data_7RIL # _entry.id 7RIL # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 7RIL pdb_00007ril 10.2210/pdb7ril/pdb WWPDB D_1000258299 ? ? # 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 2022-01-12 2 'Structure model' 1 1 2022-07-27 3 'Structure model' 1 2 2024-03-13 4 'Structure model' 1 3 2024-04-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Source and taxonomy' 4 4 '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' citation 2 2 'Structure model' citation_author 3 3 'Structure model' chem_comp_atom 4 3 'Structure model' chem_comp_bond 5 3 'Structure model' entity_src_nat 6 4 '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' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.journal_volume' 7 2 'Structure model' '_citation.pdbx_database_id_DOI' 8 2 'Structure model' '_citation.pdbx_database_id_PubMed' 9 2 'Structure model' '_citation.title' 10 2 'Structure model' '_citation.year' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7RIL _pdbx_database_status.recvd_initial_deposition_date 2021-07-20 _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 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Oh, J.' 1 ? 'Dervan, P.B.' 2 ? 'Wang, D.' 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 US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_id_ASTM PNASA6 _citation.journal_id_CSD 0040 _citation.journal_id_ISSN 1091-6490 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 119 _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title ;RNA polymerase II trapped on a molecular treadmill: Structural basis of persistent transcriptional arrest by a minor groove DNA binder. ; _citation.year 2022 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1073/pnas.2114065119 _citation.pdbx_database_id_PubMed 35022237 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Oh, J.' 1 0000-0002-7625-2779 primary 'Jia, T.' 2 0000-0002-9106-2842 primary 'Xu, J.' 3 ? primary 'Chong, J.' 4 ? primary 'Dervan, P.B.' 5 ? primary 'Wang, D.' 6 0000-0002-2829-1546 # 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 'non-template DNA' 3029.993 1 ? ? ? ? 2 polymer syn 'template DNA' 3061.003 1 ? ? ? ? 3 non-polymer nat ;3-({3-[(3-{[4-({4-[(4-{[4-({(2R)-2-amino-4-[(1-methyl-4-{[1-methyl-4-({1-methyl-4-[(1-methyl-1H-imidazole-2-carbonyl)amino]-1H-imidazole-2-carbonyl}amino)-1H-pyrrole-2-carbonyl]amino}-1H-pyrrole-2-carbonyl)amino]butanoyl}amino)-1-methyl-1H-imidazole-2-carbonyl]amino}-1-methyl-1H-pyrrole-2-carbonyl)amino]-1-methyl-1H-pyrrole-2-carbonyl}amino)-1-methyl-1H-pyrrole-2-carbonyl]amino}propyl)(methyl)amino]propyl}carbamoyl)benzoic acid ; 1358.427 1 ? ? ? ? 4 non-polymer nat 'ACETATE ION' 59.044 1 ? ? ? ? 5 water nat water 18.015 17 ? ? ? ? # 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 '(DC)(DC)(DT)(DG)(DA)(DC)(DC)(DA)(DG)(DG)' CCTGACCAGG A ? 2 polydeoxyribonucleotide no no '(DC)(DC)(DT)(DG)(DG)(DT)(DC)(DA)(DG)(DG)' CCTGGTCAGG B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 ;3-({3-[(3-{[4-({4-[(4-{[4-({(2R)-2-amino-4-[(1-methyl-4-{[1-methyl-4-({1-methyl-4-[(1-methyl-1H-imidazole-2-carbonyl)amino]-1H-imidazole-2-carbonyl}amino)-1H-pyrrole-2-carbonyl]amino}-1H-pyrrole-2-carbonyl)amino]butanoyl}amino)-1-methyl-1H-imidazole-2-carbonyl]amino}-1-methyl-1H-pyrrole-2-carbonyl)amino]-1-methyl-1H-pyrrole-2-carbonyl}amino)-1-methyl-1H-pyrrole-2-carbonyl]amino}propyl)(methyl)amino]propyl}carbamoyl)benzoic acid ; 5N0 4 'ACETATE ION' ACT 5 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 DC n 1 3 DT n 1 4 DG n 1 5 DA n 1 6 DC n 1 7 DC n 1 8 DA n 1 9 DG n 1 10 DG n 2 1 DC n 2 2 DC n 2 3 DT n 2 4 DG n 2 5 DG n 2 6 DT n 2 7 DC n 2 8 DA n 2 9 DG n 2 10 DG n # 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 10 'synthetic construct' ? 32630 ? 2 1 sample 1 10 'synthetic construct' ? 