data_7U38 # _entry.id 7U38 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _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 7U38 pdb_00007u38 10.2210/pdb7u38/pdb WWPDB D_1000263441 ? ? # 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 2023-03-15 2 'Structure model' 2 0 2024-05-22 # _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' 'Data collection' 2 2 'Structure model' 'Derived calculations' 3 2 'Structure model' 'Non-polymer description' 4 2 'Structure model' 'Structure summary' # 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' chem_comp 2 2 'Structure model' chem_comp_atom 3 2 'Structure model' chem_comp_bond 4 2 'Structure model' entity 5 2 'Structure model' struct_conn # 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' '_chem_comp.formula' 2 2 'Structure model' '_chem_comp.formula_weight' 3 2 'Structure model' '_entity.formula_weight' 4 2 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7U38 _pdbx_database_status.recvd_initial_deposition_date 2022-02-26 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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 # _pdbx_contact_author.id 2 _pdbx_contact_author.email martin.egli@vanderbilt.edu _pdbx_contact_author.name_first Martin _pdbx_contact_author.name_last Egli _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4145-356X # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Pallan, P.S.' 1 0000-0001-7449-7273 'Egli, M.' 2 0000-0003-4145-356X # _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 ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Structural Characterization of a Covalent Conjugate between Pixantrone and an Abasic Site in DNA' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kellum Jr., A.H.' 1 ? primary 'Pallan, P.S.' 2 ? primary 'Terrell, J.T.' 3 ? primary 'Fu, Y.' 4 ? primary 'Noh, B.' 5 ? primary 'Rizzo, C.J.' 6 ? primary 'Egli, M.' 7 ? primary 'Stone, M.P.' 8 ? # 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 'Pixantrone AP conjugate-modified DNA' 3918.543 2 ? ? ? 'LVR is Pixantrone AP conjugate, CBR is 5-Bromo cytidine' 2 non-polymer syn 1,2-ETHANEDIOL 62.068 4 ? ? ? ? 3 water nat water 18.015 27 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(LVR)(DA)(DA)(DT)(DT)(CBR)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCXAATTCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 1,2-ETHANEDIOL EDO 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 LVR n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 CBR n 1 10 DG n 1 11 DC n 1 12 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 12 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # 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 CBR 'DNA linking' n "5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 Br N3 O7 P' 386.093 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 HOH non-polymer . WATER ? 'H2 O' 18.015 LVR non-polymer . ;1-{[2-({6-[(2-aminoethyl)amino]-5,10-dioxo-5,10-dihydrobenzo[g]isoquinolin-9-yl}amino)ethyl]amino}-1,2-dideoxy-5-O-(dihydroxyphosphanyl)-L-threo-pentitol ; ? 'C22 H30 N5 O8 P' 523.476 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC DC A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 LVR 4 4 4 LVR PIJ A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DT 7 7 7 DT DT A . n A 1 8 DT 8 8 8 DT DT A . n A 1 9 CBR 9 9 9 CBR CBR A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n B 1 1 DC 1 1 1 DC DC B . n B 1 2 DG 2 2 2 DG DG B . n B 1 3 DC 3 3 3 DC DC B . n B 1 4 LVR 4 4 4 LVR PIJ B . n B 1 5 DA 5 5 5 DA DA B . n B 1 6 DA 6 6 6 DA DA B . n B 1 7 DT 7 7 7 DT DT B . n B 1 8 DT 8 8 8 DT DT B . n B 1 9 CBR 9 9 9 CBR CBR B . n B 1 10 DG 10 10 10 DG DG B . n B 1 11 DC 11 11 11 DC DC B . n B 1 12 DG 12 12 12 DG DG B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 EDO 1 101 2 EDO EDO A . D 2 EDO 1 102 3 EDO EDO A . E 2 EDO 1 103 4 EDO EDO A . F 2 EDO 1 101 1 EDO EDO B . G 3 HOH 1 201 29 HOH HOH A . G 3 HOH 2 202 17 HOH HOH