data_7X9F # _entry.id 7X9F # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 7X9F pdb_00007x9f 10.2210/pdb7x9f/pdb WWPDB D_1300028366 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7X9F _pdbx_database_status.recvd_initial_deposition_date 2022-03-15 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kao, S.H.' 1 ? 'Satange, R.B.' 2 ? 'Hou, M.H.' 3 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 50 _citation.language ? _citation.page_first 8867 _citation.page_last 8881 _citation.title ;Staggered intercalation of DNA duplexes with base-pair modulation by two distinct drug molecules induces asymmetric backbone twisting and structure polymorphism. ; _citation.year 2022 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkac629 _citation.pdbx_database_id_PubMed 35871296 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Satange, R.' 1 0000-0002-5150-9363 primary 'Kao, S.H.' 2 ? primary 'Chien, C.M.' 3 ? primary 'Chou, S.H.' 4 ? primary 'Lin, C.C.' 5 ? primary 'Neidle, S.' 6 0000-0003-0622-6548 primary 'Hou, M.H.' 7 0000-0003-4170-1527 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 7X9F _cell.details ? _cell.formula_units_Z ? _cell.length_a 87.917 _cell.length_a_esd ? _cell.length_b 87.917 _cell.length_b_esd ? _cell.length_c 47.551 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 16 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7X9F _symmetry.cell_setting ? _symmetry.Int_Tables_number 93 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 2 2' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(P*AP*CP*GP*CP*GP*CP*T)-3') ; 2098.399 2 ? ? ? ? 2 polymer syn ;DNA (5'-D(P*AP*GP*CP*GP*CP*GP*T)-3') ; 2138.423 2 ? ? ? ? 3 polymer nat DSN-ALA-N2C-MVA-DSN-ALA-NCY-MVA 809.008 2 ? ? ? ? 4 polymer nat THR-DVA-PRO-SAR-MVA-PXF-THR-DVA-PRO-SAR-MVA 1259.447 2 ? ? ? ? 5 non-polymer syn 2-CARBOXYQUINOXALINE 174.156 4 ? ? ? ? 6 non-polymer syn 'MANGANESE (II) ION' 54.938 1 ? ? ? ? 7 water nat water 18.015 7 ? ? ? ? # 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)(DC)(DG)(DC)(DT)' ACGCGCT F,D ? 2 polydeoxyribonucleotide no no '(DA)(DG)(DC)(DG)(DC)(DG)(DT)' AGCGCGT O,B ? 3 'polypeptide(L)' no yes '(DSN)A(N2C)(MVA)(DSN)A(NCY)(MVA)' SAXVSAXV G,C ? 4 'polypeptide(L)' no yes 'T(DVA)P(SAR)(MVA)(PXZ)T(DVA)P(SAR)(MVA)' TVPGVXTVPGV H,A ? # 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 DC n 1 5 DG n 1 6 DC n 1 7 DT n 2 1 DA n 2 2 DG n 2 3 DC n 2 4 DG n 2 5 DC n 2 6 DG n 2 7 DT n 3 1 DSN n 3 2 ALA n 3 3 N2C n 3 4 MVA n 3 5 DSN n 3 6 ALA n 3 7 NCY n 3 8 MVA n 4 1 THR n 4 2 DVA n 4 3 PRO n 4 4 SAR n 4 5 MVA n 4 6 PXZ n 4 7 THR n 4 8 DVA n 4 9 PRO n 4 10 SAR n 4 11 MVA n # loop_ _entity_src_nat.entity_id _entity_src_nat.pdbx_src_id _entity_src_nat.pdbx_alt_source_flag _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 _entity_src_nat.pdbx_ncbi_taxonomy_id _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 3 1 sample 1 8 ? Streptomyces 1883 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 4 1 sample 1 11 ? Streptomyces 1883 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample 1 7 'synthetic construct' ? 32630 ? 2 1 sample 1 7 'synthetic construct' ? 32630 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 7X9F 7X9F ? 1 ? 1 2 PDB 7X9F 7X9F ? 2 ? 1 3 PDB 7X9F 7X9F ? 3 ? 1 4 PDB 7X9F 7X9F ? 4 ? 1 # 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 7X9F F 1 ? 7 ? 7X9F -5 ? 1 ? -5 1 2 2 7X9F O 1 ? 7 ? 7X9F -5 ? 1 ? -5 1 3 3 7X9F G 1 ? 8 ? 7X9F 1 ? 8 ? 1 8 4 4 7X9F H 1 ? 11 ? 7X9F 1 ? 11 ? 1 11 5 1 7X9F D 1 ? 7 ? 7X9F -5 ? 1 ? -5 1 6 2 7X9F B 1 ? 7 ? 7X9F -5 ? 1 ? -5 1 7 4 7X9F A 1 ? 11 ? 7X9F 1 ? 11 ? 1 11 8 3 7X9F C 1 ? 8 ? 7X9F 1 ? 8 ? 1 8 # 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 DVA 'D-peptide linking' . D-VALINE ? 'C5 H11 N O2' 117.146 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 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 PXZ non-polymer . 2-AMINO-1,9-DICARBONYL-4,6-DIMETHYL-10-DEHYDRO-PHENOXAZIN-3-ONE PHENOXAZINE 'C16 H12 N2 O4' 296.277 QUI non-polymer . 2-CARBOXYQUINOXALINE ? 'C9 H6 N2 O2' 174.156 SAR 'peptide linking' n SARCOSINE ? 'C3 H7 N O2' 89.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 7X9F _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 3.55 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 65.31 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;10 mM MES buffer (pH 6.0), 5 mM Spermine tetrahydrochloride, 2% PEG200, 3 mM Manganese chloride, 0.25 mM Oligonucleotides, 0.25 mM echinomycin, 0.125 mM actinomycin D ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'RAYONIX MX-300' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-04-19 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.00000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'NSRRC BEAMLINE BL15A1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.00000 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL15A1 _diffrn_source.pdbx_synchrotron_site NSRRC # _reflns.B_iso_Wilson_estimate 53.860 _reflns.entry_id 7X9F _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.960 _reflns.d_resolution_low 30.000 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 4205 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.900 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 7.600 _reflns.pdbx_Rmerge_I_obs 0.087 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 9.200 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.196 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.094 _reflns.pdbx_Rpim_I_all 0.034 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 31951 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 