32630 ? # 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 5N0 non-polymer . ;3-({3-[(3-{[4-({4-[(4-{[4-({(2R)-2-amino-4-[(1-methyl-4-{[1-methyl-4-({1-methyl-4-[(1-methyl-1H-imidazole-2-carbonyl)amino]-1H-imidazole-2-carbonyl}amino)-1H-pyrrole-2-carbonyl]amino}-1H-pyrrole-2-carbonyl)amino]butanoyl}amino)-1-methyl-1H-imidazole-2-carbonyl]amino}-1-methyl-1H-pyrrole-2-carbonyl)amino]-1-methyl-1H-pyrrole-2-carbonyl}amino)-1-methyl-1H-pyrrole-2-carbonyl]amino}propyl)(methyl)amino]propyl}carbamoyl)benzoic acid ; ? 'C64 H75 N23 O12' 1358.427 ACT non-polymer . 'ACETATE ION' ? 'C2 H3 O2 -1' 59.044 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC DC A . n A 1 2 DC 2 2 2 DC DC A . n A 1 3 DT 3 3 3 DT DT A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DC 6 6 6 DC DC A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DA 8 8 8 DA DA A . n A 1 9 DG 9 9 9 DG DG A . n A 1 10 DG 10 10 10 DG DG A . n B 2 1 DC 1 1 1 DC DC B . n B 2 2 DC 2 2 2 DC DC B . n B 2 3 DT 3 3 3 DT DT B . n B 2 4 DG 4 4 4 DG DG B . n B 2 5 DG 5 5 5 DG DG B . n B 2 6 DT 6 6 6 DT DT B . n B 2 7 DC 7 7 7 DC DC B . n B 2 8 DA 8 8 8 DA DA B . n B 2 9 DG 9 9 9 DG DG B . n B 2 10 DG 10 10 10 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 3 5N0 1 101 101 5N0 1P1 B . D 4 ACT 1 102 201 ACT ACT B . E 5 HOH 1 101 12 HOH HOH A . E 5 HOH 2 102 15 HOH HOH A . E 5 HOH 3 103 6 HOH HOH A . E 5 HOH 4 104 14 HOH HOH A . E 5 HOH 5 105 7 HOH HOH A . E 5 HOH 6 106 10 HOH HOH A . F 5 HOH 1 201 4 HOH HOH B . F 5 HOH 2 202 5 HOH HOH B . F 5 HOH 3 203 3 HOH HOH B . F 5 HOH 4 204 2 HOH HOH B . F 5 HOH 5 205 16 HOH HOH B . F 5 HOH 6 206 11 HOH HOH B . F 5 HOH 7 207 13 HOH HOH B . F 5 HOH 8 208 9 HOH HOH B . F 5 HOH 9 209 1 HOH HOH B . F 5 HOH 10 210 8 HOH HOH B . F 5 HOH 11 211 17 HOH HOH B . # 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' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 0.7.4 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.13_2998 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.27 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? MOSFLM ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 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 7RIL _cell.details ? _cell.formula_units_Z ? _cell.length_a 33.910 _cell.length_a_esd ? _cell.length_b 33.910 _cell.length_b_esd ? _cell.length_c 47.461 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 3 _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 7RIL _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31' _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 7RIL _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 2.59 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 52.45 _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 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '10 mM Tris pH 7.5, 24% 2-methyl-2,4-pentanediol (MPD) and 35 mM calcium acetate, with 35% MPD' _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 'ADSC QUANTUM 315r' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2020-02-08 _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 0.97741 _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 'ALS BEAMLINE 5.0.1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97741 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 5.0.1 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate 47.460 _reflns.entry_id 7RIL _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.650 _reflns.d_resolution_low 47.460 _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 7383 _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 100.000 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 8.800 _reflns.pdbx_Rmerge_I_obs 0.047 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 10.600 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects 9 _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 0.050 _reflns.pdbx_Rpim_I_all 0.017 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 65231 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 1.000 _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 1.650 1.680 ? ? 