6 N3 ? ? A DG 3 B DC 106 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 6 O2 ? ? A DG 3 B DC 106 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 6 N4 ? ? A DG 3 B DC 106 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 5 N7 ? ? A DT 4 B DA 105 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 4 B DA 105 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? hydrog11 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 5 B DT 104 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? hydrog12 hydrog ? ? A DA 5 N7 ? ? ? 1_555 B DT 4 N3 ? ? A DA 5 B DT 104 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? hydrog13 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 6 B DG 103 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 6 B DG 103 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 6 B DG 103 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 7 B DC 102 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 7 B DC 102 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 7 B DC 102 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 1 N7 ? ? A DT 8 B DA 101 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 1 N6 ? ? A DT 8 B DA 101 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? 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 ? ? ? ? 3 'BINDING SITE FOR RESIDUE PEG B 301' AC2 Software ? ? ? ? 3 'BINDING SITE FOR RESIDUE MN A 401' AC3 Software ? ? ? ? 6 'BINDING SITE FOR RESIDUE MN B 401' AC4 Software ? ? ? ? 12 'BINDING SITE FOR LINKED RESIDUES C 0 to 9' AC5 Software ? ? ? ? 9 'BINDING SITE FOR LINKED RESIDUES D 0 to 9' 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 3 DA A 1 ? DA A 1 . ? 7_555 ? 2 AC1 3 DG B 3 ? DG B 103 . ? 1_555 ? 3 AC1 3 DT B 4 ? DT B 104 . ? 1_555 ? 4 AC2 3 DG A 3 ? DG A 3 . ? 1_555 ? 5 AC2 3 HOH L . ? HOH A 2029 . ? 1_555 ? 6 AC2 3 HOH L . ? HOH A 2030 . ? 1_555 ? 7 AC3 6 DC A 6 ? DC A 6 . ? 7_655 ? 8 AC3 6 DG B 7 ? DG B 107 . ? 1_555 ? 9 AC3 6 HOH M . ? HOH B 2011 . ? 1_555 ? 10 AC3 6 HOH M . ? HOH B 2012 . ? 1_555 ? 11 AC3 6 HOH M . ? HOH B 2013 . ? 1_555 ? 12 AC3 6 HOH M . ? HOH B 2014 . ? 1_555 ? 13 AC4 12 DA A 1 ? DA A 1 . ? 1_555 ? 14 AC4 12 DC A 2 ? DC A 2 . ? 1_555 ? 15 AC4 12 DG A 3 ? DG A 3 . ? 1_555 ? 16 AC4 12 DT A 4 ? DT A 4 . ? 1_555 ? 17 AC4 12 DT A 8 ? DT A 8 . ? 4_544 ? 18 AC4 12 HOH L . ? HOH A 2030 . ? 1_555 ? 19 AC4 12 DA B 5 ? DA B 105 . ? 1_555 ? 20 AC4 12 DC B 6 ? DC B 106 . ? 1_555 ? 21 AC4 12 DG B 7 ? DG B 107 . ? 1_555 ? 22 AC4 12 DT B 8 ? DT B 108 . ? 1_555 ? 23 AC4 12 HOH M . ? HOH B 2014 . ? 1_555 ? 24 AC4 12 HOH N . ? HOH C 2001 . ? 1_555 ? 25 AC5 9 DA A 5 ? DA A 5 . ? 1_555 ? 26 AC5 9 DC A 6 ? DC A 6 . ? 1_555 ? 27 AC5 9 DG A 7 ? DG A 7 . ? 1_555 ? 28 AC5 9 DT A 8 ? DT A 8 . ? 