2.960 _reflns_shell.d_res_low 3.070 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 475 _reflns_shell.percent_possible_all 100.000 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.750 _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy 8.000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 1.035 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.032 _reflns_shell.pdbx_Rpim_I_all 0.012 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.999 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _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.B_iso_max 201.300 _refine.B_iso_mean 76.8100 _refine.B_iso_min 35.230 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 7X9F _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.9600 _refine.ls_d_res_low 27.8000 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 4174 _refine.ls_number_reflns_R_free 419 _refine.ls_number_reflns_R_work 3755 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.4000 _refine.ls_percent_reflns_R_free 10.0400 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2180 _refine.ls_R_factor_R_free 0.2660 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2120 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.360 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 7DQ0 _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 29.4300 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.3700 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id final _refine_hist.details ? _refine_hist.d_res_high 2.9600 _refine_hist.d_res_low 27.8000 _refine_hist.number_atoms_solvent 7 _refine_hist.number_atoms_total 916 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total 66 _refine_hist.pdbx_B_iso_mean_ligand 58.12 _refine_hist.pdbx_B_iso_mean_solvent 48.65 _refine_hist.pdbx_number_atoms_protein 286 _refine_hist.pdbx_number_atoms_nucleic_acid 574 _refine_hist.pdbx_number_atoms_ligand 49 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.9601 3.3878 1333 . 135 1198 98.0000 . . . 0.3272 0.0000 0.2526 . . . . . . . 3 . . . 'X-RAY DIFFRACTION' 3.3878 4.2657 1364 . 136 1228 100.0000 . . . 0.2729 0.0000 0.2251 . . . . . . . 3 . . . 'X-RAY DIFFRACTION' 4.2657 27.8000 1477 . 148 1329 100.0000 . . . 0.2403 0.0000 0.1909 . . . . . . . 3 . . . # _struct.entry_id 7X9F _struct.title 'Crystal structure of actinomycin D-echinomycin-d(AGCGCGT/ACGCGCT) complex' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 7X9F _struct_keywords.text 'G:C canonical DNA, Single-strand DNA twist, four-way junction, Echinomycin, Actinomycin D, DNA, DNA-ANTIBIOTIC complex' _struct_keywords.pdbx_keywords DNA/ANTIBIOTIC # 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 4 ? E N N 1 ? F N N 2 ? G N N 4 ? H N N 3 ? I N N 5 ? J N N 6 ? K N N 5 ? L N N 5 ? M N N 5 ? N N N 7 ? O N N 7 ? P N N 7 ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? C DSN 1 C ? ? ? 1_555 C ALA 2 N ? ? G DSN 1 G ALA 2 1_555 ? ? ? ? ? ? ? 1.318 ? ? covale2 covale one ? C DSN 1 OG ? ? ? 1_555 C MVA 8 C ? ? G DSN 1 G MVA 8 1_555 ? ? ? ? ? ? ? 1.298 ? ? covale3 covale both ? C DSN 1 N ? ? ? 1_555 K QUI . C ? ? G DSN 1 G QUI 101 1_555 ? ? ? ? ? ? ? 1.310 ? ? covale4 covale both ? C ALA 2 C ? ? ? 1_555 C N2C 3 N ? ? G ALA 2 G N2C 3 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale5 covale both ? C N2C 3 C ? ? ? 1_555 C MVA 4 N ? ? G N2C 3 G MVA 4 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale6 covale both ? C N2C 3 CB ? ? ? 1_555 C NCY 7 SG ? ? G N2C 3 G NCY 7 1_555 ? ? ? ? ? ? ? 1.822 ? ? covale7 covale one ? C MVA 4 C ? ? ? 1_555 C DSN 5 OG ? ? G MVA 4 G DSN 5 1_555 ? ? ? ? ? ? ? 1.367 ? ? covale8 covale both ? C DSN 5 C ? ? ? 1_555 C ALA 6 N ? ? G DSN 5 G ALA 6 1_555 ? ? ? ? ? ? ? 1.317 ? ? covale9 covale both ? C ALA 6 C ? ? ? 1_555 C NCY 7 N ? ? G ALA 6 G NCY 7 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale10 covale both ? C NCY 7 C ? ? ? 1_555 C MVA 8 N ? ? G NCY 7 G MVA 8 1_555 ? ? ? ? ? ? ? 1.442 ? ? covale11 covale both ? D THR 1 C ? ? ? 1_555 D DVA 2 N ? ? H THR 1 H DVA 2 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale12 covale one ? D THR 1 N ? ? ? 1_555 D PXZ 6 C0 ? ? H THR 1 H PXZ 6 1_555 ? ? ? ? ? ? ? 1.523 ? ? covale13 covale both ? D DVA 2 C ? ? ? 1_555 D PRO 3 N ? ? H DVA 2 H PRO 3 1_555 ? ? ? ? ? ? ? 1.346 ? ? covale14 covale both ? D PRO 3 C ? ? ? 1_555 D SAR 4 N ? ? H PRO 3 H SAR 4 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale15 covale both ? D SAR 4 C ? ? ? 1_555 D MVA 5 N ? ? H SAR 4 H MVA 5 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale16 covale one ? D PXZ 6 "C0'" ? ? ? 1_555 D THR 7 N ? ? H PXZ 6 H THR 7 1_555 ? ? ? ? ? ? ? 1.541 ? ? covale17 covale both ? D THR 7 C ? ? ? 1_555 D DVA 8 N ? ? H THR 7 H DVA 8 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale18 covale both ? D DVA 8 C ? ? ? 1_555 D PRO 9 N ? ? H DVA 8 H PRO 9 1_555 ? ? ? ? ? ? ? 1.343 ? ? covale19 covale both ? D PRO 9 C ? ? ? 1_555 D SAR 10 N ? ? H PRO 9 H SAR 10 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale20 covale both ? D SAR 10 C ? ? ? 1_555 D MVA 11 N ? ? H SAR 10 H MVA 11 1_555 ? ? ? ? ? ? ? 1.335 ? ? covale21 covale both ? G THR 1 C ? ? ? 1_555 G DVA 2 N ? ? A THR 1 A DVA 2 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale22 covale one ? G THR 1 N ? ? ? 1_555 G PXZ 6 C0 ? ? A THR 1 A PXZ 6 1_555 ? ? ? ? ? ? ? 1.508 ? ? covale23 covale both ? G DVA 2 C ? ? ? 1_555 G PRO 3 N ? ? A DVA 2 A PRO 3 1_555 ? ? ? ? ? ? ? 1.344 ? ? covale24 covale both ? G PRO 3 C ? ? ? 1_555 G SAR 4 N ? ? A PRO 3 A SAR 4 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale25 covale both ? G SAR 4 C ? ? ? 