A . G 3 HOH 3 203 14 HOH HOH A . G 3 HOH 4 204 5 HOH HOH A . G 3 HOH 5 205 28 HOH HOH A . G 3 HOH 6 206 26 HOH HOH A . G 3 HOH 7 207 7 HOH HOH A . G 3 HOH 8 208 12 HOH HOH A . G 3 HOH 9 209 15 HOH HOH A . G 3 HOH 10 210 22 HOH HOH A . H 3 HOH 1 201 16 HOH HOH B . H 3 HOH 2 202 10 HOH HOH B . H 3 HOH 3 203 31 HOH HOH B . H 3 HOH 4 204 23 HOH HOH B . H 3 HOH 5 205 25 HOH HOH B . H 3 HOH 6 206 30 HOH HOH B . H 3 HOH 7 207 11 HOH HOH B . H 3 HOH 8 208 21 HOH HOH B . H 3 HOH 9 209 27 HOH HOH B . H 3 HOH 10 210 6 HOH HOH B . H 3 HOH 11 211 19 HOH HOH B . H 3 HOH 12 212 13 HOH HOH B . H 3 HOH 13 213 9 HOH HOH B . H 3 HOH 14 214 24 HOH HOH B . H 3 HOH 15 215 8 HOH HOH B . H 3 HOH 16 216 20 HOH HOH B . H 3 HOH 17 217 18 HOH HOH B . # 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 A DC 1 ? N1 ? A DC 1 N1 2 1 Y 1 A DC 1 ? C2 ? A DC 1 C2 3 1 Y 1 A DC 1 ? O2 ? A DC 1 O2 4 1 Y 1 A DC 1 ? N3 ? A DC 1 N3 5 1 Y 1 A DC 1 ? C4 ? A DC 1 C4 6 1 Y 1 A DC 1 ? N4 ? A DC 1 N4 7 1 Y 1 A DC 1 ? C5 ? A DC 1 C5 8 1 Y 1 A DC 1 ? C6 ? A DC 1 C6 # 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 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0267 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.27 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? AutoSol ? ? ? . 5 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 7U38 _cell.details ? _cell.formula_units_Z ? _cell.length_a 95.921 _cell.length_a_esd ? _cell.length_b 95.921 _cell.length_b_esd ? _cell.length_c 73.118 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 24 _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 7U38 _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 2 2' _symmetry.pdbx_full_space_group_name_H-M ? # _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 7U38 _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 ? _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol ? _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, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'Crystallized from drops containing 2.2 M ammonium sulfate, and 2.8% to 3.8% PEG-400, in 0.1 M HEPES sodium' _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 PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 9M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2020-10-22 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator 'Kohzu 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 MAD _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.91840 _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 'APS BEAMLINE 21-ID-D' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.91840 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 21-ID-D _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 7U38 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.490 _reflns.d_resolution_low 50.000 _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 7367 _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 37.500 _reflns.pdbx_Rmerge_I_obs 0.131 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 3.900 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.816 _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 0.133 _reflns.pdbx_Rpim_I_all 0.022 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 276573 _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 ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _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 _reflns_shell.percent_possible_all _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 _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 _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _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 2.490 2.580 ? ? ? ? ? ? 710 100.000 ? ? ? ? 1.212 ? ? ? ? ? ? ? ? 37.900 ? 0.364 ? ? 1.229 0.198 ? 1 1 0.917 ? ? ? ? ? ? ? ? ? ? 2.580 2.680 ? ? ? ? ? ? 720 100.000 ? ? ? ? 0.921 ? ? ? ? ? ? ? ? 40.700 ? 0.378 ? ? 0.932 0.144 ? 2 1 0.952 ? ? ? ? ? ? ? ? ? ? 2.680 2.800 ? ? ? ? ? ? 722 100.000 ? ? ? ? 