1_555 ? 29 AC5 9 HOH L . ? HOH A 2006 . ? 7_555 ? 30 AC5 9 DA B 1 ? DA B 101 . ? 1_555 ? 31 AC5 9 DC B 2 ? DC B 102 . ? 1_555 ? 32 AC5 9 DG B 3 ? DG B 103 . ? 1_555 ? 33 AC5 9 DT B 4 ? DT B 104 . ? 1_555 ? # _database_PDB_matrix.entry_id 3GO3 _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 # _atom_sites.entry_id 3GO3 _atom_sites.fract_transf_matrix[1][1] 0.037673 _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] 0.037673 _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] 0.006168 _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 MN N O P S # 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 DA 1 1 1 DA DA A . n A 1 2 DC 2 2 2 DC DC A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DT 4 4 4 DT DT A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DC 6 6 6 DC DC A . n A 1 7 DG 7 7 7 DG DG A . n A 1 8 DT 8 8 8 DT DT A . n B 1 1 DA 1 101 101 DA DA B . n B 1 2 DC 2 102 102 DC DC B . n B 1 3 DG 3 103 103 DG DG B . n B 1 4 DT 4 104 104 DT DT B . n B 1 5 DA 5 105 105 DA DA B . n B 1 6 DC 6 106 106 DC DC B . n B 1 7 DG 7 107 107 DG DG B . n B 1 8 DT 8 108 108 DT DT B . n C 2 1 DSN 1 1 1 DSN DSN C . n C 2 2 ALA 2 2 2 ALA ALA C . n C 2 3 N2C 3 3 3 N2C N2C C . y C 2 3 NCY 3 3 3 NCY NCY C . y C 2 4 MVA 4 4 4 MVA MVA C . n C 2 5 DSN 5 5 5 DSN DSN C . n C 2 6 ALA 6 6 6 ALA ALA C . n C 2 7 NCY 7 7 7 NCY NCY C . y C 2 7 N2C 7 7 7 N2C N2C C . y C 2 8 MVA 8 8 8 MVA MVA C . n D 2 1 DSN 1 1 1 DSN DSN D . n D 2 2 ALA 2 2 2 ALA ALA D . n D 2 3 N2C 3 3 3 N2C N2C D . y D 2 3 NCY 3 3 3 NCY NCY D . y D 2 4 MVA 4 4 4 MVA MVA D . n D 2 5 DSN 5 5 5 DSN DSN D . n D 2 6 ALA 6 6 6 ALA ALA D . n D 2 7 NCY 7 7 7 NCY NCY D . y D 2 7 N2C 7 7 7 N2C N2C D . y D 2 8 MVA 8 8 8 MVA MVA D . n # _pdbx_molecule_features.prd_id PRD_000491 _pdbx_molecule_features.name Echinomycin _pdbx_molecule_features.type 'Cyclic depsipeptide' _pdbx_molecule_features.class Antibiotic _pdbx_molecule_features.details ;ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE. BICYCLIZATION IS ACHIEVED BY LINKING THE N- AND THE C- TERMINI, AND A THIOACETAL BOND BETWEEN RESIDUES 3 AND 7. THE TWO QUINOXALINE CHROMOPHORES ARE LINKED TO THE D-SERINE RESIDUES, RESIDUES 1 AND 5. ; # loop_ _pdbx_molecule.instance_id _pdbx_molecule.prd_id _pdbx_molecule.asym_id 1 PRD_000491 C 1 PRD_000491 H 1 PRD_000491 I 2 PRD_000491 D 2 PRD_000491 J 2 PRD_000491 K # _struct_site_keywords.site_id 1 _struct_site_keywords.text BIS-INTERCALATION # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1170 ? 1 MORE -11.2 ? 1 'SSA (A^2)' 4010 ? # _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 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 2004 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id L _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # 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 N7 ? A DG 3 ? A DG 3 ? 