1_555 G MVA 5 N ? ? A SAR 4 A MVA 5 1_555 ? ? ? ? ? ? ? 1.335 ? ? covale26 covale one ? G PXZ 6 "C0'" ? ? ? 1_555 G THR 7 N ? ? A PXZ 6 A THR 7 1_555 ? ? ? ? ? ? ? 1.589 ? ? covale27 covale both ? G THR 7 C ? ? ? 1_555 G DVA 8 N ? ? A THR 7 A DVA 8 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale28 covale both ? G DVA 8 C ? ? ? 1_555 G PRO 9 N ? ? A DVA 8 A PRO 9 1_555 ? ? ? ? ? ? ? 1.343 ? ? covale29 covale both ? G PRO 9 C ? ? ? 1_555 G SAR 10 N ? ? A PRO 9 A SAR 10 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale30 covale both ? G SAR 10 C ? ? ? 1_555 G MVA 11 N ? ? A SAR 10 A MVA 11 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale31 covale both ? H DSN 1 C ? ? ? 1_555 H ALA 2 N ? ? C DSN 1 C ALA 2 1_555 ? ? ? ? ? ? ? 1.287 ? ? covale32 covale one ? H DSN 1 OG ? ? ? 1_555 H MVA 8 C ? ? C DSN 1 C MVA 8 1_555 ? ? ? ? ? ? ? 1.444 ? ? covale33 covale both ? H DSN 1 N ? ? ? 1_555 M QUI . C ? ? C DSN 1 C QUI 102 1_555 ? ? ? ? ? ? ? 1.660 ? ? covale34 covale both ? H ALA 2 C ? ? ? 1_555 H N2C 3 N ? ? C ALA 2 C N2C 3 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale35 covale both ? H N2C 3 C ? ? ? 1_555 H MVA 4 N ? ? C N2C 3 C MVA 4 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale36 covale both ? H N2C 3 CB ? ? ? 1_555 H NCY 7 SG ? ? C N2C 3 C NCY 7 1_555 ? ? ? ? ? ? ? 1.825 ? ? covale37 covale one ? H MVA 4 C ? ? ? 1_555 H DSN 5 OG ? ? C MVA 4 C DSN 5 1_555 ? ? ? ? ? ? ? 1.384 ? ? covale38 covale both ? H DSN 5 C ? ? ? 1_555 H ALA 6 N ? ? C DSN 5 C ALA 6 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale39 covale both ? H DSN 5 N ? ? ? 1_555 L QUI . C ? ? C DSN 5 C QUI 101 1_555 ? ? ? ? ? ? ? 1.589 ? ? covale40 covale both ? H ALA 6 C ? ? ? 1_555 H NCY 7 N ? ? C ALA 6 C NCY 7 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale41 covale both ? H NCY 7 C ? ? ? 1_555 H MVA 8 N ? ? C NCY 7 C MVA 8 1_555 ? ? ? ? ? ? ? 1.318 ? ? hydrog1 hydrog ? ? E DA 1 N1 ? ? ? 1_555 F DT 7 N3 ? ? D DA -5 B DT 1 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog2 hydrog ? ? E DC 2 N3 ? ? ? 1_555 F DG 6 N1 ? ? D DC -4 B DG 0 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? E DC 2 N4 ? ? ? 1_555 F DG 6 O6 ? ? D DC -4 B DG 0 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? E DC 2 O2 ? ? ? 1_555 F DG 6 N2 ? ? D DC -4 B DG 0 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? E DG 3 N1 ? ? ? 1_555 F DC 5 N3 ? ? D DG -3 B DC -1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? E DG 3 N2 ? ? ? 1_555 F DC 5 O2 ? ? D DG -3 B DC -1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? E DG 3 O6 ? ? ? 1_555 F DC 5 N4 ? ? D DG -3 B DC -1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? E DC 4 N4 ? ? ? 1_555 F DG 4 O6 ? ? D DC -2 B DG -2 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog9 hydrog ? ? E DG 5 N1 ? ? ? 1_555 F DC 3 N3 ? ? D DG -1 B DC -3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? E DG 5 N2 ? ? ? 1_555 F DC 3 O2 ? ? D DG -1 B DC -3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? E DG 5 O6 ? ? ? 1_555 F DC 3 N4 ? ? D DG -1 B DC -3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? E DC 6 N3 ? ? ? 1_555 F DG 2 N1 ? ? D DC 0 B DG -4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? E DC 6 N4 ? ? ? 1_555 F DG 2 O6 ? ? D DC 0 B DG -4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? E DC 6 O2 ? ? ? 1_555 F DG 2 N2 ? ? D DC 0 B DG -4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? E DT 7 N3 ? ? ? 1_555 F DA 1 N1 ? ? D DT 1 B DA -5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? E DT 7 O4 ? ? ? 1_555 F DA 1 N6 ? ? D DT 1 B DA -5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 1 N1 ? ? ? 1_555 B DT 7 N3 ? ? F DA -5 O DT 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 7 O4 ? ? F DA -5 O DT 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 6 N1 ? ? F DC -4 O DG 0 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 6 O6 ? ? F DC -4 O DG 0 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 6 N2 ? ? F DC -4 O DG 0 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 5 N3 ? ? F DG -3 O DC -1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 5 O2 ? ? F DG -3 O DC -1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 5 N4 ? ? F DG -3 O DC -1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 4 O6 ? ? F DC -2 O DG -2 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog26 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 3 N3 ? ? F DG -1 O DC -3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 3 O2 ? ? F DG -1 O DC -3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 3 N4 ? ? F DG -1 O DC -3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 DVA 2 D . ? DVA 2 H PRO 3 D ? PRO 3 H 1 5.95 2 PRO 3 D . ? PRO 3 H SAR 4 D ? SAR 4 H 1 -1.03 3 DVA 8 D . ? DVA 8 H PRO 9 D ? PRO 9 H 1 7.08 4 PRO 9 D . ? PRO 9 H SAR 10 D ? SAR 10 H 1 -0.48 5 DVA 2 G . ? DVA 2 A PRO 3 G ? PRO 3 A 1 3.82 6 PRO 3 G . ? PRO 3 A SAR 4 G ? SAR 4 A 1 -5.27 7 DVA 8 G . ? DVA 8 A PRO 9 G ? PRO 9 A 1 9.03 8 PRO 9 G . ? PRO 9 A SAR 10 G ? SAR 10 A 1 -1.78 # _atom_sites.entry_id 7X9F _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.011374 _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] 0.011374 _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] 0.021030 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # 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 -5 -5 DA DA F . n A 1 2 DC 2 -4 -4 DC DC F . n A 1 3 DG 3 -3 -3 DG DG F . n A 1 4 DC 4 -2 -2 DC DC F . n A 1 5 DG 5 -1 -1 DG DG F . n A 1 6 DC 6 0 0 DC DC F . n A 1 7 DT 7 1 1 DT DT F . n B 2 1 DA 1 -5 -5 DA DA O . n B 2 2 DG 2 -4 -4 DG DG O . n B 2 3 DC 3 -3 -3 DC DC O . n B 2 4 DG 4 -2 -2 DG DG O . n B 2 5 DC 5 -1 -1 DC DC O . n B 2 6 DG 6 0 0 DG DG O . n B 2 7 DT 7 1 1 DT DT O . n C 3 1 DSN 1 1 1 DSN DSN G . n C 3 2 ALA 2 2 2 ALA ALA G . n C 3 3 N2C 3 3 3 N2C N2C G . n C 3 4 MVA 4 4 4 MVA MVA G . n C 3 5 DSN 5 5 5 DSN DSN G . n C 3 6 ALA 6 6 6 ALA ALA G . n C 3 7 NCY 7 7 7 NCY NCY G . n C 3 8 MVA 8 8 8 MVA MVA G . n D 4 1 THR 1 1 1 THR THR H . n D 4 2 DVA 2 2 2 DVA DVA H . n D 4 3 PRO 3 3 3 PRO PRO H . n D 4 4 SAR 4 4 4 SAR SAR H . n D 4 5 MVA 5 5 5 MVA MVA H . n D 4 6 PXZ 6 6 6 PXZ PXZ H . n D 4 7 THR 7 7 7 THR THR H . n D 4 8 DVA 8 8 8 DVA DVA H . n D 4 9 PRO 9 9 9 PRO PRO H . n D 4 10 SAR 10 10 10 SAR SAR H . n D 4 11 MVA 11 11 11 MVA MVA H . n E 1 1 DA 1 -5 -5 DA DA D . n E 1 2 DC 2 -4 -4 DC DC D . n E 1 3 DG 3 -3 -3 DG DG D . n E 1 4 DC 4 -2 -2 DC DC D . n E 1 5 DG 5 -1 -1 DG DG D . n E 1 6 DC 6 0 0 DC DC D . n E 1 7 DT 7 1 1 DT DT D . n F 2 1 DA 1 -5 -5 DA DA B . n F 2 2 DG 2 -4 -4 DG DG B . n F 2 3 DC 3 -3 -3 DC DC B . n F 2 4 DG 4 -2 -2 DG DG B . n F 2 5 DC 5 -1 -1 DC DC B . n F 2 6 DG 6 0 0 DG DG B . n F 2 7 DT 7 1 1 DT DT B . n G 4 1 THR 1 1 1 THR THR A . n G 4 2 DVA 2 2 2 DVA DVA A . n G 4 3 PRO 3 3 3 PRO PRO A . n G 4 4 SAR 4 4 4 SAR SAR A . n G 4 5 MVA 5 5 5 MVA MVA A . n G 4 6 PXZ 6 6 6 PXZ PXZ A . n G 4 7 THR 7 7 7 THR THR A . n G 4 8 DVA 8 8 8 DVA DVA A . n G 4 9 PRO 9 9 9 PRO PRO A . n G 4 10 SAR 10 10 10 SAR SAR A . n G 4 11 MVA 11 11 11 MVA MVA A . n H 3 1 DSN 1 1 1 DSN DSN C . n H 3 2 ALA 2 2 2 ALA ALA C . n H 3 3 N2C 3 3 3 N2C N2C C . n H 3 4 MVA 4 4 4 MVA MVA C . n H 3 5 DSN 5 5 5 DSN DSN C . n H 3 6 ALA 6 6 6 ALA ALA C . n H 3 7 NCY 7 7 7 NCY NCY C . n H 3 8 MVA 8 8 8 MVA MVA C . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email mhho@nchu.edu.tw _pdbx_contact_author.name_first Ming-Hon _pdbx_contact_author.name_last Hou _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4170-1527 # 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 I 5 QUI 1 101 101 QUI QUI F . J 6 MN 1 101 101 MN MN O . K 5 QUI 1 101 101 QUI QUI G . L 5 QUI 1 101 101 QUI QUI C . M 5 QUI 1 102 102 QUI QUI C . N 7 HOH 1 201 201 HOH HOH F . N 7 HOH 2 202 202 HOH HOH F . O 7 HOH 1 201 201 HOH HOH O . O 7 HOH 2 202 202 HOH HOH O . O 7 HOH 3 203 203 HOH HOH O . O 7 HOH 4 204 204 HOH HOH O . P 7 HOH 1 101 101 HOH HOH D . # loop_ _pdbx_molecule_features.prd_id _pdbx_molecule_features.name _pdbx_molecule_features.type _pdbx_molecule_features.class _pdbx_molecule_features.details PRD_000001 'Actinomycin D' Polypeptide Antibiotic ;ACTINOMYCIN D CONSISTS OF TWO PENTAMER RINGS LINKED BY THE CHROMOPHORE (PXZ) ; PRD_000491 Echinomycin 'Cyclic depsipeptide' Antibiotic ;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 2 PRD_000491 H 3 PRD_000001 D 4 PRD_000001 G # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? tetrameric 4 2 author_defined_assembly ? tetrameric 4 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,C,D,I,J,K,N,O 2 1 E,F,G,H,L,M,P # _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 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 O MN 101 ? J MN . 2 1 D HOH 101 ? P HOH . # 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 2022-12-14 2 'Structure model' 2 0 2023-11-15 3 'Structure model' 2 1 2023-11-29 # _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' 'Atomic model' 2 2 'Structure model' 'Data collection' 3 2 'Structure model' 'Derived calculations' 4 3 '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 2 'Structure model' atom_site 2 2 'Structure model' atom_site_anisotrop 3 2 'Structure model' chem_comp_atom 4 2 'Structure model' chem_comp_bond 5 2 'Structure model' struct_conn 6 3 '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 2 'Structure model' '_atom_site.auth_atom_id' 2 2 'Structure model' '_atom_site.label_atom_id' 3 2 'Structure model' '_atom_site_anisotrop.pdbx_auth_atom_id' 4 2 'Structure model' '_atom_site_anisotrop.pdbx_label_atom_id' 5 2 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 2 'Structure model' '_struct_conn.ptnr1_label_atom_id' 7 2 'Structure model' '_struct_conn.ptnr2_label_atom_id' # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[1][1]_esd _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][2]_esd _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[1][3]_esd _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[2][2]_esd _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.T[2][3]_esd _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[3][3]_esd _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[1][1]_esd _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][2]_esd _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[1][3]_esd _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[2][2]_esd _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.L[2][3]_esd _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[3][3]_esd _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][1]_esd _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][2]_esd _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[1][3]_esd _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][1]_esd _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][2]_esd _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][3]_esd _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][1]_esd _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][2]_esd _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[3][3]_esd 1 'X-RAY DIFFRACTION' ? refined 32.0213 8.9902 10.0574 1.2473 ? 0.1643 ? -0.1808 ? 1.0313 ? 0.0625 ? 0.5845 ? 9.1551 ? -4.1044 ? 