0.598 ? ? ? ? ? ? ? ? 40.400 ? 0.415 ? ? 0.606 0.094 ? 3 1 0.974 ? ? ? ? ? ? ? ? ? ? 2.800 2.950 ? ? ? ? ? ? 707 100.000 ? ? ? ? 0.489 ? ? ? ? ? ? ? ? 39.800 ? 0.433 ? ? 0.495 0.077 ? 4 1 0.986 ? ? ? ? ? ? ? ? ? ? 2.950 3.140 ? ? ? ? ? ? 716 100.000 ? ? ? ? 0.235 ? ? ? ? ? ? ? ? 39.400 ? 0.509 ? ? 0.238 0.037 ? 5 1 0.997 ? ? ? ? ? ? ? ? ? ? 3.140 3.380 ? ? ? ? ? ? 732 100.000 ? ? ? ? 0.110 ? ? ? ? ? ? ? ? 38.400 ? 0.753 ? ? 0.112 0.018 ? 6 1 0.999 ? ? ? ? ? ? ? ? ? ? 3.380 3.720 ? ? ? ? ? ? 736 100.000 ? ? ? ? 0.100 ? ? ? ? ? ? ? ? 38.100 ? 0.804 ? ? 0.102 0.016 ? 7 1 0.999 ? ? ? ? ? ? ? ? ? ? 3.720 4.260 ? ? ? ? ? ? 739 100.000 ? ? ? ? 0.106 ? ? ? ? ? ? ? ? 34.400 ? 0.838 ? ? 0.107 0.018 ? 8 1 0.999 ? ? ? ? ? ? ? ? ? ? 4.260 5.360 ? ? ? ? ? ? 750 99.200 ? ? ? ? 0.108 ? ? ? ? ? ? ? ? 30.400 ? 1.871 ? ? 0.110 0.020 ? 9 1 0.998 ? ? ? ? ? ? ? ? ? ? 5.360 50.000 ? ? ? ? ? ? 835 100.000 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 36.400 ? 1.933 ? ? 0.088 0.014 ? 10 1 0.999 ? ? ? ? ? ? ? ? ? ? # _refine.aniso_B[1][1] 0.1900 _refine.aniso_B[1][2] 0.0900 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][2] 0.1900 _refine.aniso_B[2][3] 0.0000 _refine.aniso_B[3][3] -0.6100 _refine.B_iso_max 156.380 _refine.B_iso_mean 49.5630 _refine.B_iso_min 5.560 _refine.correlation_coeff_Fo_to_Fc 0.9310 _refine.correlation_coeff_Fo_to_Fc_free 0.9310 _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 7U38 _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 2.4900 _refine.ls_d_res_low 27.7100 _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 6740 _refine.ls_number_reflns_R_free 537 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.9300 _refine.ls_percent_reflns_R_free 7.4000 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2462 _refine.ls_R_factor_R_free 0.2618 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2450 _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 MASK _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 0.000 _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 SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.2180 _refine.pdbx_overall_ESU_R_Free 0.1920 _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _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 ? _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 6.2000 _refine.overall_SU_ML 0.1300 _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 2.4900 _refine_hist.d_res_low 27.7100 _refine_hist.number_atoms_solvent 27 _refine_hist.number_atoms_total 549 _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 24 _refine_hist.pdbx_B_iso_mean_ligand 77.38 _refine_hist.pdbx_B_iso_mean_solvent 39.53 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 506 _refine_hist.pdbx_number_atoms_ligand 16 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.010 0.013 575 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.004 0.021 314 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.381 1.513 864 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 1.337 2.956 734 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? 0.063 0.200 69 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.041 0.021 311 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.010 0.021 126 ? r_gen_planes_other ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 2.4920 _refine_ls_shell.d_res_low 2.5570 _refine_ls_shell.number_reflns_all 525 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 38 _refine_ls_shell.number_reflns_R_work 487 _refine_ls_shell.percent_reflns_obs 99.6200 _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 0.4830 _refine_ls_shell.R_factor_R_free_error 0.0000 _refine_ls_shell.R_factor_R_work 0.6200 _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 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 7U38 _struct.title 'Pixantrone tethered DNA duplex' _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 7U38 _struct_keywords.text 'Pixantrone, DNA structure, Pixantrone-AP, pixantrone conjugate, abasic site, DNA' _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 3 ? H N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 7U38 _struct_ref.pdbx_db_accession 7U38 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 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 7U38 A 1 ? 