3628 ? ? ? 398 100.000 ? ? ? ? 2.023 ? ? ? ? ? ? ? ? 9.100 ? ? ? 0.900 2.144 0.704 ? 1 1 0.485 ? ? ? ? ? ? ? ? ? ? 8.890 47.460 ? ? 486 ? ? ? 53 99.300 ? ? ? ? 0.027 ? ? ? ? ? ? ? ? 9.200 ? ? ? 43.000 0.028 0.010 ? 2 1 0.999 ? ? ? ? ? ? ? ? ? ? # _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 141.980 _refine.B_iso_mean 63.3494 _refine.B_iso_min 40.540 _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 7RIL _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 1.8000 _refine.ls_d_res_low 29.3670 _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 5648 _refine.ls_number_reflns_R_free 307 _refine.ls_number_reflns_R_work 5341 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.7700 _refine.ls_percent_reflns_R_free 5.4400 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2052 _refine.ls_R_factor_R_free 0.2283 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2034 _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 1.960 _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 'ideal duplex' _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 45.9700 _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 0.3300 _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 1.8000 _refine_hist.d_res_low 29.3670 _refine_hist.number_atoms_solvent 17 _refine_hist.number_atoms_total 524 _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 20 _refine_hist.pdbx_B_iso_mean_ligand 73.50 _refine_hist.pdbx_B_iso_mean_solvent 62.00 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 404 _refine_hist.pdbx_number_atoms_ligand 103 _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' 1.8002 2.2679 . . 128 2700 100.0000 . . . 0.3663 0.0000 0.3157 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.2679 29.3670 . . 179 2641 100.0000 . . . 0.2193 0.0000 0.1900 . . . . . . . . . . . # _struct.entry_id 7RIL _struct.title ;Crystal structure of hairpin polyamide Py-Im 1 bound to 5' CCTGACCAGG ; _struct.pdbx_model_details 'RNA polymerase II, 5-guanidinohydantoin, elongation complex, DNA lesion' _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 7RIL _struct_keywords.text 'Polyamide, small molecule, DNA binding molecule, anticancer agent, 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 2 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 5 ? # 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 7RIL 7RIL ? 1 ? 1 2 PDB 7RIL 7RIL ? 2 ? 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 7RIL A 1 ? 10 ? 7RIL 1 ? 10 ? 1 10 2 2 7RIL B 1 ? 10 ? 7RIL 1 ? 10 ? 1 10 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1660 ? 1 MORE -4 ? 1 'SSA (A^2)' 3910 ? # _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 # _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 hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 1 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 1 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 1 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 2 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 2 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DT 3 N3 ? ? ? 1_555 B DA 8 N1 ? ? A DT 3 B DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DT 3 O4 ? ? ? 1_555 B DA 8 N6 ? ? A DT 3 B DA 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 4 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 4 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 4 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 5 B DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 5 B DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 6 B DG 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 6 B DG 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 6 B DG 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 3 N3 ? ? A DA 8 B DT 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 3 O4 ? ? A DA 8 B DT 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 O B HOH 203 ? ? O B HOH 205 ? ? 