1_555 MN ? E MN . ? A MN 401 ? 1_555 O ? L HOH . ? A HOH 2029 ? 1_555 104.9 ? 2 N7 ? A DG 3 ? A DG 3 ? 1_555 MN ? E MN . ? A MN 401 ? 1_555 O ? L HOH . ? A HOH 2030 ? 1_555 97.5 ? 3 O ? L HOH . ? A HOH 2029 ? 1_555 MN ? E MN . ? A MN 401 ? 1_555 O ? L HOH . ? A HOH 2030 ? 1_555 86.9 ? 4 O ? M HOH . ? B HOH 2012 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2014 ? 1_555 173.3 ? 5 O ? M HOH . ? B HOH 2012 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 OP2 ? A DC 6 ? A DC 6 ? 7_655 92.3 ? 6 O ? M HOH . ? B HOH 2014 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 OP2 ? A DC 6 ? A DC 6 ? 7_655 90.7 ? 7 O ? M HOH . ? B HOH 2012 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 N7 ? B DG 7 ? B DG 107 ? 1_555 85.9 ? 8 O ? M HOH . ? B HOH 2014 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 N7 ? B DG 7 ? B DG 107 ? 1_555 91.2 ? 9 OP2 ? A DC 6 ? A DC 6 ? 7_655 MN ? G MN . ? B MN 401 ? 1_555 N7 ? B DG 7 ? B DG 107 ? 1_555 177.9 ? 10 O ? M HOH . ? B HOH 2012 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2011 ? 1_555 84.5 ? 11 O ? M HOH . ? B HOH 2014 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2011 ? 1_555 89.3 ? 12 OP2 ? A DC 6 ? A DC 6 ? 7_655 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2011 ? 1_555 93.2 ? 13 N7 ? B DG 7 ? B DG 107 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2011 ? 1_555 87.5 ? 14 O ? M HOH . ? B HOH 2012 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2013 ? 1_555 95.5 ? 15 O ? M HOH . ? B HOH 2014 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2013 ? 1_555 90.4 ? 16 OP2 ? A DC 6 ? A DC 6 ? 7_655 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2013 ? 1_555 93.7 ? 17 N7 ? B DG 7 ? B DG 107 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2013 ? 1_555 85.6 ? 18 O ? M HOH . ? B HOH 2011 ? 1_555 MN ? G MN . ? B MN 401 ? 1_555 O ? M HOH . ? B HOH 2013 ? 1_555 173.1 ? # 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 2009-03-31 2 'Structure model' 1 1 2011-06-14 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-07-27 5 'Structure model' 1 4 2012-12-12 # _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 ? # 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' 'Atomic model' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Non-polymer description' 7 4 'Structure model' 'Structure summary' 8 5 'Structure model' Other # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SHELXD phasing . ? 1 SHELXL-97 refinement . ? 2 XDS 'data reduction' . ? 3 SAINT 'data reduction' . ? 4 SADABS 'data scaling' . ? 