12 ? 7U38 1 ? 12 ? 1 12 2 1 7U38 B 1 ? 12 ? 7U38 1 ? 12 ? 1 12 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H # _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 ? # _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_ _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 ? A DC 3 "O3'" ? ? ? 1_555 A LVR 4 P ? ? A DC 3 A LVR 4 1_555 ? ? ? ? ? ? ? 1.591 ? ? covale2 covale one ? A LVR 4 "O3'" ? ? ? 1_555 A DA 5 P ? ? A LVR 4 A DA 5 1_555 ? ? ? ? ? ? ? 1.576 ? ? covale3 covale both ? A DT 8 "O3'" ? ? ? 1_555 A CBR 9 P ? ? A DT 8 A CBR 9 1_555 ? ? ? ? ? ? ? 1.585 ? ? covale4 covale both ? A CBR 9 "O3'" ? ? ? 1_555 A DG 10 P ? ? A CBR 9 A DG 10 1_555 ? ? ? ? ? ? ? 1.595 ? ? covale5 covale both ? B DC 3 "O3'" ? ? ? 1_555 B LVR 4 P ? ? B DC 3 B LVR 4 1_555 ? ? ? ? ? ? ? 1.597 ? ? covale6 covale one ? B LVR 4 "O3'" ? ? ? 1_555 B DA 5 P ? ? B LVR 4 B DA 5 1_555 ? ? ? ? ? ? ? 1.588 ? ? covale7 covale both ? B DT 8 "O3'" ? ? ? 1_555 B CBR 9 P ? ? B DT 8 B CBR 9 1_555 ? ? ? ? ? ? ? 1.599 ? ? covale8 covale both ? B CBR 9 "O3'" ? ? ? 1_555 B DG 10 P ? ? B CBR 9 B DG 10 1_555 ? ? ? ? ? ? ? 1.569 ? ? hydrog1 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A CBR 9 N3 ? ? ? 1_555 A DG 12 N1 ? ? A CBR 9 A DG 12 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A CBR 9 N4 ? ? ? 1_555 A DG 12 O6 ? ? A CBR 9 A DG 12 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A CBR 9 O2 ? ? ? 1_555 A DG 12 N2 ? ? A CBR 9 A DG 12 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DC 11 N3 ? ? A DG 10 A DC 11 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DC 11 O2 ? ? A DG 10 A DC 11 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 10 O6 ? ? ? 1_555 A DC 11 N4 ? ? A DG 10 A DC 11 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 11 N3 ? ? ? 1_555 A DG 10 N1 ? ? A DC 11 A DG 10 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 11 N4 ? ? ? 1_555 A DG 10 O6 ? ? A DC 11 A DG 10 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 11 O2 ? ? ? 1_555 A DG 10 N2 ? ? A DC 11 A DG 10 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 12 N1 ? ? ? 1_555 A CBR 9 N3 ? ? A DG 12 A CBR 9 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 12 N2 ? ? ? 1_555 A CBR 9 O2 ? ? A DG 12 A CBR 9 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 12 O6 ? ? ? 1_555 A CBR 9 N4 ? ? A DG 12 A CBR 9 4_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? B CBR 9 N3 ? ? ? 1_555 B DG 12 N1 ? ? B CBR 9 B DG 12 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? B CBR 9 N4 ? ? ? 1_555 B DG 12 O6 ? ? B CBR 9 B DG 12 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? B CBR 9 O2 ? ? ? 1_555 B DG 12 N2 ? ? B CBR 9 B DG 12 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? B DG 10 N1 ? ? ? 1_555 B DC 11 N3 ? ? B DG 10 B DC 11 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? B DG 10 N2 ? ? ? 1_555 B DC 11 O2 ? ? B DG 10 B DC 11 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? B DG 10 O6 ? ? ? 1_555 B DC 11 N4 ? ? B DG 10 B DC 11 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? B DC 11 N3 ? ? ? 1_555 B DG 10 N1 ? ? B DC 11 B DG 10 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? B DC 11 N4 ? ? ? 1_555 B DG 10 O6 ? ? B DC 11 B DG 10 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B DC 11 O2 ? ? ? 1_555 B DG 10 N2 ? ? B DC 11 B DG 10 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B DG 12 N1 ? ? ? 1_555 B CBR 9 N3 ? ? B DG 12 B CBR 9 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B DG 12 N2 ? ? ? 1_555 B CBR 9 O2 ? ? B DG 12 B CBR 9 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B DG 12 O6 ? ? ? 