2.05 2 1 "O5'" B DC 1 ? ? O B HOH 201 ? ? 2.11 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" A DA 5 ? ? "C3'" A DA 5 ? ? 1.374 1.419 -0.045 0.006 N 2 1 "O3'" A DC 7 ? ? "C3'" A DC 7 ? ? 1.374 1.419 -0.045 0.006 N 3 1 "O3'" A DG 9 ? ? "C3'" A DG 9 ? ? 1.368 1.419 -0.051 0.006 N 4 1 "O3'" B DG 5 ? ? "C3'" B DG 5 ? ? 1.361 1.419 -0.058 0.006 N 5 1 "O3'" B DA 8 ? ? "C3'" B DA 8 ? ? 1.372 1.419 -0.047 0.006 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DT 3 ? ? "C1'" A DT 3 ? ? N1 A DT 3 ? ? 113.55 108.30 5.25 0.30 N 2 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 111.08 108.30 2.78 0.30 N 3 1 "O4'" B DC 7 ? ? "C1'" B DC 7 ? ? N1 B DC 7 ? ? 102.54 108.00 -5.46 0.70 N # 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 8.2229 -0.8825 -0.6345 0.4803 ? 0.2538 ? 0.0002 ? 0.5371 ? 0.0240 ? 0.4986 ? 3.3854 ? -1.5118 ? 0.4141 ? 9.1187 ? -0.1533 ? 3.5125 ? -0.6058 ? -0.4133 ? 0.3456 ? 1.1027 ? 0.7607 ? 0.5110 ? -0.1371 ? -0.1401 ? -0.1289 ? 2 'X-RAY DIFFRACTION' ? refined 9.2038 -1.9811 -1.0945 0.6632 ? 0.1219 ? 0.0491 ? 0.3474 ? -0.0127 ? 0.3821 ? 4.8489 ? -0.0444 ? -0.1163 ? 2.4323 ? -0.4789 ? 2.7378 ? -0.1351 ? -0.0258 ? -0.1285 ? -0.1623 ? 0.0528 ? -0.0555 ? -0.1574 ? 0.0828 ? 0.0835 ? # 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 ? ? A 1 ? ? ? A 10 ? ? ;chain 'A' and (resid 1 through 10 ) ; 2 'X-RAY DIFFRACTION' 2 ? ? B 1 ? ? ? B 10 ? ? ;chain 'B' and (resid 1 through 10 ) ; # _pdbx_entry_details.entry_id 7RIL _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 ? # 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 5N0 C1 C N N 1 5N0 N1 N Y N 2 5N0 O1 O N N 3 5N0 C2 C Y N 4 5N0 N2 N Y N 5 5N0 O2 O N N 6 5N0 C3 C Y N 7 5N0 N3 N N N 8 5N0 O3 O N N 9 5N0 C4 C Y N 10 5N0 N4 N Y N 11 5N0 O4 O N N 12 5N0 C5 C N N 13 5N0 N5 N Y N 14 5N0 O5 O N N 15 5N0 C6 C Y N 16 5N0 N6 N N N 17 5N0 O6 O N N 18 5N0 C7 C N N 19 5N0 N7 N Y N 20 5N0 O7 O N N 21 5N0 C8 C Y N 22 5N0 N8 N N N 23 5N0 O8 O N N 24 5N0 C9 C Y N 25 5N0 N9 N Y N 26 5N0 O9 O N N 27 5N0 C10 C N N 28 5N0 N10 N N N 29 5N0 C11 C Y N 30 5N0 N11 N N N 31 5N0 C12 C N N 32 5N0 C13 C Y N 33 5N0 C14 C Y N 34 5N0 N14 N N N 35 5N0 C15 C Y N 36 5N0 N15 N Y N 37 5N0 C16 C N N 38 5N0 N16 N Y N 39 5N0 C17 C Y N 40 5N0 N17 N N N 41 5N0 C18 C N N 42 5N0 N18 N Y N 43 5N0 C19 C Y N 44 5N0 N19 N N N 45 5N0 C20 C Y N 46 5N0 N20 N Y N 47 5N0 C21 C Y N 48 5N0 N21 N N N 49 5N0 C22 C N N 50 5N0 N22 N Y N 51 5N0 C23 C N N 52 5N0 N23 N N N 53 5N0 C24 C N N 54 5N0 C25 C N R 55 5N0 C26 C N N 56 5N0 C27 C N N 57 5N0 C28 C Y N 58 5N0 C29 C Y N 59 5N0 C30 C Y N 60 5N0 C31 C N N 61 5N0 C32 C Y N 62 5N0 C33 C N N 63 5N0 C34 C Y N 64 5N0 C35 C Y N 65 5N0 C36 C Y N 66 5N0 C37 C N N 67 5N0 C38 C Y N 68 5N0 C39 C Y N 69 5N0 C40 C N N 70 5N0 C41 C Y N 71 5N0 C42 C Y N 72 5N0 C43 C N N 73 5N0 C44 C Y N 74 5N0 C45 C N N 75 5N0 C46 C Y N 76 5N0 C47 C Y N 77 5N0 C48 C Y N 78 5N0 C49 C N N 79 5N0 C50 C N N 80 5N0 C51 C N N 81 5N0 C52 C N N 82 5N0 C53 C N N 83 5N0 C54 C N N 84 5N0 C55 C N N 85 5N0 C56 C N N 86 5N0 C57 C Y N 87 5N0 C58 C Y N 88 5N0 C59 C Y N 89 5N0 C60 C Y N 90 5N0 C61 C Y N 91 5N0 C62 C Y N 92 5N0 C63 C N N 93 5N0 C64 C N N 94 5N0 N24 N N N 95 5N0 N25 N N N 96 5N0 O10 O N N 97 5N0 O11 O N N 98 5N0 O12 O N N 99 5N0 H1 H N N 100 5N0 H2 H N N 101 5N0 H3 H N N 102 5N0 H4 H N N 103 5N0 H5 H N N 104 5N0 H6 H N N 105 5N0 H7 H N N 106 5N0 H8 H N N 107 5N0 H9 H N N 108 5N0 H10 H N N 109 5N0 H11 H N N 110 5N0 H12 H N N 111 5N0 H13 H N N 112 5N0 H14 H N N 113 5N0 H15 H N N 114 5N0 H17 H N N 115 5N0 H18 H N N 116 5N0 H19 H N N 117 5N0 H20 H N N 118 5N0 H21 H N N 119 5N0 H22 H N N 120 5N0 H23 H N N 121 5N0 H24 H N N 122 5N0 