8.2569 ? 6.8528 ? -7.7528 ? 2.0327 ? 0.1022 ? -1.2650 ? -0.2649 ? 0.6990 ? 1.2712 ? 2.2963 ? -0.3390 ? -0.2271 ? -0.0786 ? 2 'X-RAY DIFFRACTION' ? refined 37.8280 1.6210 8.9744 0.7675 ? -0.0136 ? -0.1122 ? 1.0559 ? 0.1052 ? 0.4708 ? 6.1945 ? 4.0309 ? 4.0277 ? 4.5529 ? 5.2054 ? 6.1374 ? 0.1559 ? -0.1680 ? -0.6239 ? 0.6572 ? 0.7285 ? -0.1607 ? -0.4460 ? 0.7135 ? -0.9759 ? 3 'X-RAY DIFFRACTION' ? refined 39.0398 9.9914 17.3452 1.1667 ? 0.0856 ? 0.0225 ? 0.8205 ? -0.2022 ? 0.3986 ? 7.5380 ? 2.0922 ? -3.0483 ? 2.7880 ? -3.9125 ? 5.4989 ? -0.1040 ? 0.4944 ? 0.1172 ? 1.0414 ? 1.3255 ? -0.6074 ? -0.5986 ? 1.9312 ? 0.2143 ? 4 'X-RAY DIFFRACTION' ? refined 34.8614 9.8034 0.3886 0.8005 ? -0.3127 ? -0.2289 ? 0.8244 ? 0.3674 ? 0.6767 ? 8.5349 ? 1.1051 ? -7.4667 ? 7.3876 ? 3.6367 ? 9.4605 ? 0.5597 ? 0.6327 ? 0.8848 ? 0.9443 ? -1.2653 ? -0.7879 ? -0.1494 ? -0.2010 ? -0.4303 ? 5 'X-RAY DIFFRACTION' ? refined 13.3892 -11.3913 15.9344 0.7625 ? -0.0095 ? 0.2030 ? 0.8042 ? 0.0642 ? 0.9890 ? 1.9157 ? 2.7405 ? 0.6333 ? 4.5051 ? -0.3041 ? 2.3329 ? 1.6788 ? 1.4306 ? 2.2778 ? 0.8801 ? 0.1444 ? 2.7886 ? -1.2797 ? -0.9955 ? -1.7743 ? 6 'X-RAY DIFFRACTION' ? refined 18.0089 -18.8433 20.0233 0.7903 ? -0.0439 ? 0.1053 ? 1.0408 ? 0.1209 ? 0.6491 ? 7.3465 ? 4.7875 ? -3.9708 ? 7.1504 ? -6.1840 ? 9.7389 ? -0.6925 ? -0.0888 ? -0.9437 ? 0.4756 ? -1.0740 ? -0.4021 ? 0.4223 ? -0.3392 ? 0.8194 ? 7 'X-RAY DIFFRACTION' ? refined 23.8268 -10.0032 16.9438 0.7368 ? -0.6950 ? 0.2334 ? 0.8987 ? 0.4068 ? 0.3861 ? 7.0777 ? 0.2389 ? 1.8687 ? 4.1610 ? -0.2902 ? 0.5244 ? 0.5711 ? -1.4064 ? 0.5393 ? 1.6441 ? -0.5545 ? 0.6722 ? 0.2230 ? -0.2650 ? -0.1166 ? 8 'X-RAY DIFFRACTION' ? refined 7.8640 -14.5939 25.3349 0.9969 ? -0.0423 ? 0.4663 ? 0.7296 ? 0.0019 ? 0.8784 ? 4.0001 ? -1.5588 ? 5.6341 ? 8.1139 ? -3.1549 ? 8.0605 ? -0.3472 ? -2.3339 ? -0.6027 ? 0.7863 ? -0.0943 ? 0.4173 ? -0.6165 ? -0.4074 ? 0.9232 ? # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_PDB_ins_code _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_PDB_ins_code _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 1 'X-RAY DIFFRACTION' 1 ? ? F 0 ? ? ? F 0 ? ? ;CHAIN 'F' AND (RESID -5 THROUGH 1 ) ; 2 'X-RAY DIFFRACTION' 2 ? ? O 0 ? ? ? O 0 ? ? ;CHAIN 'O' AND (RESID -5 THROUGH 1 ) ; 3 'X-RAY DIFFRACTION' 3 ? ? G 0 ? ? ? G 0 ? ? ;CHAIN 'G' AND (RESID 2 THROUGH 6 ) ; 4 'X-RAY DIFFRACTION' 4 ? ? H 0 ? ? ? H 0 ? ? ;CHAIN 'H' AND (RESID 1 THROUGH 9 ) ; 5 'X-RAY DIFFRACTION' 5 ? ? D 0 ? ? ? D 0 ? ? ;CHAIN 'D' AND (RESID -5 THROUGH 1 ) ; 6 'X-RAY DIFFRACTION' 6 ? ? B 0 ? ? ? B 0 ? ? ;CHAIN 'B' AND (RESID -5 THROUGH 1 ) ; 7 'X-RAY DIFFRACTION' 7 ? ? A 0 ? ? ? A 0 ? ? ;CHAIN 'A' AND (RESID 1 THROUGH 9 ) ; 8 'X-RAY DIFFRACTION' 8 ? ? C 0 ? ? ? C 0 ? ? ;CHAIN 'C' AND (RESID 2 THROUGH 6 ) ; # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.9_1692 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.27 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.9_1692 5 # _pdbx_entry_details.entry_id 7X9F _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _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.has_ligand_of_interest N # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_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 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 N7 O DG 0 ? ? MN O MN 101 ? ? 1.62 2 1 OG1 H THR 1 ? ? C H MVA 5 ? ? 1.80 3 1 OG1 H THR 7 ? ? C H MVA 11 ? ? 1.81 4 1 OG1 A THR 1 ? ? C A MVA 5 ? ? 1.81 5 1 OG1 A THR 7 ? ? C A MVA 11 ? ? 1.84 6 1 N G DSN 5 ? ? C F QUI 101 ? ? 1.93 # _pdbx_validate_polymer_linkage.id 1 _pdbx_validate_polymer_linkage.PDB_model_num 1 _pdbx_validate_polymer_linkage.auth_atom_id_1 C _pdbx_validate_polymer_linkage.auth_asym_id_1 G _pdbx_validate_polymer_linkage.auth_comp_id_1 MVA _pdbx_validate_polymer_linkage.auth_seq_id_1 4 _pdbx_validate_polymer_linkage.PDB_ins_code_1 ? _pdbx_validate_polymer_linkage.label_alt_id_1 ? _pdbx_validate_polymer_linkage.auth_atom_id_2 N _pdbx_validate_polymer_linkage.auth_asym_id_2 G _pdbx_validate_polymer_linkage.auth_comp_id_2 DSN _pdbx_validate_polymer_linkage.auth_seq_id_2 5 _pdbx_validate_polymer_linkage.PDB_ins_code_2 ? _pdbx_validate_polymer_linkage.label_alt_id_2 ? _pdbx_validate_polymer_linkage.dist 2.77 # _pdbx_unobs_or_zero_occ_atoms.id 1 _pdbx_unobs_or_zero_occ_atoms.PDB_model_num 1 _pdbx_unobs_or_zero_occ_atoms.polymer_flag N _pdbx_unobs_or_zero_occ_atoms.occupancy_flag 1 _pdbx_unobs_or_zero_occ_atoms.auth_asym_id F _pdbx_unobs_or_zero_occ_atoms.auth_comp_id QUI _pdbx_unobs_or_zero_occ_atoms.auth_seq_id 101 _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code ? _pdbx_unobs_or_zero_occ_atoms.auth_atom_id O2 _pdbx_unobs_or_zero_occ_atoms.label_alt_id ? _pdbx_unobs_or_zero_occ_atoms.label_asym_id I _pdbx_unobs_or_zero_occ_atoms.label_comp_id QUI _pdbx_unobs_or_zero_occ_atoms.label_seq_id 1 _pdbx_unobs_or_zero_occ_atoms.label_atom_id O2 # 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 ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 DA OP3 O N N 14 DA P P N N 15 DA OP1 O N N 16 DA OP2 O N N 17 DA "O5'" O N N 18 DA "C5'" C N N 19 DA "C4'" C N R 20 DA "O4'" O N N 21 DA "C3'" C N S 22 DA "O3'" O N N 23 DA "C2'" C N N 24 DA "C1'" C N R 25 DA N9 N Y N 26 DA C8 C Y N 27 DA N7 N Y N 28 DA C5 C Y N 29 DA C6 C Y N 30 DA N6 N N N 31 DA N1 N Y N 32 DA C2 C Y N 33 DA N3 N Y N 34 DA C4 C Y N 35 DA HOP3 H N N 36 DA HOP2 H N N 37 DA "H5'" H N N 38 DA "H5''" H N N 39 DA "H4'" H N N 40 DA "H3'" H N N 41 DA "HO3'" H N N 42 DA "H2'" H N N 43 DA "H2''" H N N 44 DA "H1'" H N N 45 DA H8 H N N 46 DA H61 H N N 47 DA H62 H N N 48 DA H2 H N N 49 DC OP3 O N N 50 DC P P N N 51 DC OP1 O N