1_555 B CBR 9 N4 ? ? B DG 12 B CBR 9 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DT _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 8 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.062 _pdbx_validate_planes.type 'SIDE CHAIN' # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 214 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id H _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # _pdbx_entry_details.entry_id 7U38 _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_distant_solvent_atoms.id 1 _pdbx_distant_solvent_atoms.PDB_model_num 1 _pdbx_distant_solvent_atoms.auth_atom_id O _pdbx_distant_solvent_atoms.label_alt_id ? _pdbx_distant_solvent_atoms.auth_asym_id B _pdbx_distant_solvent_atoms.auth_comp_id HOH _pdbx_distant_solvent_atoms.auth_seq_id 217 _pdbx_distant_solvent_atoms.PDB_ins_code ? _pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 5.93 _pdbx_distant_solvent_atoms.neighbor_ligand_distance . # 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 CBR BR BR N N 1 CBR P P N N 2 CBR OP1 O N N 3 CBR OP2 O N N 4 CBR "O5'" O N N 5 CBR N1 N N N 6 CBR C6 C N N 7 CBR C2 C N N 8 CBR O2 O N N 9 CBR N3 N N N 10 CBR C4 C N N 11 CBR N4 N N N 12 CBR C5 C N N 13 CBR "C2'" C N N 14 CBR "C5'" C N N 15 CBR "C4'" C N R 16 CBR "O4'" O N N 17 CBR "C1'" C N R 18 CBR "C3'" C N S 19 CBR "O3'" O N N 20 CBR OP3 O N N 21 CBR HOP2 H N N 22 CBR H6 H N N 23 CBR H41 H N N 24 CBR H42 H N N 25 CBR "H2'" H N N 26 CBR "H2''" H N N 27 CBR "H5'" H N N 28 CBR "H5''" H N N 29 CBR "H4'" H N N 30 CBR "H1'" H N N 31 CBR "H3'" H N N 32 CBR "HO3'" H N N 33 CBR HOP3 H N N 34 DA OP3 O N N 35 DA P P N N 36 DA OP1 O N N 37 DA OP2 O N N 38 DA "O5'" O N N 39 DA "C5'" C N N 40 DA "C4'" C N R 41 DA "O4'" O N N 42 DA "C3'" C N S 43 DA "O3'" O N N 44 DA "C2'" C N N 45 DA "C1'" C N R 46 DA N9 N Y N 47 DA C8 C Y N 48 DA N7 N Y N 49 DA C5 C Y N 50 DA C6 C Y N 51 DA N6 N N N 52 DA N1 N Y N 53 DA C2 C Y N 54 DA N3 N Y N 55 DA C4 C Y N 56 DA HOP3 H N N 57 DA HOP2 H N N 58 DA "H5'" H N N 59 DA "H5''" H N N 60 DA "H4'" H N N 61 DA "H3'" H N N 62 DA "HO3'" H N N 63 DA "H2'" H N N 64 DA "H2''" H N N 65 DA "H1'" H N N 66 DA H8 H N N 67 DA H61 H N N 68 DA H62 H N N 69 DA H2 H N N 70 DC OP3 O N N 71 DC P P N N 72 DC OP1 O N N 73 DC OP2 O N N 74 DC "O5'" O N N 75 DC "C5'" C N N 76 DC "C4'" C N R 77 DC "O4'" O N N 78 DC "C3'" C N S 79 DC "O3'" O N N 80 DC "C2'" C N N 81 DC "C1'" C N R 82 DC N1 N N N 83 DC C2 C N N 84 DC O2 O N N 85 DC N3 N N N 86 DC C4 C N N 87 DC N4 N N N 88 DC C5 C N N 89 DC C6 C N N 90 DC HOP3 H N N 91 DC HOP2 H N N 92 DC "H5'" H N N 93 DC "H5''" H N N 94 DC "H4'" H N N 95 DC "H3'" H N N 96 DC "HO3'" H N N 97 DC "H2'" H N N 98 DC "H2''" H N N 99 DC "H1'" H N N 100 DC H41 H N N 101 DC H42 H N N 102 DC H5 H N N 103 DC H6 H N N 104 DG OP3 O N N 105 DG P P N N 106 DG OP1 O N N 107 DG OP2 O N N 108 DG "O5'" O N N 109 DG "C5'" C N N 110 DG "C4'" C N R 111 DG "O4'" O N N 112 DG "C3'" C N S 113 DG "O3'" O N N 114 DG "C2'" C N N 115 DG "C1'" C N R 116 DG N9 N Y N 117 DG C8 C Y N 118 DG N7 N Y N 119 DG C5 C Y N 120 DG C6 C N N 121 DG O6 O N N 122 DG N1 N N N 123 DG C2 C N N 124 DG N2 N N N 125 DG N3 N N N 126 DG C4 C Y N 127 DG HOP3 H N N 128 DG HOP2 H N N 129 DG "H5'" H N N 130 DG "H5''" H N N 131 DG "H4'" H N N 132 DG "H3'" H N N 133 DG "HO3'" H N N 134 DG "H2'" H N N 135 DG "H2''" H N N 136 DG "H1'" H N N 137 DG H8 H N N 138 DG H1 H N N 139 DG H21 H N N 140 DG H22 H N N 141 DT OP3 O N N 142 DT P P N N 143 DT OP1 O N N 144 DT OP2 O N N 145 DT "O5'" O N N 146 DT "C5'" C N N 147 DT "C4'" C N R 148 DT "O4'" O N N 149 DT "C3'" C N S 150 DT "O3'" O N N 151 DT "C2'" C N N 152 DT "C1'" C N R 153 DT N1 N N N 154 DT C2 C N N 155 DT O2 O N N 156 DT N3 N N N 157 DT C4 C N N 158 DT O4 O N N 159 DT C5 C N N 160 DT C7 C N N 161 DT C6 C N N 162 DT HOP3 H N N 163 DT HOP2 H N N 164 DT "H5'" H N N 165 DT "H5''" H N N 166 DT "H4'" H N N 167 DT "H3'" H N N 168 DT "HO3'" H N N 169 DT "H2'" H N N 170 DT "H2''" H N