H25 H N N 123 5N0 H26 H N N 124 5N0 H27 H N N 125 5N0 H28 H N N 126 5N0 H29 H N N 127 5N0 H30 H N N 128 5N0 H31 H N N 129 5N0 H32 H N N 130 5N0 H33 H N N 131 5N0 H34 H N N 132 5N0 H35 H N N 133 5N0 H36 H N N 134 5N0 H37 H N N 135 5N0 H38 H N N 136 5N0 H39 H N N 137 5N0 H40 H N N 138 5N0 H41 H N N 139 5N0 H42 H N N 140 5N0 H43 H N N 141 5N0 H44 H N N 142 5N0 H45 H N N 143 5N0 H46 H N N 144 5N0 H47 H N N 145 5N0 H48 H N N 146 5N0 H49 H N N 147 5N0 H50 H N N 148 5N0 H51 H N N 149 5N0 H52 H N N 150 5N0 H53 H N N 151 5N0 H54 H N N 152 5N0 H55 H N N 153 5N0 H56 H N N 154 5N0 H57 H N N 155 5N0 H58 H N N 156 5N0 H59 H N N 157 5N0 H60 H N N 158 5N0 H61 H N N 159 5N0 H62 H N N 160 5N0 H63 H N N 161 5N0 H64 H N N 162 5N0 H65 H N N 163 5N0 H66 H N N 164 5N0 H67 H N N 165 5N0 H68 H N N 166 5N0 H69 H N N 167 5N0 H70 H N N 168 5N0 H71 H N N 169 5N0 H72 H N N 170 5N0 H73 H N N 171 5N0 H74 H N N 172 5N0 H76 H N N 173 5N0 H77 H N N 174 ACT C C N N 175 ACT O O N N 176 ACT OXT O N N 177 ACT CH3 C N N 178 ACT H1 H N N 179 ACT H2 H N N 180 ACT H3 H N N 181 DA OP3 O N N 182 DA P P N N 183 DA OP1 O N N 184 DA OP2 O N N 185 DA "O5'" O N N 186 DA "C5'" C N N 187 DA "C4'" C N R 188 DA "O4'" O N N 189 DA "C3'" C N S 190 DA "O3'" O N N 191 DA "C2'" C N N 192 DA "C1'" C N R 193 DA N9 N Y N 194 DA C8 C Y N 195 DA N7 N Y N 196 DA C5 C Y N 197 DA C6 C Y N 198 DA N6 N N N 199 DA N1 N Y N 200 DA C2 C Y N 201 DA N3 N Y N 202 DA C4 C Y N 203 DA HOP3 H N N 204 DA HOP2 H N N 205 DA "H5'" H N N 206 DA "H5''" H N N 207 DA "H4'" H N N 208 DA "H3'" H N N 209 DA "HO3'" H N N 210 DA "H2'" H N N 211 DA "H2''" H N N 212 DA "H1'" H N N 213 DA H8 H N N 214 DA H61 H N N 215 DA H62 H N N 216 DA H2 H N N 217 DC OP3 O N N 218 DC P P N N 219 DC OP1 O N N 220 DC OP2 O N N 221 DC "O5'" O N N 222 DC "C5'" C N N 223 DC "C4'" C N R 224 DC "O4'" O N N 225 DC "C3'" C N S 226 DC "O3'" O N N 227 DC "C2'" C N N 228 DC "C1'" C N R 229 DC N1 N N N 230 DC C2 C N N 231 DC O2 O N N 232 DC N3 N N N 233 DC C4 C N N 234 DC N4 N N N 235 DC C5 C N N 236 DC C6 C N N 237 DC HOP3 H N N 238 DC HOP2 H N N 239 DC "H5'" H N N 240 DC "H5''" H N N 241 DC "H4'" H N N 242 DC "H3'" H N N 243 DC "HO3'" H N N 244 DC "H2'" H N N 245 DC "H2''" H N N 246 DC "H1'" H N N 247 DC H41 H N N 248 DC H42 H N N 249 DC H5 H N N 250 DC H6 H N N 251 DG OP3 O N N 252 DG P P N N 253 DG OP1 O N N 254 DG OP2 O N N 255 DG "O5'" O N N 256 DG "C5'" C N N 257 DG "C4'" C N R 258 DG "O4'" O N N 259 DG "C3'" C N S 260 DG "O3'" O N N 261 DG "C2'" C N N 262 DG "C1'" C N R 263 DG N9 N Y N 264 DG C8 C Y N 265 DG N7 N Y N 266 DG C5 C Y N 267 DG C6 C N N 268 DG O6 O N N 269 DG N1 N N N 270 DG C2 C N N 271 DG N2 N N N 272 DG N3 N N N 273 DG C4 C Y N 274 DG HOP3 H N N 275 DG HOP2 H N N 276 DG "H5'" H N N 277 DG "H5''" H N N 278 DG "H4'" H N N 279 DG "H3'" H N N 280 DG "HO3'" H N N 281 DG "H2'" H N N 282 DG "H2''" H N N 283 DG "H1'" H N N 284 DG H8 H N N 285 DG H1 H N N 286 DG H21 H N N 287 DG H22 H N N 288 DT OP3 O N N 289 DT P P N N 290 DT OP1 O N N 291 DT OP2 O N N 292 DT "O5'" O N N 293 DT "C5'" C N N 294 DT "C4'" C N R 295 DT "O4'" O N N 296 DT "C3'" C N S 297 DT "O3'" O N N 298 DT "C2'" C N N 299 DT "C1'" C N R 300 DT N1 N N N 301 DT C2 C N N 302 DT O2 O N N 303 DT N3 N N N 304 DT C4 C N N 305 DT O4 O N N 306 DT C5 C N N 307 DT C7 C N N 308 DT C6 C N N 309 DT HOP3 H N N 310 DT HOP2 H N N 311 DT "H5'" H N N 312 DT "H5''" H N N 313 DT "H4'" H N N 314 DT "H3'" H N N 315 DT "HO3'" H N N 316 DT "H2'" H N N 317 DT "H2''" H N N 318 DT "H1'" H N N 319 DT H3 H N N 320 DT H71 H N N 321 DT H72 H N N 322 DT H73 H N N 323 DT H6 H N N 324 HOH O O N N 325 HOH H1 H N N 326 HOH H2 H N N 327 # 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 5N0 O12 C63 doub N N 1 5N0 O11 C63 sing N N 2 5N0 C63 C59 sing N N 3 5N0 C59 C58 doub Y N 4 5N0 C59 C60 sing Y N 5 5N0 C58 C57 sing Y N 6 5N0 O10 C56 doub N N 7 5N0 C60 C61 doub Y N 8 5N0 C57 C56 sing N N 9 5N0 C57 C62 doub Y N 10 5N0 C56 N25 sing N N 11 5N0 C61 C62 sing Y N 12 5N0 N25 C55 sing N N 13 5N0 C55 C54 sing N N 14 5N0 C54 C53 sing N N 15 5N0 C64 N24 sing N N 16 5N0 N24 C53 sing N N 17 5N0 N24 C52 sing N N 18 5N0 C1 N1 sing N N 19 5N0 C2 N1 sing Y N 20 5N0 C2 C3 doub Y N 21 5N0 C52 C51 sing N N 22 5N0 N1 C4 sing Y N 23 5N0 C3 N2 sing Y N 24 5N0 O9 C49 doub N N 25 5N0 C4 N2 doub Y N 26 5N0 C4 C5 sing N N 27 5N0 C51 C50 sing N N 28 5N0 C45 N22 sing N N 29 5N0 O1 C5 doub N N 30 5N0 C50 N23 sing N N 31 5N0 C49 N23 sing N N 32 5N0 C49 C44 sing N N 33 5N0 C5 N3 sing N N 34 5N0 N22 C44 sing Y N 35 5N0 N22 C46 sing Y N 36 5N0 C44 C47 doub Y N 37 5N0 N3 C9 sing N N 38 5N0 C46 C48 doub Y N 39 5N0 C47 C48 sing Y N 40 5N0 C9 C8 doub Y N 41 5N0 C9 N4 sing Y N 42 5N0 C8 N5 sing Y N 43 5N0 C48 N21 sing N N 44 5N0 N5 C7 sing N N 45 5N0 N5 C6 sing Y N 46 5N0 N4 C6 doub Y N 47 5N0 N21 C43 sing N N 48 5N0 C6 C10 sing N N 49 5N0 O8 C43 doub N N 50 5N0 C43 C39 sing N N 51 5N0 C10 N6 sing N N 52 5N0 C10 O2 doub N N 53 5N0 N6 C14 sing N N 54 5N0 C39 C38 doub Y N 55 5N0 C39 N20 sing Y N 56 5N0 C38 C42 sing Y N 57 5N0 C40 N20 sing N N 58 5N0 N20 C41 sing Y N 59 5N0 C14 C15 sing Y N 60 5N0 C14 C13 doub Y N 61 5N0 C24 C25 sing N N 62 5N0 C24 C23 sing N N 63 5N0 C25 N11 sing N N 64 5N0 C25 C26 sing N N 65 5N0 C15 C11 doub Y N 66 5N0 C42 C41 doub Y N 67 5N0 C42 N19 sing N N 68 5N0 C13 N7 sing Y N 69 5N0 N14 C26 sing N N 70 5N0 N14 C29 sing N N 71 5N0 C23 N10 sing N N 72 5N0 N19 C37 sing N N 73 5N0 C26 O5 doub N N 74 5N0 N10 C22 sing N N 75 5N0 C11 N7 sing Y N 76 5N0 C11 C16 sing N N 77 5N0 N8 C21 sing N N 78 5N0 N8 C16 sing N N 79 5N0 C20 C21 sing Y N 80 5N0 C20 C17 doub Y N 81 5N0 N7 C12 sing N N 82 5N0 C29 N15 sing Y N 83 5N0 C29 C28 doub Y N 84 5N0 N15 C30 doub Y N 85 5N0 C35 C32 doub Y N 86 5N0 C35 C36 sing Y N 87 5N0 C21 C19 doub Y N 88 5N0 C16 O3 doub N N 89 5N0 C37 O7 doub N N 90 5N0 C37 C32 sing N N 91 5N0 C22 C17 sing N N 92 5N0 C22 O4 doub N N 93 5N0 N17 C36 sing N N 94 5N0 N17 C31 sing N N 95 5N0 C17 N9 sing Y N 96 5N0 C32 N18 sing Y N 97 5N0 C36 C34 doub Y N 98 5N0 C30 C31 sing N N 99 5N0 C30 N16 sing Y N 100 5N0 C28 N16 sing Y N 101 5N0 C19 N9 sing Y N 102 5N0 C31 O6 doub N N 103 5N0 N9 C18 sing N N 104 5N0 N16 C27 sing N N 105 5N0 N18 C34 sing Y N 106 5N0 N18 C33 sing N N 107 5N0 C1 H1 sing N N 108 5N0 C1 H2 sing N N 109 5N0 C1 H3 sing N N 110 5N0 C2 H4 sing N N 111 5N0 C3 H5 sing N N 112 5N0 N3 H6 sing N N 113 5N0 N6 H7 sing N N 114 5N0 C7 H8 sing N N 115 5N0 C7 H9 sing N N 116 5N0 C7 H10 sing N N 117 5N0 C8 H11 sing N N 118 5N0 N8 H12 sing N N 119 5N0 N10 H13 sing N N 120 5N0 N11 H14 sing N N 121 5N0 N11 H15 sing N N 122 5N0 C12 H17 sing N N 123 5N0 C12 H18 sing N N 124 5N0 C12 H19 sing N N 125 5N0 C13 H20 sing N N 126 5N0 N14 H21 sing N N 127 5N0 C15 H22 sing N N 128 5N0 N17 H23 sing N N 129 5N0 C18 H24 sing N N 130 5N0 C18 H25 sing N N 131 5N0 C18 H26 sing N N 132 5N0 C19 H27 sing N N 133 5N0 N19 H28 sing N N 134 5N0 C20 H29 sing N N 135 5N0 N21 H30 sing N N 136 5N0 C23 H31 sing N N 137 5N0 C23 H32 sing N N 138 5N0 N23 H33 sing N N 139 5N0 C24 H34 sing N N 140 5N0 C24 H35 sing N N 141 5N0 C25 H36 sing N N 142 5N0 C27 H37 sing N N 143 5N0 C27 H38 sing N N 144 5N0 C27 H39 sing N N 145 5N0 C28 H40 sing N N 146 5N0 C33 H41 sing N N 147 5N0 C33 H42 sing N N 148 5N0 C33 H43 sing N N 149 5N0 C34 H44 sing N N 150 5N0 C35 H45 sing N N 151 5N0 C38 H46 sing N N 152 5N0 C40 H47 sing N N 153 5N0 C40 H48 sing N N 154 5N0 C40 H49 sing N N 155 5N0 C41 H50 sing N N 156 5N0 C45 H51 sing N N 157 5N0 C45 H52 sing N N 158 5N0 C45 H53 sing N N 159 5N0 C46 H54 sing N N 160 5N0 C47 H55 sing N N 161 5N0 C50 H56 sing N N 162 5N0 C50 H57 sing N N 163 5N0 C51 H58 sing N N 164 5N0 C51 H59 sing N N 165 5N0 C52 H60 sing N N 166 5N0 C52 H61 sing N N 167 5N0 C53 H62 sing N N 168 5N0 