N 52 DC OP2 O N N 53 DC "O5'" O N N 54 DC "C5'" C N N 55 DC "C4'" C N R 56 DC "O4'" O N N 57 DC "C3'" C N S 58 DC "O3'" O N N 59 DC "C2'" C N N 60 DC "C1'" C N R 61 DC N1 N N N 62 DC C2 C N N 63 DC O2 O N N 64 DC N3 N N N 65 DC C4 C N N 66 DC N4 N N N 67 DC C5 C N N 68 DC C6 C N N 69 DC HOP3 H N N 70 DC HOP2 H N N 71 DC "H5'" H N N 72 DC "H5''" H N N 73 DC "H4'" H N N 74 DC "H3'" H N N 75 DC "HO3'" H N N 76 DC "H2'" H N N 77 DC "H2''" H N N 78 DC "H1'" H N N 79 DC H41 H N N 80 DC H42 H N N 81 DC H5 H N N 82 DC H6 H N N 83 DG OP3 O N N 84 DG P P N N 85 DG OP1 O N N 86 DG OP2 O N N 87 DG "O5'" O N N 88 DG "C5'" C N N 89 DG "C4'" C N R 90 DG "O4'" O N N 91 DG "C3'" C N S 92 DG "O3'" O N N 93 DG "C2'" C N N 94 DG "C1'" C N R 95 DG N9 N Y N 96 DG C8 C Y N 97 DG N7 N Y N 98 DG C5 C Y N 99 DG C6 C N N 100 DG O6 O N N 101 DG N1 N N N 102 DG C2 C N N 103 DG N2 N N N 104 DG N3 N N N 105 DG C4 C Y N 106 DG HOP3 H N N 107 DG HOP2 H N N 108 DG "H5'" H N N 109 DG "H5''" H N N 110 DG "H4'" H N N 111 DG "H3'" H N N 112 DG "HO3'" H N N 113 DG "H2'" H N N 114 DG "H2''" H N N 115 DG "H1'" H N N 116 DG H8 H N N 117 DG H1 H N N 118 DG H21 H N N 119 DG H22 H N N 120 DSN N N N N 121 DSN CA C N R 122 DSN C C N N 123 DSN O O N N 124 DSN OXT O N N 125 DSN CB C N N 126 DSN OG O N N 127 DSN H H N N 128 DSN H2 H N N 129 DSN HA H N N 130 DSN HXT H N N 131 DSN HB2 H N N 132 DSN HB3 H N N 133 DSN HG H N N 134 DT OP3 O N N 135 DT P P N N 136 DT OP1 O N N 137 DT OP2 O N N 138 DT "O5'" O N N 139 DT "C5'" C N N 140 DT "C4'" C N R 141 DT "O4'" O N N 142 DT "C3'" C N S 143 DT "O3'" O N N 144 DT "C2'" C N N 145 DT "C1'" C N R 146 DT N1 N N N 147 DT C2 C N N 148 DT O2 O N N 149 DT N3 N N N 150 DT C4 C N N 151 DT O4 O N N 152 DT C5 C N N 153 DT C7 C N N 154 DT C6 C N N 155 DT HOP3 H N N 156 DT HOP2 H N N 157 DT "H5'" H N N 158 DT "H5''" H N N 159 DT "H4'" H N N 160 DT "H3'" H N N 161 DT "HO3'" H N N 162 DT "H2'" H N N 163 DT "H2''" H N N 164 DT "H1'" H N N 165 DT H3 H N N 166 DT H71 H N N 167 DT H72 H N N 168 DT H73 H N N 169 DT H6 H N N 170 DVA N N N N 171 DVA CA C N R 172 DVA CB C N N 173 DVA CG1 C N N 174 DVA CG2 C N N 175 DVA C C N N 176 DVA O O N N 177 DVA OXT O N N 178 DVA H H N N 179 DVA H2 H N N 180 DVA HA H N N 181 DVA HB H N N 182 DVA HG11 H N N 183 DVA HG12 H N N 184 DVA HG13 H N N 185 DVA HG21 H N N 186 DVA HG22 H N N 187 DVA HG23 H N N 188 DVA HXT H N N 189 HOH O O N N 190 HOH H1 H N N 191 HOH H2 H N N 192 MN MN MN N N 193 MVA N N N N 194 MVA CN C N N 195 MVA CA C N S 196 MVA CB C N N 197 MVA CG1 C N N 198 MVA CG2 C N N 199 MVA C C N N 200 MVA O O N N 201 MVA OXT O N N 202 MVA H H N N 203 MVA HN1 H N N 204 MVA HN2 H N N 205 MVA HN3 H N N 206 MVA HA H N N 207 MVA HB H N N 208 MVA HG11 H N N 209 MVA HG12 H N N 210 MVA HG13 H N N 211 MVA HG21 H N N 212 MVA HG22 H N N 213 MVA HG23 H N N 214 MVA HXT H N N 215 N2C N N N N 216 N2C CA C N R 217 N2C CB C N N 218 N2C SG S N N 219 N2C CD C N N 220 N2C CN C N N 221 N2C C C N N 222 N2C O O N N 223 N2C OXT O N N 224 N2C H H N N 225 N2C HA H N N 226 N2C HB2 H N N 227 N2C HB3 H N N 228 N2C HD1 H N N 229 N2C HD2 H N N 230 N2C HD3 H N N 231 N2C HN1 H N N 232 N2C HN2 H N N 233 N2C HN3 H N N 234 N2C HXT H N N 235 NCY N N N N 236 NCY CA C N R 237 NCY CB C N N 238 NCY SG S N N 239 NCY CN C N N 240 NCY C C N N 241 NCY O O N N 242 NCY OXT O N N 243 NCY H H N N 244 NCY HA H N N 245 NCY HB2 H N N 246 NCY HB3 H N N 247 NCY HG H N N 248 NCY HCN1 H N N 249 NCY HCN2 H N N 250 NCY HCN3 H N N 251 NCY HXT H N N 252 PRO N N N N 253 PRO CA C N S 254 PRO C C N N 255 PRO O O N N 256 PRO CB C N N 257 PRO CG C N N 258 PRO CD C N N 259 PRO OXT O N N 260 PRO H H N N 261 PRO HA H N N 262 PRO HB2 H N N 263 PRO HB3 H N N 264 PRO HG2 H N N 265 PRO HG3 H N N 266 PRO HD2 H N N 267 PRO HD3 H N N 268 PRO HXT H N N 269 PXZ C1 C Y N 270 PXZ C0 C N N 271 PXZ O1 O N N 272 PXZ C2 C Y N 273 PXZ N2 N N N 274 PXZ C3 C Y N 275 PXZ O3 O N N 276 PXZ C4 C Y N 277 PXZ O5 O Y N 278 PXZ C6 C Y N 279 PXZ C7 C Y N 280 PXZ C8 C Y N 281 PXZ C9 C Y N 282 PXZ "C0'" C N N 283 PXZ "O1'" O N N 284 PXZ N10 N Y N 285 PXZ C11 C Y N 286 PXZ C12 C Y N 287 PXZ C13 C Y N 288 PXZ C14 C Y N 289 PXZ C15 C N N 290 PXZ C16 C N N 291 PXZ H1 H N N 292 PXZ HN21 H N N 293 PXZ HN22 H N N 294 PXZ H7 H N N 295 PXZ H8 H N N 296 PXZ "H1'" H N N 297 PXZ H151 H N N 298 PXZ H152 H N N 299 PXZ H153 H N N 300 PXZ H161 H N N 301 PXZ H162 H N N 302 PXZ H163 H N N 303 QUI N1 N Y N 304 QUI C2 C Y N 305 QUI C3 C Y N 306 QUI N4 N Y N 307 QUI C5 C Y N 308 QUI C6 C Y N 309 QUI C7 C Y N 310 QUI C8 C Y N 311 QUI C9 C Y N 312 QUI C10 C Y N 313 QUI C C N N 314 QUI O1 O N N 315 QUI O2 O N N 316 QUI H3 H N N 317 QUI H5 H N N 318 QUI H6 H N N 319 QUI H7 H N N 320 QUI H8 H N N 321 QUI HO2 H N N 322 SAR N N N N 323 SAR CA C N N 324 SAR C C N N 325 SAR O O N N 326 SAR CN C N N 327 SAR OXT O N N 328 SAR H H N N 329 SAR HA2 H N N 330 SAR HA3 H N N 331 SAR HN1 H N N 332 SAR HN2 H N N 333 SAR HN3 H N N 334 SAR HXT H N N 335 THR N N N N 336 THR CA C N S 337 THR C C N N 338 THR O O N N 339 THR CB C N R 340 THR OG1 O N N 341 THR CG2 C N N 342 THR OXT O N N 343 THR H H N N 344 THR H2 H N N 345 THR HA H N N 346 THR HB H N N 347 THR HG1 H N N 348 THR HG21 H N N 349 THR HG22 H N N 350 THR HG23 H N N 351 THR HXT H N N 352 # 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 ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 DA OP3 P sing N N 13 DA OP3 HOP3 sing N N 14 DA P OP1 doub N N 15 DA P OP2 sing N N 16 DA P "O5'" sing N N 17 DA OP2 HOP2 sing N N 18 DA "O5'" "C5'" sing N N 19 DA "C5'" "C4'" sing N N 20 DA "C5'" "H5'" sing N N 21 DA "C5'" "H5''" sing N N 22 DA "C4'" "O4'" sing N N 23 DA "C4'" "C3'" sing N N 24 DA "C4'" "H4'" sing N N 25 DA "O4'" "C1'" sing N N 26 DA "C3'" "O3'" sing N N 27 DA "C3'" "C2'" sing N N 28 DA "C3'" "H3'" sing N N 29 DA "O3'" "HO3'" sing N N 30 DA "C2'" "C1'" sing N N 31 DA "C2'" "H2'" sing N N 32 DA "C2'" "H2''" sing N N 33 DA "C1'" N9 sing N N 34 DA "C1'" "H1'" sing N N 35 DA N9 C8 sing Y N 36 DA N9 C4 sing Y N 37 DA C8 N7 doub Y N 38 DA C8 H8 sing N N 39 DA N7 C5 sing Y N 40 DA C5 C6 sing Y N 41 DA C5 C4 doub Y N 42 DA C6 N6 sing N N 43 DA C6 N1 doub Y N 44 DA N6 H61 sing N N 45 DA N6 H62 sing N N 46 DA N1 C2 sing Y N 47 DA C2 N3 doub Y N 48 DA C2 H2 sing N N 49 DA N3 C4 sing Y N 50 DC OP3 P sing N N 51 DC OP3 HOP3 sing N N 52 DC P OP1 doub N N 53 DC P OP2 sing N N 54 DC P "O5'" sing N N 55 DC OP2 HOP2 sing N N 56 DC "O5'" "C5'" sing N N 57 DC "C5'" "C4'" sing N N 58 DC "C5'" "H5'" sing N N 59 DC "C5'" "H5''" sing N N 60 DC "C4'" "O4'" sing N N 61 DC "C4'" "C3'" sing N N 62 DC "C4'" "H4'" sing N N 63 DC "O4'" "C1'" sing N N 64 DC "C3'" "O3'" sing N N 65 DC "C3'" "C2'" sing N N 66 DC "C3'" "H3'" sing N N 67 DC "O3'" "HO3'" sing N N 68 DC "C2'" "C1'" sing N N 69 DC "C2'" "H2'" sing N N 70 DC "C2'" "H2''" sing N N 71 DC "C1'" N1 sing N N 72 DC "C1'" "H1'" sing N N 73 DC N1 C2 sing N N 74 DC N1 C6 sing N N 75 DC C2 O2 doub N N 76 DC C2 N3 sing N N 77 DC N3 C4 doub N N 78 DC C4 N4 sing N N 79 DC C4 C5 sing N N 80 DC N4 H41 sing N N 81 DC N4 H42 sing N N 82 DC C5 C6 doub N N 83 DC C5 H5 sing N N 84 DC C6 H6 sing N N 85 DG OP3 P sing N N 86 DG OP3 HOP3 sing N N 87 DG P OP1 doub N N 88 DG P OP2 sing N N 89 DG P "O5'" sing N N 90 DG OP2 HOP2 sing N N 91 DG "O5'" "C5'" sing N N 92 DG "C5'" "C4'" sing N N 93 DG "C5'" "H5'" sing N N 94 DG "C5'" "H5''" sing N N 95 DG "C4'" "O4'" sing N N 96 DG "C4'" "C3'" sing N N 97 DG "C4'" "H4'" sing N N 98 DG "O4'" "C1'" sing N N 99 DG "C3'" "O3'" sing N N 100 DG "C3'" "C2'" sing N N 101 DG "C3'" "H3'" sing N N 102 DG "O3'" "HO3'" sing N N 103 DG "C2'" "C1'" sing N N 104 DG "C2'" "H2'" sing N N 105 DG "C2'" "H2''" sing N N 106 DG "C1'" N9 sing N N 107 DG "C1'" "H1'" sing N N 108 DG N9 C8 sing Y N 109 DG N9 C4 sing Y N 110 DG C8 N7 doub Y N 111 DG C8 H8 sing N N 112 DG N7 C5 sing Y N 113 DG C5 C6 sing N N 114 DG C5 C4 doub Y N 115 DG C6 O6 doub N N 116 DG C6 N1 sing N N 117 DG N1 C2 sing N N 118 DG N1 H1 sing N N 119 DG C2 N2 sing N N 120 DG C2 N3 doub N N 121 DG N2 H21 sing N N 122 DG N2 H22 sing N N 123 DG N3 C4 sing N N 124 DSN N CA sing N N 125 DSN N H sing N N 126 DSN N H2 sing N N 127 DSN CA C sing N N 128 DSN CA CB sing N N 129 DSN CA HA sing N N 130 DSN C O doub N N 131 DSN C OXT sing N N 132 DSN OXT HXT sing N N 133 DSN CB OG sing N N 134 DSN CB HB2 sing N N 135 DSN CB HB3 sing N N 136 DSN OG HG sing N N 137 DT OP3 P sing N N 138 DT OP3 HOP3 sing N N 139 DT P OP1 doub N N 140 DT P OP2 sing N N 141 DT P "O5'" sing N N 142 DT OP2 HOP2 sing N N 143 DT "O5'" "C5'" sing N N 144 DT "C5'" "C4'" sing N N 145 DT "C5'" "H5'" sing N N 146 DT "C5'" "H5''" sing N N 147 DT "C4'" "O4'" sing N N 148 DT "C4'" "C3'" sing N N 149 DT "C4'" "H4'" sing N N 150 DT "O4'" "C1'" sing N N 151 DT "C3'" "O3'" sing N N 152 DT "C3'" "C2'" sing N N 153 DT "C3'" "H3'" sing N N 154 DT "O3'" "HO3'" sing N N 155 DT "C2'" "C1'" sing N N 156 DT "C2'" "H2'" sing N N 157 DT "C2'" "H2''" sing N N 158 DT "C1'" N1 sing N N 159 DT "C1'" "H1'" sing N N 160 DT N1 C2 sing N N 161 DT N1 C6 sing N N 162 DT C2 O2 doub N N 163 DT C2 N3 sing N N 164 DT N3 C4 sing N N 165 DT N3 H3 sing N N 166 DT C4 O4 doub N N 167 DT C4 C5 sing N N 168 DT C5 C7 sing N N 169 DT C5 C6 doub N N 170 DT C7 H71 sing N N 171 DT C7 H72 sing N N 172 DT C7 H73 sing N N 173 DT C6 H6 sing N N 174 DVA N CA sing N N 175 DVA N H sing N N 176 DVA N H2 sing N N 177 DVA CA CB sing N N 178 DVA CA C sing N N 179 DVA CA HA sing N N 180 DVA CB CG1 sing N N 181 DVA CB CG2 sing N N 182 DVA CB HB sing N N 183 DVA CG1 HG11 sing N N 184 DVA CG1 HG12 sing N N 185 DVA CG1 HG13 sing N N 186 DVA CG2 HG21 sing N N 187 DVA CG2 HG22 sing N N 188 DVA CG2 HG23 sing N N 189 DVA C O doub N N 190 DVA C OXT sing N N 191 DVA OXT HXT sing N N 192 HOH O H1 sing N N 193 HOH O H2 sing N N 194 MVA N CN sing N N 195 MVA N CA sing N N 196 MVA N H sing N N 197 MVA CN HN1 sing N N 198 MVA CN HN2 sing N N 199 MVA CN HN3 sing N N 200 MVA CA CB sing N N 201 MVA CA C sing N N 202 MVA CA HA sing N N 203 MVA CB CG1 sing N N 204 MVA CB CG2 sing N N 205 MVA CB HB sing N N 206 MVA CG1 HG11 sing N N 207 MVA CG1 HG12 sing N N 208 MVA CG1 HG13 sing N N 209 MVA CG2 HG21 sing N N 210 MVA CG2 HG22 sing N N 211 MVA CG2 HG23 sing N N 212 MVA C O doub N N 213 MVA C OXT sing N N 214 MVA OXT HXT sing N N 215 N2C N CA sing N N 216 N2C N CN sing N N 217 N2C N H sing N N 218 N2C CA CB sing N N 219 N2C CA C sing N N 220 N2C CA HA sing N N 221 N2C CB SG sing N N 222 N2C CB HB2 sing N N 223 N2C CB HB3 sing N N 224 N2C SG CD sing N N 225 N2C CD HD1 sing N N 226 N2C CD HD2 sing N N 227 N2C CD HD3 sing N N 228 N2C CN HN1 sing N N 229 N2C CN HN2 sing N N 230 N2C CN HN3 sing N N 231 N2C C O doub N N 232 N2C C OXT sing N N 233 N2C OXT HXT sing N N 234 NCY N CA sing N N 235 NCY N CN sing N N 236 NCY N H sing N N 237 NCY CA CB sing N N 238 NCY CA C sing N N 239 NCY CA HA sing N N 240 NCY CB SG sing N N 241 NCY CB HB2 sing N N 242 NCY CB HB3 sing N N 243 NCY SG HG sing N N 244 NCY CN HCN1 sing N N 245 NCY CN HCN2 sing N N 246 NCY CN HCN3 sing N N 247 NCY C O doub N N 248 NCY C OXT sing N N 249 NCY OXT HXT sing N N 250 PRO N CA sing N N 251 PRO N CD sing N N 252 PRO N H sing N N 253 PRO CA C sing N N 254 PRO CA CB sing N N 255 PRO CA HA sing N N 256 PRO C O doub N N 257 