N 171 DT "H1'" H N N 172 DT H3 H N N 173 DT H71 H N N 174 DT H72 H N N 175 DT H73 H N N 176 DT H6 H N N 177 EDO C1 C N N 178 EDO O1 O N N 179 EDO C2 C N N 180 EDO O2 O N N 181 EDO H11 H N N 182 EDO H12 H N N 183 EDO HO1 H N N 184 EDO H21 H N N 185 EDO H22 H N N 186 EDO HO2 H N N 187 HOH O O N N 188 HOH H1 H N N 189 HOH H2 H N N 190 LVR OP1 O N N 191 LVR P P N N 192 LVR OP2 O N N 193 LVR "O5'" O N N 194 LVR "C5'" C N N 195 LVR "C4'" C N S 196 LVR "O4'" O N N 197 LVR "C3'" C N S 198 LVR "O3'" O N N 199 LVR "C2'" C N N 200 LVR "C1'" C N N 201 LVR NAT N N N 202 LVR CAP C N N 203 LVR CAR C N N 204 LVR NAV N N N 205 LVR CAZ C Y N 206 LVR CAJ C Y N 207 LVR CAI C Y N 208 LVR CBF C Y N 209 LVR CBB C N N 210 LVR OAB O N N 211 LVR CBD C Y N 212 LVR CAX C Y N 213 LVR NAH N Y N 214 LVR CAG C Y N 215 LVR CAW C Y N 216 LVR CBC C Y N 217 LVR CBA C N N 218 LVR OAA O N N 219 LVR CBE C Y N 220 LVR CAY C Y N 221 LVR NAU N N N 222 LVR CAQ C N N 223 LVR CAO C N N 224 LVR NAS N N N 225 LVR H2 H N N 226 LVR H3 H N N 227 LVR H4 H N N 228 LVR H5 H N N 229 LVR H6 H N N 230 LVR H7 H N N 231 LVR H8 H N N 232 LVR H9 H N N 233 LVR H10 H N N 234 LVR H11 H N N 235 LVR H12 H N N 236 LVR H13 H N N 237 LVR H15 H N N 238 LVR H16 H N N 239 LVR H17 H N N 240 LVR H18 H N N 241 LVR H19 H N N 242 LVR H20 H N N 243 LVR H21 H N N 244 LVR H22 H N N 245 LVR H23 H N N 246 LVR H24 H N N 247 LVR H25 H N N 248 LVR H26 H N N 249 LVR H27 H N N 250 LVR H28 H N N 251 LVR H29 H N N 252 LVR H30 H N N 253 LVR H31 H N N 254 LVR OP3 O N N 255 LVR HO3 H N N 256 # 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 CBR BR C5 sing N N 1 CBR P OP1 doub N N 2 CBR P OP2 sing N N 3 CBR P "O5'" sing N N 4 CBR P OP3 sing N N 5 CBR OP2 HOP2 sing N N 6 CBR "O5'" "C5'" sing N N 7 CBR N1 C6 sing N N 8 CBR N1 C2 sing N N 9 CBR N1 "C1'" sing N N 10 CBR C6 C5 doub N N 11 CBR C6 H6 sing N N 12 CBR C2 O2 doub N N 13 CBR C2 N3 sing N N 14 CBR N3 C4 doub N N 15 CBR C4 N4 sing N N 16 CBR C4 C5 sing N N 17 CBR N4 H41 sing N N 18 CBR N4 H42 sing N N 19 CBR "C2'" "C1'" sing N N 20 CBR "C2'" "C3'" sing N N 21 CBR "C2'" "H2'" sing N N 22 CBR "C2'" "H2''" sing N N 23 CBR "C5'" "C4'" sing N N 24 CBR "C5'" "H5'" sing N N 25 CBR "C5'" "H5''" sing N N 26 CBR "C4'" "O4'" sing N N 27 CBR "C4'" "C3'" sing N N 28 CBR "C4'" "H4'" sing N N 29 CBR "O4'" "C1'" sing N N 30 CBR "C1'" "H1'" sing N N 31 CBR "C3'" "O3'" sing N N 32 CBR "C3'" "H3'" sing N N 33 CBR "O3'" "HO3'" sing N N 34 CBR OP3 HOP3 sing N N 35 DA OP3 P sing N N 36 DA OP3 HOP3 sing N N 37 DA P OP1 doub N N 38 DA P OP2 sing N N 39 DA P "O5'" sing N N 40 DA OP2 HOP2 sing N N 41 DA "O5'" "C5'" sing N N 42 DA "C5'" "C4'" sing N N 43 DA "C5'" "H5'" sing N N 44 DA "C5'" "H5''" sing N N 45 DA "C4'" "O4'" sing N N 46 DA "C4'" "C3'" sing N N 47 DA "C4'" "H4'" sing N N 48 DA "O4'" "C1'" sing N N 49 DA "C3'" "O3'" sing N N 50 DA "C3'" "C2'" sing N N 51 DA "C3'" "H3'" sing N N 52 DA "O3'" "HO3'" sing N N 53 DA "C2'" "C1'" sing N N 54 DA "C2'" "H2'" sing N N 55 DA "C2'" "H2''" sing N N 56 DA "C1'" N9 sing N N 57 DA "C1'" "H1'" sing N N 58 DA N9 C8 sing Y N 59 DA N9 C4 sing Y N 60 DA C8 N7 doub Y N 61 DA C8 H8 sing N N 62 DA N7 C5 sing Y N 63 DA C5 C6 sing Y N 64 DA C5 C4 doub Y N 65 DA C6 N6 sing N N 66 DA C6 N1 doub Y N 67 DA N6 H61 sing N N 68 DA N6 H62 sing N N 69 DA N1 C2 sing Y N 70 DA C2 N3 doub Y N 71 DA C2 H2 sing N N 72 DA N3 C4 sing Y N 73 DC OP3 P sing N N 74 DC OP3 HOP3 sing N N 75 DC P OP1 doub N N 76 DC P OP2 sing N N 77 DC P "O5'" sing N N 78 DC OP2 HOP2 sing N N 79 DC "O5'" "C5'" sing N N 80 DC "C5'" "C4'" sing N N 81 DC "C5'" "H5'" sing N N 82 DC "C5'" "H5''" sing N N 83 DC "C4'" "O4'" sing N N 84 DC "C4'" "C3'" sing N N 85 DC "C4'" "H4'" sing N N 86 DC "O4'" "C1'" sing N N 87 DC "C3'" "O3'" sing N N 88 DC "C3'" "C2'" sing N N 89 DC "C3'" "H3'" sing N N 90 DC "O3'" "HO3'" sing N N 91 DC "C2'" "C1'" sing N N 92 DC "C2'" "H2'" sing N N 93 DC "C2'" "H2''" sing N N 94 DC "C1'" N1 sing N N 95 DC "C1'" "H1'" sing