5 # _pdbx_entry_details.entry_id 3GO3 _pdbx_entry_details.compound_details ;THE ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE, A MEMBER OF THE QUINOXALINE CLASS OF ANTIBIOTICS. HERE, ECHINOMYCIN IS REPRESENTED BY GROUPING TOGETHER THE SEQUENCE (SEQRES) AND TWO LIGANDS (HET) QUI. ; _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 OG _pdbx_validate_close_contact.auth_asym_id_1 C _pdbx_validate_close_contact.auth_comp_id_1 DSN _pdbx_validate_close_contact.auth_seq_id_1 1 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 C _pdbx_validate_close_contact.auth_comp_id_2 MVA _pdbx_validate_close_contact.auth_seq_id_2 8 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.17 # 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 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? 1.490 1.420 0.070 0.011 N 2 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? 1.498 1.420 0.078 0.011 N 3 1 "O3'" A DG 7 ? ? "C3'" A DG 7 ? ? 1.381 1.419 -0.038 0.006 N 4 1 "C2'" B DA 101 ? ? "C1'" B DA 101 ? ? 1.613 1.519 0.094 0.010 N 5 1 "O4'" B DT 104 ? ? "C1'" B DT 104 ? ? 1.525 1.420 0.105 0.011 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 100.62 108.00 -7.38 0.70 N 2 1 C6 A DT 4 ? ? N1 A DT 4 ? ? C2 A DT 4 ? ? 117.65 121.30 -3.65 0.50 N 3 1 "C1'" A DA 5 ? ? "O4'" A DA 5 ? ? "C4'" A DA 5 ? ? 102.79 110.10 -7.31 1.00 N 4 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 102.05 108.00 -5.95 0.70 N 5 1 N1 A DA 5 ? ? C2 A DA 5 ? ? N3 A DA 5 ? ? 125.96 129.30 -3.34 0.50 N 6 1 "O4'" A DC 6 ? ? "C1'" A DC 6 ? ? N1 A DC 6 ? ? 102.79 108.00 -5.21 0.70 N 7 1 "O4'" A DG 7 ? ? "C4'" A DG 7 ? ? "C3'" A DG 7 ? ? 101.93 104.50 -2.57 0.40 N 8 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.14 108.30 2.84 0.30 N 9 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? N1 A DT 8 ? ? 110.26 108.30 1.96 0.30 N 10 1 "O4'" B DA 101 ? ? "C1'" B DA 101 ? ? N9 B DA 101 ? ? 113.19 108.30 4.89 0.30 N 11 1 C6 B DA 101 ? ? N1 B DA 101 ? ? C2 B DA 101 ? ? 123.73 118.60 5.13 0.60 N 12 1 N1 B DA 101 ? ? C2 B DA 101 ? ? N3 B DA 101 ? ? 125.99 129.30 -3.31 0.50 N 13 1 C2 B DA 101 ? ? N3 B DA 101 ? ? C4 B DA 101 ? ? 107.17 110.60 -3.43 0.50 N 14 1 N3 B DA 101 ? ? C4 B DA 101 ? ? C5 B DA 101 ? ? 133.15 126.80 6.35 0.70 N 15 1 C8 B DA 101 ? ? N9 B DA 101 ? ? C4 B DA 101 ? ? 108.31 105.80 2.51 0.40 N 16 1 N1 B DA 101 ? ? C6 B DA 101 ? ? N6 B DA 101 ? ? 128.73 118.60 10.13 0.60 N 17 1 C5 B DA 101 ? ? C6 B DA 101 ? ? N6 B DA 101 ? ? 115.66 123.70 -8.04 0.80 N 18 1 "C3'" B DA 101 ? ? "O3'" B DA 101 ? A P B DC 102 ? A 133.53 119.70 13.83 1.20 Y 19 1 "O5'" B DC 102 ? A "C5'" B DC 102 ? ? "C4'" B DC 102 ? ? 103.96 109.40 -5.44 0.80 N 20 1 "O4'" B DG 103 ? ? "C1'" B DG 103 ? ? N9 B DG 103 ? ? 111.75 108.30 3.45 0.30 N 21 1 N1 B DT 104 ? ? "C1'" B DT 104 ? ? "C2'" B DT 104 ? ? 126.52 114.30 12.22 1.40 N 22 1 "O4'" B DT 104 ? ? "C1'" B DT 104 ? ? N1 B DT 104 ? ? 97.38 108.00 -10.62 0.70 N 23 1 N1 B DA 105 ? ? C6 B DA 105 ? ? N6 B DA 105 ? ? 123.52 118.60 4.92 0.60 N 24 1 "O4'" B DC 106 ? ? "C4'" B DC 106 ? ? "C3'" B DC 106 ? ? 101.25 104.50 -3.25 0.40 N 25 1 "O4'" B DC 106 ? ? "C1'" B DC 106 ? ? N1 B DC 106 ? ? 99.08 108.00 -8.92 0.70 N 26 1 N1 B DG 107 ? ? C2 B DG 107 ? ? N2 B DG 107 ? ? 122.20 116.20 6.00 0.90 N # loop_ _pdbx_validate_polymer_linkage.id _pdbx_validate_polymer_linkage.PDB_model_num _pdbx_validate_polymer_linkage.auth_atom_id_1 _pdbx_validate_polymer_linkage.auth_asym_id_1 _pdbx_validate_polymer_linkage.auth_comp_id_1 _pdbx_validate_polymer_linkage.auth_seq_id_1 _pdbx_validate_polymer_linkage.PDB_ins_code_1 _pdbx_validate_polymer_linkage.label_alt_id_1 _pdbx_validate_polymer_linkage.auth_atom_id_2 _pdbx_validate_polymer_linkage.auth_asym_id_2 _pdbx_validate_polymer_linkage.auth_comp_id_2 _pdbx_validate_polymer_linkage.auth_seq_id_2 _pdbx_validate_polymer_linkage.PDB_ins_code_2 _pdbx_validate_polymer_linkage.label_alt_id_2 _pdbx_validate_polymer_linkage.dist 1 1 C C MVA 4 ? ? N C DSN 5 ? ? 3.33 2 1 C D MVA 4 ? ? N D DSN 5 ? ? 3.41 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 C N2C 3 ? CD ? C N2C 3 CD 2 1 Y 1 C NCY 7 ? CD ? C NCY 7 CD # _ndb_struct_conf_na.entry_id 3GO3 _ndb_struct_conf_na.feature '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 DA 1 1_555 B DT 8 1_555 0.027 -0.063 0.323 8.594 5.006 3.644 1 A_DA1:DT108_B A 1 ? B 108 ? 20 1 1 A DC 2 1_555 B DG 7 1_555 0.337 -0.140 0.333 -21.913 -0.741 -1.314 2 A_DC2:DG107_B A 2 ? B 107 ? 19 1 1 A DG 3 1_555 B DC 6 1_555 -0.255 -0.135 0.373 22.897 -0.300 -2.753 3 A_DG3:DC106_B A 3 ? B 106 ? 19 1 1 A DT 4 1_555 B DA 5 1_555 -0.423 3.613 0.538 -5.675 8.079 -65.877 4 A_DT4:DA105_B A 4 ? B 105 ? 23 3 1 A DA 5 1_555 B DT 4 1_555 0.468 -3.566 -0.585 6.372 -9.911 65.879 5 A_DA5:DT104_B A 5 ? B 104 ? 23 3 1 A DC 6 1_555 B DG 3 1_555 0.244 -0.095 0.316 -20.350 1.398 -1.367 6 A_DC6:DG103_B A 6 ? B 103 ? 19 1 1 A DG 7 1_555 B DC 2 1_555 -0.294 -0.106 0.264 21.290 3.569 -1.861 7 A_DG7:DC102_B A 7 ? B 102 ? 19 1 1 A DT 8 1_555 B DA 1 1_555 -0.431 3.762 -0.051 5.695 9.211 -66.806 8 A_DT8:DA101_B A 8 ? B 101 ? 23 3 # 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 DA 1 1_555 B DT 8 1_555 A DC 2 1_555 B DG 7 1_555 0.802 1.031 7.068 9.254 1.188 25.041 1.547 3.606 6.956 2.627 -20.459 26.697 1 AA_DA1DC2:DG107DT108_BB A 1 ? B 108 ? A 2 ? B 107 ? 1 A DC 2 1_555 B DG 7 1_555 A DG 3 1_555 B DC 6 1_555 -0.337 1.868 2.530 -0.926 0.164 2.637 35.061 -11.008 2.604 3.423 19.336 2.800 2 AA_DC2DG3:DC106DG107_BB A 2 ? B 107 ? A 3 ? B 106 ? 1 A DG 3 1_555 B DC 6 1_555 A DT 4 1_555 B DA 5 1_555 0.663 0.741 7.334 -11.036 4.881 68.196 0.254 -1.488 7.200 4.319 9.764 69.128 3 AA_DG3DT4:DA105DC106_BB A 3 ? B 106 ? A 4 ? B 105 ? 1 A DT 4 1_555 B DA 5 1_555 A DA 5 1_555 B DT 4 1_555 3.147 -4.921 0.785 -159.002 76.345 163.221 -2.474 -1.601 0.052 38.181 79.519 179.472 4 AA_DT4DA5:DT104DA105_BB A 4 ? B 105 ? A 5 ? B 104 ? 1 A DA 5 1_555 B DT 4 1_555 A DC 6 1_555 B DG 3 1_555 3.911 6.317 -0.878 -140.218 92.168 -15.889 -2.888 2.405 -0.321 -48.970 -74.500 -167.915 5 AA_DA5DC6:DG103DT104_BB A 5 ? B 104 ? A 6 ? B 103 ? 1 A DC 6 1_555 B DG 3 1_555 A DG 7 1_555 B DC 2 1_555 0.253 1.925 2.585 -0.269 0.208 4.397 23.414 -5.363 2.653 2.703 3.499 4.411 6 AA_DC6DG7:DC102DG103_BB A 6 ? B 103 ? A 7 ? B 102 ? 1 A DG 7 1_555 B DC 2 1_555 A DT 8 1_555 B DA 1 1_555 -0.033 -1.317 7.141 -11.059 5.420 42.548 -2.847 -2.195 6.739 7.287 14.870 44.215 7 AA_DG7DT8:DA101DC102_BB A 7 ? B 102 ? A 8 ? B 101 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'MANGANESE (II) ION' MN 4 'DI(HYDROXYETHYL)ETHER' PEG 5 2-CARBOXYQUINOXALINE QUI 6 water HOH # 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 E 3 MN 1 401 401 MN MN A . F 4 PEG 1 301 301 PEG PEG B . G 3 MN 1 401 401 MN MN B . H 5 QUI 1 0 0 QUI QUI C . I 5 QUI 1 9 9 QUI QUI C . J 5 QUI 1 0 0 QUI QUI D . K 5 QUI 1 9 9 QUI QUI D . L 6 HOH 1 2001 2001 HOH HOH A . L 6 HOH 2 2002 2002 HOH HOH A . L 6 HOH 3 2003 2003 HOH HOH A . L 6 HOH 4 2004 2004 HOH HOH A . L 6 HOH 5 2005 2005 HOH HOH A . L 6 HOH 6 2006 2006 HOH HOH A . L 6 HOH 7 2007 2007 HOH HOH A . L 6 HOH 8 2008 2008 HOH HOH A . L 6 HOH 9 2009 2009 HOH HOH A . L 6 HOH 10 2010 2010 HOH HOH A . L 6 HOH 11 2011 2011 HOH HOH A . L 6 HOH 12 2012 2012 HOH HOH A . L 6 HOH 13 2013 2013 HOH HOH A . L 6 HOH 14 2014 2014 HOH HOH A . L 6 HOH 15 2015 2015 HOH HOH A . L 6 HOH 16 2016 2016 HOH HOH A . L 6 HOH 17 2017 2017 HOH HOH A . L 6 HOH 18 2018 2018 HOH HOH A . L 6 HOH 19 2019 2019 HOH HOH A . L 6 HOH 20 2020 2020 HOH HOH A . L 6 HOH 21 2021 2021 HOH HOH A . L 6 HOH 22 2022 2022 HOH HOH A . L 6 HOH 23 2023 2023 HOH HOH A . L 6 HOH 24 2024 2024 HOH HOH A . L 6 HOH 25 2025 2025 HOH HOH A . L 6 HOH 26 2026 2026 HOH HOH A . L 6 HOH 27 2027 2027 HOH HOH A . L 6 HOH 28 2028 2028 HOH HOH A . L 6 HOH 29 2029 2029 HOH HOH A . L 6 HOH 30 2030 2030 HOH HOH A . M 6 HOH 1 2001 2001 HOH HOH B . M 6 HOH 2 2002 2002 HOH HOH B . M 6 HOH 3 2003 2003 HOH HOH B . M 6 HOH 4 2004 2004 HOH HOH B . M 6 HOH 5 2005 2005 HOH HOH B . M 6 HOH 6 2006 2006 HOH HOH B . M 6 HOH 7 2007 2007 HOH HOH B . M 6 HOH 8 2008 2008 HOH HOH B . M 6 HOH 9 2009 2009 HOH HOH B . M 6 HOH 10 2010 2010 HOH HOH B . M 6 HOH 11 2011 2011 HOH HOH B . M 6 HOH 12 2012 2012 HOH HOH B . M 6 HOH 13 2013 2013 HOH HOH B . M 6 HOH 14 2014 2014 HOH HOH B . N 6 HOH 1 2001 2001 HOH HOH C . #