C53 H63 sing N N 169 5N0 C54 H64 sing N N 170 5N0 C54 H65 sing N N 171 5N0 C55 H66 sing N N 172 5N0 C55 H67 sing N N 173 5N0 C58 H68 sing N N 174 5N0 C60 H69 sing N N 175 5N0 C61 H70 sing N N 176 5N0 C62 H71 sing N N 177 5N0 C64 H72 sing N N 178 5N0 C64 H73 sing N N 179 5N0 C64 H74 sing N N 180 5N0 N25 H76 sing N N 181 5N0 O11 H77 sing N N 182 ACT C O doub N N 183 ACT C OXT sing N N 184 ACT C CH3 sing N N 185 ACT CH3 H1 sing N N 186 ACT CH3 H2 sing N N 187 ACT CH3 H3 sing N N 188 DA OP3 P sing N N 189 DA OP3 HOP3 sing N N 190 DA P OP1 doub N N 191 DA P OP2 sing N N 192 DA P "O5'" sing N N 193 DA OP2 HOP2 sing N N 194 DA "O5'" "C5'" sing N N 195 DA "C5'" "C4'" sing N N 196 DA "C5'" "H5'" sing N N 197 DA "C5'" "H5''" sing N N 198 DA "C4'" "O4'" sing N N 199 DA "C4'" "C3'" sing N N 200 DA "C4'" "H4'" sing N N 201 DA "O4'" "C1'" sing N N 202 DA "C3'" "O3'" sing N N 203 DA "C3'" "C2'" sing N N 204 DA "C3'" "H3'" sing N N 205 DA "O3'" "HO3'" sing N N 206 DA "C2'" "C1'" sing N N 207 DA "C2'" "H2'" sing N N 208 DA "C2'" "H2''" sing N N 209 DA "C1'" N9 sing N N 210 DA "C1'" "H1'" sing N N 211 DA N9 C8 sing Y N 212 DA N9 C4 sing Y N 213 DA C8 N7 doub Y N 214 DA C8 H8 sing N N 215 DA N7 C5 sing Y N 216 DA C5 C6 sing Y N 217 DA C5 C4 doub Y N 218 DA C6 N6 sing N N 219 DA C6 N1 doub Y N 220 DA N6 H61 sing N N 221 DA N6 H62 sing N N 222 DA N1 C2 sing Y N 223 DA C2 N3 doub Y N 224 DA C2 H2 sing N N 225 DA N3 C4 sing Y N 226 DC OP3 P sing N N 227 DC OP3 HOP3 sing N N 228 DC P OP1 doub N N 229 DC P OP2 sing N N 230 DC P "O5'" sing N N 231 DC OP2 HOP2 sing N N 232 DC "O5'" "C5'" sing N N 233 DC "C5'" "C4'" sing N N 234 DC "C5'" "H5'" sing N N 235 DC "C5'" "H5''" sing N N 236 DC "C4'" "O4'" sing N N 237 DC "C4'" "C3'" sing N N 238 DC "C4'" "H4'" sing N N 239 DC "O4'" "C1'" sing N N 240 DC "C3'" "O3'" sing N N 241 DC "C3'" "C2'" sing N N 242 DC "C3'" "H3'" sing N N 243 DC "O3'" "HO3'" sing N N 244 DC "C2'" "C1'" sing N N 245 DC "C2'" "H2'" sing N N 246 DC "C2'" "H2''" sing N N 247 DC "C1'" N1 sing N N 248 DC "C1'" "H1'" sing N N 249 DC N1 C2 sing N N 250 DC N1 C6 sing N N 251 DC C2 O2 doub N N 252 DC C2 N3 sing N N 253 DC N3 C4 doub N N 254 DC C4 N4 sing N N 255 DC C4 C5 sing N N 256 DC N4 H41 sing N N 257 DC N4 H42 sing N N 258 DC C5 C6 doub N N 259 DC C5 H5 sing N N 260 DC C6 H6 sing N N 261 DG OP3 P sing N N 262 DG OP3 HOP3 sing N N 263 DG P OP1 doub N N 264 DG P OP2 sing N N 265 DG P "O5'" sing N N 266 DG OP2 HOP2 sing N N 267 DG "O5'" "C5'" sing N N 268 DG "C5'" "C4'" sing N N 269 DG "C5'" "H5'" sing N N 270 DG "C5'" "H5''" sing N N 271 DG "C4'" "O4'" sing N N 272 DG "C4'" "C3'" sing N N 273 DG "C4'" "H4'" sing N N 274 DG "O4'" "C1'" sing N N 275 DG "C3'" "O3'" sing N N 276 DG "C3'" "C2'" sing N N 277 DG "C3'" "H3'" sing N N 278 DG "O3'" "HO3'" sing N N 279 DG "C2'" "C1'" sing N N 280 DG "C2'" "H2'" sing N N 281 DG "C2'" "H2''" sing N N 282 DG "C1'" N9 sing N N 283 DG "C1'" "H1'" sing N N 284 DG N9 C8 sing Y N 285 DG N9 C4 sing Y N 286 DG C8 N7 doub Y N 287 DG C8 H8 sing N N 288 DG N7 C5 sing Y N 289 DG C5 C6 sing N N 290 DG C5 C4 doub Y N 291 DG C6 O6 doub N N 292 DG C6 N1 sing N N 293 DG N1 C2 sing N N 294 DG N1 H1 sing N N 295 DG C2 N2 sing N N 296 DG C2 N3 doub N N 297 DG N2 H21 sing N N 298 DG N2 H22 sing N N 299 DG N3 C4 sing N N 300 DT OP3 P sing N N 301 DT OP3 HOP3 sing N N 302 DT P OP1 doub N N 303 DT P OP2 sing N N 304 DT P "O5'" sing N N 305 DT OP2 HOP2 sing N N 306 DT "O5'" "C5'" sing N N 307 DT "C5'" "C4'" sing N N 308 DT "C5'" "H5'" sing N N 309 DT "C5'" "H5''" sing N N 310 DT "C4'" "O4'" sing N N 311 DT "C4'" "C3'" sing N N 312 DT "C4'" "H4'" sing N N 313 DT "O4'" "C1'" sing N N 314 DT "C3'" "O3'" sing N N 315 DT "C3'" "C2'" sing N N 316 DT "C3'" "H3'" sing N N 317 DT "O3'" "HO3'" sing N N 318 DT "C2'" "C1'" sing N N 319 DT "C2'" "H2'" sing N N 320 DT "C2'" "H2''" sing N N 321 DT "C1'" N1 sing N N 322 DT "C1'" "H1'" sing N N 323 DT N1 C2 sing N N 324 DT N1 C6 sing N N 325 DT C2 O2 doub N N 326 DT C2 N3 sing N N 327 DT N3 C4 sing N N 328 DT N3 H3 sing N N 329 DT C4 O4 doub N N 330 DT C4 C5 sing N N 331 DT C5 C7 sing N N 332 DT C5 C6 doub N N 333 DT C7 H71 sing N N 334 DT C7 H72 sing N N 335 DT C7 H73 sing N N 336 DT C6 H6 sing N N 337 HOH O H1 sing N N 338 HOH O H2 sing N N 339 # _ndb_struct_conf_na.entry_id 7RIL _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 10 1_555 0.285 -0.263 0.354 -10.120 -3.747 1.488 1 A_DC1:DG10_B A 1 ? B 10 ? 19 1 1 A DC 2 1_555 B DG 9 1_555 0.235 -0.157 0.177 -1.433 -7.070 0.903 2 A_DC2:DG9_B A 2 ? B 9 ? 19 1 1 A DT 3 1_555 B DA 8 1_555 -0.066 -0.109 -0.064 -4.452 -11.596 -2.748 3 A_DT3:DA8_B A 3 ? B 8 ? 20 1 1 A DG 4 1_555 B DC 7 1_555 0.114 -0.397 -0.396 -3.592 -3.645 -1.864 4 A_DG4:DC7_B A 4 ? B 7 ? 19 1 1 A DA 5 1_555 B DT 6 1_555 0.147 -0.432 -0.257 2.135 -10.833 -11.380 5 A_DA5:DT6_B A 5 ? B 6 ? 20 1 1 A DC 6 1_555 B DG 5 1_555 -0.240 -0.106 -0.286 8.495 -12.744 -2.458 6 A_DC6:DG5_B A 6 ? B 5 ? 19 1 1 A DC 7 1_555 B DG 4 1_555 -0.520 -0.237 0.098 -3.864 -8.640 -5.933 7 A_DC7:DG4_B A 7 ? B 4 ? 19 1 1 A DA 8 1_555 B DT 3 1_555 0.062 -0.276 -0.163 -1.006 -8.960 1.969 8 A_DA8:DT3_B A 8 ? B 3 ? 20 1 1 A DG 9 1_555 B DC 2 1_555 -0.111 -0.123 0.099 4.224 -4.424 3.233 9 A_DG9:DC2_B A 9 ? B 2 ? 19 1 1 A DG 10 1_555 B DC 1 1_555 -0.299 -0.110 0.299 12.601 -5.846 0.921 10 A_DG10:DC1_B A 10 ? B 1 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 1 1_555 B DG 10 1_555 A DC 2 1_555 B DG 9 1_555 -0.668 0.079 2.999 0.748 4.324 31.320 -0.589 1.353 2.966 7.961 -1.377 31.619 1 AA_DC1DC2:DG9DG10_BB A 1 ? B 10 ? A 2 ? B 9 ? 1 A DC 2 1_555 B DG 9 1_555 A DT 3 1_555 B DA 8 1_555 0.531 0.223 3.411 2.669 6.825 32.180 -0.834 -0.456 3.417 12.117 -4.739 32.982 2 AA_DC2DT3:DA8DG9_BB A 2 ? B 9 ? A 3 ? B 8 ? 1 A DT 3 1_555 B DA 8 1_555 A DG 4 1_555 B DC 7 1_555 -0.670 0.613 3.429 1.028 9.399 31.826 -0.620 1.359 3.443 16.686 -1.825 33.166 3 AA_DT3DG4:DC7DA8_BB A 3 ? B 8 ? A 4 ? B 7 ? 1 A DG 4 1_555 B DC 7 1_555 A DA 5 1_555 B DT 6 1_555 -1.497 1.058 3.250 -5.334 5.147 39.723 0.928 1.542 3.519 7.495 7.768 40.382 4 AA_DG4DA5:DT6DC7_BB A 4 ? B 7 ? A 5 ? B 6 ? 1 A DA 5 1_555 B DT 6 1_555 A DC 6 1_555 B DG 5 1_555 0.281 0.049 3.036 -0.091 -2.402 31.381 0.506 -0.534 3.023 -4.432 0.168 31.471 5 AA_DA5DC6:DG5DT6_BB A 5 ? B 6 ? A 6 ? B 5 ? 1 A DC 6 1_555 B DG 5 1_555 A DC 7 1_555 B DG 4 1_555 0.842 0.912 3.587 1.858 3.744 35.293 0.883 -1.077 3.700 6.149 -3.051 35.532 6 AA_DC6DC7:DG4DG5_BB A 6 ? B 5 ? A 7 ? B 4 ? 1 A DC 7 1_555 B DG 4 1_555 A DA 8 1_555 B DT 3 1_555 1.474 0.919 3.269 6.240 5.897 40.001 0.633 -1.389 3.545 8.502 -8.997 40.875 7 AA_DC7DA8:DT3DG4_BB A 7 ? B 4 ? A 8 ? B 3 ? 1 A DA 8 1_555 B DT 3 1_555 A DG 9 1_555 B DC 2 1_555 0.333 0.115 3.224 -3.725 12.114 25.371 -2.540 -1.534 2.900 25.641 7.885 28.314 8 AA_DA8DG9:DC2DT3_BB A 8 ? B 3 ? A 9 ? B 2 ? 1 A DG 9 1_555 B DC 2 1_555 A DG 10 1_555 B DC 1 1_555 -0.061 0.064 3.095 -3.018 4.925 35.239 -0.571 -0.315 3.070 8.068 4.944 35.695 9 AA_DG9DG10:DC1DC2_BB A 9 ? B 2 ? A 10 ? B 1 ? # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number GM102362 _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id 5N0 _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id 5N0 _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 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'in silico model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details 'ideal duplex' # _atom_sites.entry_id 7RIL _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] 0.029490 _atom_sites.fract_transf_matrix[1][2] 0.017026 _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] 0.034052 _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] 0.021070 _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 N O P # loop_