N N 96 DC N1 C2 sing N N 97 DC N1 C6 sing N N 98 DC C2 O2 doub N N 99 DC C2 N3 sing N N 100 DC N3 C4 doub N N 101 DC C4 N4 sing N N 102 DC C4 C5 sing N N 103 DC N4 H41 sing N N 104 DC N4 H42 sing N N 105 DC C5 C6 doub N N 106 DC C5 H5 sing N N 107 DC C6 H6 sing N N 108 DG OP3 P sing N N 109 DG OP3 HOP3 sing N N 110 DG P OP1 doub N N 111 DG P OP2 sing N N 112 DG P "O5'" sing N N 113 DG OP2 HOP2 sing N N 114 DG "O5'" "C5'" sing N N 115 DG "C5'" "C4'" sing N N 116 DG "C5'" "H5'" sing N N 117 DG "C5'" "H5''" sing N N 118 DG "C4'" "O4'" sing N N 119 DG "C4'" "C3'" sing N N 120 DG "C4'" "H4'" sing N N 121 DG "O4'" "C1'" sing N N 122 DG "C3'" "O3'" sing N N 123 DG "C3'" "C2'" sing N N 124 DG "C3'" "H3'" sing N N 125 DG "O3'" "HO3'" sing N N 126 DG "C2'" "C1'" sing N N 127 DG "C2'" "H2'" sing N N 128 DG "C2'" "H2''" sing N N 129 DG "C1'" N9 sing N N 130 DG "C1'" "H1'" sing N N 131 DG N9 C8 sing Y N 132 DG N9 C4 sing Y N 133 DG C8 N7 doub Y N 134 DG C8 H8 sing N N 135 DG N7 C5 sing Y N 136 DG C5 C6 sing N N 137 DG C5 C4 doub Y N 138 DG C6 O6 doub N N 139 DG C6 N1 sing N N 140 DG N1 C2 sing N N 141 DG N1 H1 sing N N 142 DG C2 N2 sing N N 143 DG C2 N3 doub N N 144 DG N2 H21 sing N N 145 DG N2 H22 sing N N 146 DG N3 C4 sing N N 147 DT OP3 P sing N N 148 DT OP3 HOP3 sing N N 149 DT P OP1 doub N N 150 DT P OP2 sing N N 151 DT P "O5'" sing N N 152 DT OP2 HOP2 sing N N 153 DT "O5'" "C5'" sing N N 154 DT "C5'" "C4'" sing N N 155 DT "C5'" "H5'" sing N N 156 DT "C5'" "H5''" sing N N 157 DT "C4'" "O4'" sing N N 158 DT "C4'" "C3'" sing N N 159 DT "C4'" "H4'" sing N N 160 DT "O4'" "C1'" sing N N 161 DT "C3'" "O3'" sing N N 162 DT "C3'" "C2'" sing N N 163 DT "C3'" "H3'" sing N N 164 DT "O3'" "HO3'" sing N N 165 DT "C2'" "C1'" sing N N 166 DT "C2'" "H2'" sing N N 167 DT "C2'" "H2''" sing N N 168 DT "C1'" N1 sing N N 169 DT "C1'" "H1'" sing N N 170 DT N1 C2 sing N N 171 DT N1 C6 sing N N 172 DT C2 O2 doub N N 173 DT C2 N3 sing N N 174 DT N3 C4 sing N N 175 DT N3 H3 sing N N 176 DT C4 O4 doub N N 177 DT C4 C5 sing N N 178 DT C5 C7 sing N N 179 DT C5 C6 doub N N 180 DT C7 H71 sing N N 181 DT C7 H72 sing N N 182 DT C7 H73 sing N N 183 DT C6 H6 sing N N 184 EDO C1 O1 sing N N 185 EDO C1 C2 sing N N 186 EDO C1 H11 sing N N 187 EDO C1 H12 sing N N 188 EDO O1 HO1 sing N N 189 EDO C2 O2 sing N N 190 EDO C2 H21 sing N N 191 EDO C2 H22 sing N N 192 EDO O2 HO2 sing N N 193 HOH O H1 sing N N 194 HOH O H2 sing N N 195 LVR CAP NAT sing N N 196 LVR CAP CAR sing N N 197 LVR NAT "C1'" sing N N 198 LVR "C1'" "C2'" sing N N 199 LVR "C2'" "C3'" sing N N 200 LVR "O3'" "C3'" sing N N 201 LVR CAO NAS sing N N 202 LVR CAO CAQ sing N N 203 LVR CAR NAV sing N N 204 LVR NAV CAZ sing N N 205 LVR CAJ CAZ doub Y N 206 LVR CAJ CAI sing Y N 207 LVR "C3'" "C4'" sing N N 208 LVR CAZ CBF sing Y N 209 LVR CAI CAY doub Y N 210 LVR "O4'" "C4'" sing N N 211 LVR "C4'" "C5'" sing N N 212 LVR CBF CBB sing N N 213 LVR CBF CBE doub Y N 214 LVR OAB CBB doub N N 215 LVR CAY CBE sing Y N 216 LVR CAY NAU sing N N 217 LVR CBB CBD sing N N 218 LVR CBE CBA sing N N 219 LVR NAU CAQ sing N N 220 LVR CBD CAX doub Y N 221 LVR CBD CBC sing Y N 222 LVR CBA CBC sing N N 223 LVR CBA OAA doub N N 224 LVR CAX NAH sing Y N 225 LVR CBC CAW doub Y N 226 LVR "C5'" "O5'" sing N N 227 LVR NAH CAG doub Y N 228 LVR CAW CAG sing Y N 229 LVR "O5'" P sing N N 230 LVR P OP1 doub N N 231 LVR P OP2 sing N N 232 LVR OP2 H2 sing N N 233 LVR "C5'" H3 sing N N 234 LVR "C5'" H4 sing N N 235 LVR "C4'" H5 sing N N 236 LVR "O4'" H6 sing N N 237 LVR "C3'" H7 sing N N 238 LVR "O3'" H8 sing N N 239 LVR "C2'" H9 sing N N 240 LVR "C2'" H10 sing N N 241 LVR "C1'" H11 sing N N 242 LVR "C1'" H12 sing N N 243 LVR NAT H13 sing N N 244 LVR CAP H15 sing N N 245 LVR CAP H16 sing N N 246 LVR CAR H17 sing N N 247 LVR CAR H18 sing N N 248 LVR NAV H19 sing N N 249 LVR CAJ H20 sing N N 250 LVR CAI H21 sing N N 251 LVR CAX H22 sing N N 252 LVR CAG H23 sing N N 253 LVR CAW H24 sing N N 254 LVR NAU H25 sing N N 255 LVR CAQ H26 sing N N 256 LVR CAQ H27 sing N N 257 LVR CAO H28 sing N N 258 LVR CAO H29 sing N N 259 LVR NAS H30 sing N N 260 LVR NAS H31 sing N N 261 LVR P OP3 sing N N 262 LVR OP3 HO3 sing N N 263 # _ndb_struct_conf_na.entry_id 7U38 _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DA 5 1_555 B DT 8 1_555 0.201 -0.184 -0.193 -2.067 -11.197 2.290 1 A_DA5:DT8_B A 5 ? B 8 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 -0.075 -0.236 -0.026 3.995 -13.361 2.123 2 A_DA6:DT7_B A 6 ? B 7 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 0.129 -0.201 0.154 1.574 -12.700 2.998 3 A_DT7:DA6_B A 7 ? B 6 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.239 -0.236 -0.081 4.731 -7.893 0.962 4 A_DT8:DA5_B A 8 ? B 5 ? 20 1 1 A CBR 9 1_555 A DG 12 4_665 0.205 -0.221 -0.019 -2.827 -12.640 1.129 5 A_CBR9:DG12_A A 9 ? A 12 ? 19 1 1 A DG 10 1_555 A DC 11 4_665 -0.217 -0.382 0.208 3.299 -5.016 3.350 6 A_DG10:DC11_A A 10 ? A 11 ? 19 1 1 A DC 11 1_555 A DG 10 4_665 0.217 -0.382 0.208 -3.299 -5.016 3.350 7 A_DC11:DG10_A A 11 ? A 10 ? 19 1 1 A DG 12 1_555 A CBR 9 4_665 -0.205 -0.221 -0.019 2.827 -12.640 1.129 8 A_DG12:CBR9_A A 12 ? A 9 ? 19 1 1 B CBR 9 1_555 B DG 12 12_555 0.047 -0.185 -0.005 -2.110 -12.206 -1.969 9 B_CBR9:DG12_B B 9 ? B 12 ? 19 1 1 B DG 10 1_555 B DC 11 12_555 -0.109 -0.146 -0.255 -9.500 -2.689 -1.763 10 B_DG10:DC11_B B 10 ? B 11 ? 19 1 1 B DC 11 1_555 B DG 10 12_555 0.109 -0.146 -0.255 9.500 -2.689 -1.763 11 B_DC11:DG10_B B 11 ? B 10 ? 19 1 1 B DG 12 1_555 B CBR 9 12_555 -0.047 -0.185 -0.005 2.110 -12.206 -1.969 12 B_DG12:CBR9_B B 12 ? B 9 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 -0.039 -0.407 3.077 0.285 -3.725 34.655 -0.143 0.106 3.102 -6.232 -0.476 34.850 1 AA_DA5DA6:DT7DT8_BB A 5 ? B 8 ? A 6 ? B 7 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 0.178 -0.770 3.279 -1.362 -2.147 33.647 -0.975 -0.529 3.311 -3.703 2.349 33.740 2 AA_DA6DT7:DA6DT7_BB A 6 ? B 7 ? A 7 ? B 6 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 0.056 -0.478 3.200 0.553 -2.719 36.564 -0.393 -0.014 3.226 -4.326 -0.880 36.666 3 AA_DT7DT8:DA5DA6_BB A 7 ? B 6 ? A 8 ? B 5 ? 1 A CBR 9 1_555 A DG 12 4_665 A DG 10 1_555 A DC 11 4_665 0.167 0.472 3.205 -3.545 11.263 29.513 -1.219 -0.960 3.131 21.077 6.633 31.738 4 AA_CBR9DG10:DC11DG12_AA A 9 ? A 12 ? A 10 ? A 11 ? 1 A DG 10 1_555 A DC 11 4_665 A DC 11 1_555 A DG 10 4_665 0.000 -0.313 3.425 0.000 3.440 32.334 -1.186 0.000 3.375 6.156 0.000 32.512 5 AA_DG10DC11:DG10DC11_AA A 10 ? A 11 ? A 11 ? A 10 ? 1 A DC 11 1_555 A DG 10 4_665 A DG 12 1_555 A CBR 9 4_665 -0.167 0.472 3.205 3.545 11.263 29.513 -1.219 0.960 3.131 21.077 -6.633 31.738 6 AA_DC11DG12:CBR9DG10_AA A 11 ? A 10 ? A 12 ? A 9 ? 1 B CBR 9 1_555 B DG 12 12_555 B DG 10 1_555 B DC 11 12_555 0.495 0.510 3.449 0.961 7.306 37.917 -0.195 -0.622 3.495 11.116 -1.462 38.600 7 BB_CBR9DG10:DC11DG12_BB B 9 ? B 12 ? B 10 ? B 11 ? 1 B DG 10 1_555 B DC 11 12_555 B DC 11 1_555 B DG 10 12_555 0.000 0.102 2.783 0.000 7.360 19.600 -2.406 0.000 2.645 20.701 0.000 20.923 8 BB_DG10DC11:DG10DC11_BB B 10 ? B 11 ? B 11 ? B 10 ? 1 B DC 11 1_555 B DG 10 12_555 B DG 12 1_555 B CBR 9 12_555 -0.495 0.510 3.449 -0.961 7.306 37.917 -0.195 0.622 3.495 11.116 1.462 38.600 9 BB_DC11DG12:CBR9DG10_BB B 11 ? B 10 ? B 12 ? B 9 ? # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Cancer Institute (NIH/NCI)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number 'P01 CA-160032' _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id LVR _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id LVR _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _atom_sites.entry_id 7U38 _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] 0.010425 _atom_sites.fract_transf_matrix[1][2] 0.006019 _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] 0.012038 _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] 0.013677 _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 BR C N O P # loop_