PRO C OXT sing N N 258 PRO CB CG sing N N 259 PRO CB HB2 sing N N 260 PRO CB HB3 sing N N 261 PRO CG CD sing N N 262 PRO CG HG2 sing N N 263 PRO CG HG3 sing N N 264 PRO CD HD2 sing N N 265 PRO CD HD3 sing N N 266 PRO OXT HXT sing N N 267 PXZ C1 C0 sing N N 268 PXZ C1 C2 doub Y N 269 PXZ C1 C11 sing Y N 270 PXZ C0 O1 doub N N 271 PXZ C0 H1 sing N N 272 PXZ C2 N2 sing N N 273 PXZ C2 C3 sing Y N 274 PXZ N2 HN21 sing N N 275 PXZ N2 HN22 sing N N 276 PXZ C3 O3 doub N N 277 PXZ C3 C4 sing Y N 278 PXZ C4 C12 doub Y N 279 PXZ C4 C15 sing N N 280 PXZ O5 C12 sing Y N 281 PXZ O5 C13 sing Y N 282 PXZ C6 C7 doub Y N 283 PXZ C6 C13 sing Y N 284 PXZ C6 C16 sing N N 285 PXZ C7 C8 sing Y N 286 PXZ C7 H7 sing N N 287 PXZ C8 C9 doub Y N 288 PXZ C8 H8 sing N N 289 PXZ C9 "C0'" sing N N 290 PXZ C9 C14 sing Y N 291 PXZ "C0'" "O1'" doub N N 292 PXZ "C0'" "H1'" sing N N 293 PXZ N10 C11 doub Y N 294 PXZ N10 C14 sing Y N 295 PXZ C11 C12 sing Y N 296 PXZ C13 C14 doub Y N 297 PXZ C15 H151 sing N N 298 PXZ C15 H152 sing N N 299 PXZ C15 H153 sing N N 300 PXZ C16 H161 sing N N 301 PXZ C16 H162 sing N N 302 PXZ C16 H163 sing N N 303 QUI N1 C2 doub Y N 304 QUI N1 C9 sing Y N 305 QUI C2 C3 sing Y N 306 QUI C2 C sing N N 307 QUI C3 N4 doub Y N 308 QUI C3 H3 sing N N 309 QUI N4 C10 sing Y N 310 QUI C5 C6 doub Y N 311 QUI C5 C10 sing Y N 312 QUI C5 H5 sing N N 313 QUI C6 C7 sing Y N 314 QUI C6 H6 sing N N 315 QUI C7 C8 doub Y N 316 QUI C7 H7 sing N N 317 QUI C8 C9 sing Y N 318 QUI C8 H8 sing N N 319 QUI C9 C10 doub Y N 320 QUI C O1 doub N N 321 QUI C O2 sing N N 322 QUI O2 HO2 sing N N 323 SAR N CA sing N N 324 SAR N CN sing N N 325 SAR N H sing N N 326 SAR CA C sing N N 327 SAR CA HA2 sing N N 328 SAR CA HA3 sing N N 329 SAR C O doub N N 330 SAR C OXT sing N N 331 SAR CN HN1 sing N N 332 SAR CN HN2 sing N N 333 SAR CN HN3 sing N N 334 SAR OXT HXT sing N N 335 THR N CA sing N N 336 THR N H sing N N 337 THR N H2 sing N N 338 THR CA C sing N N 339 THR CA CB sing N N 340 THR CA HA sing N N 341 THR C O doub N N 342 THR C OXT sing N N 343 THR CB OG1 sing N N 344 THR CB CG2 sing N N 345 THR CB HB sing N N 346 THR OG1 HG1 sing N N 347 THR CG2 HG21 sing N N 348 THR CG2 HG22 sing N N 349 THR CG2 HG23 sing N N 350 THR OXT HXT sing N N 351 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 7X9F 'double helix' 7X9F '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 DA 1 1_555 B DT 7 1_555 0.033 -0.203 0.195 2.579 -3.644 8.730 1 F_DA-5:DT1_O F -5 ? O 1 ? 20 1 1 A DC 2 1_555 B DG 6 1_555 -0.468 -0.041 -0.441 -16.056 1.644 -14.560 2 F_DC-4:DG0_O F -4 ? O 0 ? 19 1 1 A DG 3 1_555 B DC 5 1_555 0.597 -0.208 0.125 19.386 -8.577 -13.902 3 F_DG-3:DC-1_O F -3 ? O -1 ? 19 1 1 A DC 4 1_555 B DG 4 1_555 -0.375 3.411 0.981 -13.442 9.155 -82.122 4 F_DC-2:DG-2_O F -2 ? O -2 ? ? ? 1 A DG 5 1_555 B DC 3 1_555 -0.080 -0.034 0.947 18.040 10.026 1.148 5 F_DG-1:DC-3_O F -1 ? O -3 ? 19 1 1 E DA 1 1_555 F DT 7 1_555 -1.231 0.445 0.032 12.823 20.742 -0.423 6 D_DA-5:DT1_B D -5 ? B 1 ? ? ? 1 E DC 2 1_555 F DG 6 1_555 0.451 -0.029 0.818 -29.130 2.779 5.344 7 D_DC-4:DG0_B D -4 ? B 0 ? 19 1 1 E DG 3 1_555 F DC 5 1_555 0.367 -0.066 0.101 13.110 -2.108 -17.322 8 D_DG-3:DC-1_B D -3 ? B -1 ? 19 1 1 E DC 4 1_555 F DG 4 1_555 -0.009 3.849 1.125 -2.177 11.509 -64.140 9 D_DC-2:DG-2_B D -2 ? B -2 ? ? ? 1 E DG 5 1_555 F DC 3 1_555 -0.716 -0.042 1.078 13.944 10.806 3.394 10 D_DG-1:DC-3_B D -1 ? B -3 ? 19 1 1 E DC 6 1_555 F DG 2 1_555 0.543 -0.110 0.804 -10.102 4.111 -3.424 11 D_DC0:DG-4_B D 0 ? B -4 ? 19 1 1 E DT 7 1_555 F DA 1 1_555 -0.324 -0.147 0.198 -1.449 -10.513 -3.061 12 D_DT1:DA-5_B D 1 ? B -5 ? 20 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 DA 1 1_555 B DT 7 1_555 A DC 2 1_555 B DG 6 1_555 0.338 1.199 6.596 17.457 8.700 14.738 -3.043 10.998 4.669 23.760 -47.676 24.403 1 FF_DA-5DC-4:DG0DT1_OO F -5 ? O 1 ? F -4 ? O 0 ? 1 A DC 2 1_555 B DG 6 1_555 A DG 3 1_555 B DC 5 1_555 0.015 3.165 2.560 -2.600 -4.929 15.329 13.351 -1.209 1.454 -17.732 9.354 16.305 2 FF_DC-4DG-3:DC-1DG0_OO F -4 ? O 0 ? F -3 ? O -1 ? 1 A DG 3 1_555 B DC 5 1_555 A DC 4 1_555 B DG 4 1_555 0.924 0.367 7.290 -14.044 7.432 66.018 -0.302 -2.022 6.996 6.721 12.700 67.692 3 FF_DG-3DC-2:DG-2DC-1_OO F -3 ? O -1 ? F -2 ? O -2 ? 1 A DC 4 1_555 B DG 4 1_555 A DG 5 1_555 B DC 3 1_555 0.386 2.396 3.020 -3.146 10.806 -14.769 -11.536 0.001 1.085 -35.980 -10.476 -18.549 4 FF_DC-2DG-1:DC-3DG-2_OO F -2 ? O -2 ? F -1 ? O -3 ? 1 E DC 2 1_555 F DG 6 1_555 E DG 3 1_555 F DC 5 1_555 -1.290 1.585 2.479 4.543 3.189 9.379 4.597 12.139 2.061 17.617 -25.097 10.895 5 DD_DC-4DG-3:DC-1DG0_BB D -4 ? B 0 ? D -3 ? B -1 ? 1 E DG 3 1_555 F DC 5 1_555 E DC 4 1_555 F DG 4 1_555 -0.203 -0.657 7.236 -20.946 4.751 55.618 -1.204 -2.174 6.841 4.893 21.575 59.310 6 DD_DG-3DC-2:DG-2DC-1_BB D -3 ? B -1 ? D -2 ? B -2 ? 1 E DC 4 1_555 F DG 4 1_555 E DG 5 1_555 F DC 3 1_555 -0.286 3.695 2.997 6.753 17.724 -27.169 -8.317 0.189 0.588 -33.099 12.611 -33.032 7 DD_DC-2DG-1:DC-3DG-2_BB D -2 ? B -2 ? D -1 ? B -3 ? 1 E DC 6 1_555 F DG 2 1_555 E DT 7 1_555 F DA 1 1_555 -0.066 0.450 3.243 6.069 4.651 26.609 -0.190 1.613 3.182 9.850 -12.853 27.667 8 DD_DC0DT1:DA-5DG-4_BB D 0 ? B -4 ? D 1 ? B -5 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Ministry of Science and Technology (MoST, Taiwan)' Taiwan 109-2628-M-005-001-MY4 1 'Ministry of Science and Technology (MoST, Taiwan)' Taiwan 109-2311-B-005-007-MY3 2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 5 2-CARBOXYQUINOXALINE QUI 6 'MANGANESE (II) ION' MN 7 water HOH # _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.accession_code 7DQ0 _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #