data_8EDB # _entry.id 8EDB # _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 8EDB pdb_00008edb 10.2210/pdb8edb/pdb WWPDB D_1000268246 ? ? # 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 2023-02-22 2 'Structure model' 1 1 2023-08-30 3 'Structure model' 1 2 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' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 'Structure model' 'Refinement description' 4 3 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' citation 4 2 'Structure model' citation_author 5 2 'Structure model' struct_ncs_dom_lim 6 3 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation.pdbx_database_id_DOI' 5 2 'Structure model' '_citation.pdbx_database_id_PubMed' 6 2 'Structure model' '_citation.title' 7 2 'Structure model' '_struct_ncs_dom_lim.beg_auth_comp_id' 8 2 'Structure model' '_struct_ncs_dom_lim.beg_label_asym_id' 9 2 'Structure model' '_struct_ncs_dom_lim.beg_label_comp_id' 10 2 'Structure model' '_struct_ncs_dom_lim.beg_label_seq_id' 11 2 'Structure model' '_struct_ncs_dom_lim.end_auth_comp_id' 12 2 'Structure model' '_struct_ncs_dom_lim.end_label_asym_id' 13 2 'Structure model' '_struct_ncs_dom_lim.end_label_comp_id' 14 2 'Structure model' '_struct_ncs_dom_lim.end_label_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8EDB _pdbx_database_status.recvd_initial_deposition_date 2022-09-03 _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 wdw@gsu.edu _pdbx_contact_author.name_first 'W David' _pdbx_contact_author.name_last Wilson _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0001-5225-5089 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Ogbonna, E.N.' 1 0000-0002-0762-0603 'Wilson, W.D.' 2 0000-0001-5225-5089 # _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 'Acs Bio Med Chem Au' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2694-2437 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 3 _citation.language ? _citation.page_first 335 _citation.page_last 348 _citation.title 'X-ray Structure Characterization of the Selective Recognition of AT Base Pair Sequences.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acsbiomedchemau.3c00002 _citation.pdbx_database_id_PubMed 37599788 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ogbonna, E.N.' 1 ? primary 'Paul, A.' 2 0000-0003-4592-3442 primary 'Farahat, A.A.' 3 ? primary 'Terrell, J.R.' 4 ? primary 'Mineva, E.' 5 ? primary 'Ogbonna, V.' 6 ? primary 'Boykin, D.W.' 7 ? primary 'Wilson, W.D.' 8 0000-0001-5225-5089 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') ; 3663.392 2 ? ? ? ;A self-complementary DNA (5'-CGCGAATTCGCG-3') bound by the ligand DB1884. ; 2 non-polymer syn "4,4'-(1H-indole-2,6-diyl)dibenzenecarboximidamide" 353.420 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 4 water nat water 18.015 108 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _entity_poly.pdbx_strand_id B,C _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "4,4'-(1H-indole-2,6-diyl)dibenzenecarboximidamide" 884 3 'MAGNESIUM ION' MG 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 DC 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 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _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 884 non-polymer . "4,4'-(1H-indole-2,6-diyl)dibenzenecarboximidamide" ? 'C22 H19 N5' 353.420 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 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 # 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 B . n A 1 2 DG 2 2 2 DG DG B . n A 1 3 DC 3 3 3 DC DC B . n A 1 4 DG 4 4 4 DG DG B . n A 1 5 DA 5 5 5 DA DA B . n A 1 6 DA 6 6 6 DA DA B . n A 1 7 DT 7 7 7 DT DT B . n A 1 8 DT 8 8 8 DT DT B . n A 1 9 DC 9 9 9 DC DC B . n A 1 10 DG 10 10 10 DG DG B . n A 1 11 DC 11 11 11 DC DC B . n A 1 12 DG 12 12 12 DG DG B . n B 1 1 DC 1 13 13 DC DC C . n B 1 2 DG 2 14 14 DG DG C . n B 1 3 DC 3 15 15 DC DC C . n B 1 4 DG 4 16 16 DG DG C . n B 1 5 DA 5 17 17 DA DA C . n B 1 6 DA 6 18 18 DA DA C . n B 1 7 DT 7 19 19 DT DT C . n B 1 8 DT 8 20 20 DT DT C . n B 1 9 DC 9 21 21 DC DC C . n B 1 10 DG 10 22 22 DG DG C . n B 1 11 DC 11 23 23 DC DC C . n B 1 12 DG 12 24 24 DG DG C . 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 2 884 1 101 101 884 SML B . D 3 MG 1 102 1 MG MG B . E 4 HOH 1 201 94 HOH HOH B . E 4 HOH 2 202 39 HOH HOH B . E 4 HOH 3 203 34 HOH HOH B . E 4 HOH 4 204 12 HOH HOH B . E 4 HOH 5 205 45 HOH HOH B . E 4 HOH 6 206 77 HOH HOH B . E 4 HOH 7 207 83 HOH HOH B . E 4 HOH 8 208 25 HOH HOH B . E 4 HOH 9 209 47 HOH HOH B . E 4 HOH 10 210 22 HOH HOH B . E 4 HOH 11 211 60 HOH HOH B . E 4 HOH 12 212 2 HOH HOH B . E 4 HOH 13 213 23 HOH HOH B . E 4 HOH 14 214 85 HOH HOH B . E 4 HOH 15 215 51 HOH HOH B . E 4 HOH 16 216 36 HOH HOH B . E 4 HOH 17 217 93 HOH HOH B . E 4 HOH 18 218 11 HOH HOH B . E 4 HOH 19 219 75 HOH HOH B . E 4 HOH 20 220 26 HOH HOH B . E 4 HOH 21 221 41 HOH HOH B . E 4 HOH 22 222 4 HOH HOH B . E 4 HOH 23 223 104 HOH HOH B . E 4 HOH 24 224 53 HOH HOH B . E 4 HOH 25 225 15 HOH HOH B . E 4 HOH 26 226 61 HOH HOH B . E 4 HOH 27 227 67 HOH HOH B . E 4 HOH 28 228 43 HOH HOH B . E 4 HOH 29 229 3 HOH HOH B . E 4 HOH 30 230 7 HOH HOH B . E 4 HOH 31 231 91 HOH HOH B . E 4 HOH 32 232 5 HOH HOH B . E 4 HOH 33 233 96 HOH HOH B . E 4 HOH 34 234 6 HOH HOH B . E 4 HOH 35 235 95 HOH HOH B . E 4 HOH 36 236 81 HOH HOH B . E 4 HOH 37 237 71 HOH HOH B . E 4 HOH 38 238 30 HOH HOH B . E 4 HOH 39 239 99 HOH HOH B . E 4 HOH 40 240 27 HOH HOH B . E 4 HOH 41 241 46 HOH HOH B . E 4 HOH 42 242 10 HOH HOH B . E 4 HOH 43 243 14 HOH HOH B . E 4 HOH 44 244 64 HOH HOH B . E 4 HOH 45 245 87 HOH HOH B . E 4 HOH 46 246 58 HOH HOH B . E 4 HOH 47 247 84 HOH HOH B . E 4 HOH 48 248 108 HOH HOH B . E 4 HOH 49 249 106 HOH HOH B . E 4 HOH 50 250 8 HOH HOH B . E 4 HOH 51 251 86 HOH HOH B . E 4 HOH 52 252 63 HOH HOH B . E 4 HOH 53 253 103 HOH HOH B . E 4 HOH 54 254 89 HOH HOH B . E 4 HOH 55 255 17 HOH HOH B . E 4 HOH 56 256 20 HOH HOH B . E 4 HOH 57 257 100 HOH HOH B . E 4 HOH 58 258 56 HOH HOH B . E 4 HOH 59 259 16 HOH HOH B . E 4 HOH 60 260 50 HOH HOH B . E 4 HOH 61 261 57 HOH HOH B . E 4 HOH 62 262 54 HOH HOH B . E 4 HOH 63 263 74 HOH HOH B . E 4 HOH 64 264 42 HOH HOH B . F 4 HOH 1 101 48 HOH HOH C . F 4 HOH 2 102 31 HOH HOH C . F 4 HOH 3 103 68 HOH HOH C . F 4 HOH 4 104 49 HOH HOH C . F 4 HOH 5 105 98 HOH HOH C . F 4 HOH 6 106 21 HOH HOH C . F 4 HOH 7 107 76 HOH HOH C . F 4 HOH 8 108 32 HOH HOH C . F 4 HOH 9 109 9 HOH HOH C . F 4 HOH 10 110 69 HOH HOH C . F 4 HOH 11 111 52 HOH HOH C . F 4 HOH 12 112 82 HOH HOH C . F 4 HOH 13 113 72 HOH HOH C . F 4 HOH 14 114 44 HOH HOH C . F 4 HOH 15 115 18 HOH HOH C . F 4 HOH 16 116 107 HOH HOH C . F 4 HOH 17 117 59 HOH HOH C . F 4 HOH 18 118 38 HOH HOH C . F 4 HOH 19 119 19 HOH HOH C . F 4 HOH 20 120 109 HOH HOH C . F 4 HOH 21 121 33 HOH HOH C . F 4 HOH 22 122 24 HOH HOH C . F 4 HOH 23 123 35 HOH HOH C . F 4 HOH 24 124 79 HOH HOH C . F 4 HOH 25 125 88 HOH HOH C . F 4 HOH 26 126 105 HOH HOH C . F 4 HOH 27 127 90 HOH HOH C . F 4 HOH 28 128 28 HOH HOH C . F 4 HOH 29 129 40 HOH HOH C . F 4 HOH 30 130 29 HOH HOH C . F 4 HOH 31 131 13 HOH HOH C . F 4 HOH 32 132 92 HOH HOH C . F 4 HOH 33 133 66 HOH HOH C . F 4 HOH 34 134 62 HOH HOH C . F 4 HOH 35 135 78 HOH HOH C . F 4 HOH 36 136 37 HOH HOH C . F 4 HOH 37 137 65 HOH HOH C . F 4 HOH 38 138 101 HOH HOH C . F 4 HOH 39 139 97 HOH HOH C . F 4 HOH 40 140 80 HOH HOH C . F 4 HOH 41 141 73 HOH HOH C . F 4 HOH 42 142 102 HOH HOH C . F 4 HOH 43 143 70 HOH HOH C . F 4 HOH 44 144 55 HOH HOH C . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.19.2-4158 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? 'data processing' ? ? ? ? ? ? ? ? ? ? ? autoPROC ? ? ? . 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 90.000 _cell.angle_gamma_esd ? _cell.entry_id 8EDB _cell.details ? _cell.formula_units_Z ? _cell.length_a 25.770 _cell.length_a_esd ? _cell.length_b 39.760 _cell.length_b_esd ? _cell.length_c 65.350 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _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 ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8EDB _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _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 8EDB _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 2.28 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 46.16 _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.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_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 7.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'MPD, SODIUM CACODYLATE TRIHYDRATE, SPERMINE TETRAHYDROCHLORIDE, POTASSIUM CHLORIDE, MAGNESIUM CHLORIDE HEXAHYDRATE' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 298 # _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 2022-03-07 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1 _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 'NSLS-II BEAMLINE 17-ID-1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 17-ID-1 _diffrn_source.pdbx_synchrotron_site NSLS-II # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 8EDB _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.55 _reflns.d_resolution_low 25.24 _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 10249 _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 99.5 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 2.0 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 17.92 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _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 ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.99 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 1.55 _reflns_shell.d_res_low 1.60 _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 1004 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_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_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 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.99 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max 52.080 _refine.B_iso_mean 24.2403 _refine.B_iso_min 12.230 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 8EDB _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 1.5500 _refine.ls_d_res_low 25.2400 _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 10202 _refine.ls_number_reflns_R_free 1019 _refine.ls_number_reflns_R_work 9183 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.4600 _refine.ls_percent_reflns_R_free 9.9900 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2012 _refine.ls_R_factor_R_free 0.2157 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1997 _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 1.350 _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 IBNA _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 23.7100 _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 0.1800 _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 1.5500 _refine_hist.d_res_low 25.2400 _refine_hist.number_atoms_solvent 108 _refine_hist.number_atoms_total 643 _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 29.99 _refine_hist.pdbx_B_iso_mean_solvent 33.03 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 486 _refine_hist.pdbx_number_atoms_ligand 49 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_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' ? 0.013 ? 574 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.521 ? 879 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 29.4089 ? 258 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.079 ? 94 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.018 ? 29 ? f_plane_restr ? ? # loop_ _refine_ls_restr_ncs.pdbx_refine_id _refine_ls_restr_ncs.dom_id _refine_ls_restr_ncs.ncs_model_details _refine_ls_restr_ncs.rms_dev_B_iso _refine_ls_restr_ncs.rms_dev_position _refine_ls_restr_ncs.weight_B_iso _refine_ls_restr_ncs.weight_position _refine_ls_restr_ncs.pdbx_ordinal _refine_ls_restr_ncs.pdbx_type _refine_ls_restr_ncs.pdbx_asym_id _refine_ls_restr_ncs.pdbx_auth_asym_id _refine_ls_restr_ncs.pdbx_number _refine_ls_restr_ncs.pdbx_rms _refine_ls_restr_ncs.pdbx_weight _refine_ls_restr_ncs.pdbx_ens_id 'X-RAY DIFFRACTION' 1 ? ? ? ? ? 1 TORSIONAL ? B 232 8.555 ? 1 'X-RAY DIFFRACTION' 2 ? ? ? ? ? 2 TORSIONAL ? C 232 8.555 ? 1 # 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_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 _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 1.5500 1.6300 1419 . 140 1279 99.0000 . . . 0.0000 0.2661 . . . . . . . 7 . . . 0.3176 'X-RAY DIFFRACTION' 1.6300 1.7300 1410 . 141 1269 99.0000 . . . 0.0000 0.2250 . . . . . . . 7 . . . 0.2191 'X-RAY DIFFRACTION' 1.7300 1.8700 1431 . 143 1288 100.0000 . . . 0.0000 0.2058 . . . . . . . 7 . . . 0.2502 'X-RAY DIFFRACTION' 1.8700 2.0600 1446 . 145 1301 100.0000 . . . 0.0000 0.2274 . . . . . . . 7 . . . 0.2557 'X-RAY DIFFRACTION' 2.0600 2.3500 1474 . 148 1326 100.0000 . . . 0.0000 0.2107 . . . . . . . 7 . . . 0.2524 'X-RAY DIFFRACTION' 2.3500 2.9600 1474 . 147 1327 100.0000 . . . 0.0000 0.2203 . . . . . . . 7 . . . 0.2358 'X-RAY DIFFRACTION' 2.9700 25.2400 1548 . 155 1393 99.0000 . . . 0.0000 0.1734 . . . . . . . 7 . . . 0.1782 # loop_ _struct_ncs_dom.pdbx_ens_id _struct_ncs_dom.id _struct_ncs_dom.details 1 1 '(chain B and resid 1 through 12)' 1 2 'chain C' # loop_ _struct_ncs_dom_lim.pdbx_ens_id _struct_ncs_dom_lim.dom_id _struct_ncs_dom_lim.pdbx_component_id _struct_ncs_dom_lim.beg_label_asym_id _struct_ncs_dom_lim.beg_label_comp_id _struct_ncs_dom_lim.beg_label_seq_id _struct_ncs_dom_lim.beg_label_alt_id _struct_ncs_dom_lim.end_label_asym_id _struct_ncs_dom_lim.end_label_comp_id _struct_ncs_dom_lim.end_label_seq_id _struct_ncs_dom_lim.end_label_alt_id _struct_ncs_dom_lim.beg_auth_asym_id _struct_ncs_dom_lim.beg_auth_comp_id _struct_ncs_dom_lim.beg_auth_seq_id _struct_ncs_dom_lim.end_auth_asym_id _struct_ncs_dom_lim.end_auth_comp_id _struct_ncs_dom_lim.end_auth_seq_id _struct_ncs_dom_lim.pdbx_refine_code _struct_ncs_dom_lim.selection_details 1 1 1 A DC 1 . A DG 12 . B DC 1 B DG 12 ? '(chain B and resid 1 through 12)' 1 2 1 B DC 1 . B DG 12 . C DC 13 C DG 24 ? 'chain C' # _struct_ncs_ens.id 1 _struct_ncs_ens.details ? # _struct.entry_id 8EDB _struct.title ;5'-CGCGAATTCGCG-3' and an AT-specific binder (DB1884) complex ; _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 8EDB _struct_keywords.text 'DNA, SMALL MOLECULE, MINOR GROOVE' _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 3 ? E N N 4 ? F N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8EDB _struct_ref.pdbx_db_accession 8EDB _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 8EDB B 1 ? 12 ? 8EDB 1 ? 12 ? 1 12 2 1 8EDB C 1 ? 12 ? 8EDB 13 ? 24 ? 13 24 # _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 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'mass spectrometry' _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 metalc1 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? B MG 102 B HOH 212 1_555 ? ? ? ? ? ? ? 2.006 ? ? metalc2 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? B MG 102 B HOH 222 3_655 ? ? ? ? ? ? ? 2.039 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? B MG 102 B HOH 225 3_655 ? ? ? ? ? ? ? 2.043 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? B MG 102 B HOH 229 3_655 ? ? ? ? ? ? ? 2.111 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 E HOH . O ? ? B MG 102 B HOH 230 1_555 ? ? ? ? ? ? ? 2.110 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? B MG 102 C HOH 109 1_555 ? ? ? ? ? ? ? 2.113 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? B DC 1 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? B DC 1 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? B DC 1 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? B DG 2 C DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? B DG 2 C DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? B DG 2 C DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? B DC 3 C DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? B DC 3 C DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? B DC 3 C DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? B DG 4 C DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? B DG 4 C DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? B DG 4 C DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? B DA 5 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? B DA 5 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? B DA 6 C DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? B DA 6 C DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? B DT 7 C DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? B DT 7 C DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? B DT 8 C DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? B DT 8 C DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? B DC 9 C DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? B DC 9 C DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? B DC 9 C DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? B DG 10 C DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? B DG 10 C DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? B DG 10 C DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? B DC 11 C DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? B DC 11 C DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? B DC 11 C DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? B DG 12 C DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? B DG 12 C DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? B DG 12 C DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? E HOH . ? B HOH 212 ? 1_555 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 222 ? 3_655 90.6 ? 2 O ? E HOH . ? B HOH 212 ? 1_555 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 225 ? 3_655 174.5 ? 3 O ? E HOH . ? B HOH 222 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 225 ? 3_655 94.9 ? 4 O ? E HOH . ? B HOH 212 ? 1_555 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 229 ? 3_655 90.8 ? 5 O ? E HOH . ? B HOH 222 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 229 ? 3_655 86.0 ? 6 O ? E HOH . ? B HOH 225 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 229 ? 3_655 89.1 ? 7 O ? E HOH . ? B HOH 212 ? 1_555 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 230 ? 1_555 91.4 ? 8 O ? E HOH . ? B HOH 222 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 230 ? 1_555 88.5 ? 9 O ? E HOH . ? B HOH 225 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 230 ? 1_555 89.3 ? 10 O ? E HOH . ? B HOH 229 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? E HOH . ? B HOH 230 ? 1_555 174.1 ? 11 O ? E HOH . ? B HOH 212 ? 1_555 MG ? D MG . ? B MG 102 ? 1_555 O ? F HOH . ? C HOH 109 ? 1_555 87.4 ? 12 O ? E HOH . ? B HOH 222 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? F HOH . ? C HOH 109 ? 1_555 178.0 ? 13 O ? E HOH . ? B HOH 225 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? F HOH . ? C HOH 109 ? 1_555 87.1 ? 14 O ? E HOH . ? B HOH 229 ? 3_655 MG ? D MG . ? B MG 102 ? 1_555 O ? F HOH . ? C HOH 109 ? 1_555 93.5 ? 15 O ? E HOH . ? B HOH 230 ? 1_555 MG ? D MG . ? B MG 102 ? 1_555 O ? F HOH . ? C HOH 109 ? 1_555 92.0 ? # 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 H73 C DT 19 ? ? O C HOH 116 ? ? 1.37 2 1 O B HOH 220 ? ? O C HOH 115 ? ? 1.82 3 1 OP1 B DC 11 ? ? O B HOH 201 ? ? 1.90 4 1 O C HOH 108 ? ? O C HOH 116 ? ? 1.91 # 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'" B DC 3 ? ? "C3'" B DC 3 ? ? 1.383 1.419 -0.036 0.006 N 2 1 "O3'" B DG 10 ? ? "C3'" B DG 10 ? ? 1.376 1.419 -0.043 0.006 N 3 1 "O3'" C DC 23 ? ? "C3'" C DC 23 ? ? 1.376 1.419 -0.043 0.006 N # _pdbx_entry_details.entry_id 8EDB _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y # 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 884 C1 C Y N 1 884 C2 C Y N 2 884 C3 C Y N 3 884 C4 C Y N 4 884 C5 C Y N 5 884 C6 C Y N 6 884 C7 C Y N 7 884 C8 C Y N 8 884 C9 C Y N 9 884 N10 N Y N 10 884 C11 C Y N 11 884 C12 C Y N 12 884 C13 C Y N 13 884 C14 C Y N 14 884 C15 C Y N 15 884 C16 C Y N 16 884 C17 C Y N 17 884 C18 C Y N 18 884 C19 C Y N 19 884 C20 C Y N 20 884 C21 C Y N 21 884 C22 C N N 22 884 N23 N N N 23 884 N24 N N N 24 884 C25 C N N 25 884 N26 N N N 26 884 N27 N N N 27 884 H2 H N N 28 884 H3 H N N 29 884 H5 H N N 30 884 H6 H N N 31 884 H8 H N N 32 884 HN10 H N N 33 884 H12 H N N 34 884 H14 H N N 35 884 H15 H N N 36 884 H17 H N N 37 884 H18 H N N 38 884 H20 H N N 39 884 H21 H N N 40 884 HN23 H N N 41 884 HN2A H N N 42 884 HN24 H N N 43 884 HN26 H N N 44 884 HN2B H N N 45 884 HN27 H N N 46 DA OP3 O N N 47 DA P P N N 48 DA OP1 O N N 49 DA OP2 O N N 50 DA "O5'" O N N 51 DA "C5'" C N N 52 DA "C4'" C N R 53 DA "O4'" O N N 54 DA "C3'" C N S 55 DA "O3'" O N N 56 DA "C2'" C N N 57 DA "C1'" C N R 58 DA N9 N Y N 59 DA C8 C Y N 60 DA N7 N Y N 61 DA C5 C Y N 62 DA C6 C Y N 63 DA N6 N N N 64 DA N1 N Y N 65 DA C2 C Y N 66 DA N3 N Y N 67 DA C4 C Y N 68 DA HOP3 H N N 69 DA HOP2 H N N 70 DA "H5'" H N N 71 DA "H5''" H N N 72 DA "H4'" H N N 73 DA "H3'" H N N 74 DA "HO3'" H N N 75 DA "H2'" H N N 76 DA "H2''" H N N 77 DA "H1'" H N N 78 DA H8 H N N 79 DA H61 H N N 80 DA H62 H N N 81 DA H2 H N N 82 DC OP3 O N N 83 DC P P N N 84 DC OP1 O N N 85 DC OP2 O N N 86 DC "O5'" O N N 87 DC "C5'" C N N 88 DC "C4'" C N R 89 DC "O4'" O N N 90 DC "C3'" C N S 91 DC "O3'" O N N 92 DC "C2'" C N N 93 DC "C1'" C N R 94 DC N1 N N N 95 DC C2 C N N 96 DC O2 O N N 97 DC N3 N N N 98 DC C4 C N N 99 DC N4 N N N 100 DC C5 C N N 101 DC C6 C N N 102 DC HOP3 H N N 103 DC HOP2 H N N 104 DC "H5'" H N N 105 DC "H5''" H N N 106 DC "H4'" H N N 107 DC "H3'" H N N 108 DC "HO3'" H N N 109 DC "H2'" H N N 110 DC "H2''" H N N 111 DC "H1'" H N N 112 DC H41 H N N 113 DC H42 H N N 114 DC H5 H N N 115 DC H6 H N N 116 DG OP3 O N N 117 DG P P N N 118 DG OP1 O N N 119 DG OP2 O N N 120 DG "O5'" O N N 121 DG "C5'" C N N 122 DG "C4'" C N R 123 DG "O4'" O N N 124 DG "C3'" C N S 125 DG "O3'" O N N 126 DG "C2'" C N N 127 DG "C1'" C N R 128 DG N9 N Y N 129 DG C8 C Y N 130 DG N7 N Y N 131 DG C5 C Y N 132 DG C6 C N N 133 DG O6 O N N 134 DG N1 N N N 135 DG C2 C N N 136 DG N2 N N N 137 DG N3 N N N 138 DG C4 C Y N 139 DG HOP3 H N N 140 DG HOP2 H N N 141 DG "H5'" H N N 142 DG "H5''" H N N 143 DG "H4'" H N N 144 DG "H3'" H N N 145 DG "HO3'" H N N 146 DG "H2'" H N N 147 DG "H2''" H N N 148 DG "H1'" H N N 149 DG H8 H N N 150 DG H1 H N N 151 DG H21 H N N 152 DG H22 H N N 153 DT OP3 O N N 154 DT P P N N 155 DT OP1 O N N 156 DT OP2 O N N 157 DT "O5'" O N N 158 DT "C5'" C N N 159 DT "C4'" C N R 160 DT "O4'" O N N 161 DT "C3'" C N S 162 DT "O3'" O N N 163 DT "C2'" C N N 164 DT "C1'" C N R 165 DT N1 N N N 166 DT C2 C N N 167 DT O2 O N N 168 DT N3 N N N 169 DT C4 C N N 170 DT O4 O N N 171 DT C5 C N N 172 DT C7 C N N 173 DT C6 C N N 174 DT HOP3 H N N 175 DT HOP2 H N N 176 DT "H5'" H N N 177 DT "H5''" H N N 178 DT "H4'" H N N 179 DT "H3'" H N N 180 DT "HO3'" H N N 181 DT "H2'" H N N 182 DT "H2''" H N N 183 DT "H1'" H N N 184 DT H3 H N N 185 DT H71 H N N 186 DT H72 H N N 187 DT H73 H N N 188 DT H6 H N N 189 HOH O O N N 190 HOH H1 H N N 191 HOH H2 H N N 192 MG MG MG N N 193 # 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 884 N26 C25 sing N N 1 884 N27 C25 doub N N 2 884 C25 C19 sing N N 3 884 C19 C20 doub Y N 4 884 C19 C18 sing Y N 5 884 C20 C21 sing Y N 6 884 C18 C17 doub Y N 7 884 C17 C16 sing Y N 8 884 C21 C16 doub Y N 9 884 C16 C11 sing Y N 10 884 C11 C12 doub Y N 11 884 C11 N10 sing Y N 12 884 C12 C13 sing Y N 13 884 N10 C9 sing Y N 14 884 C13 C9 doub Y N 15 884 C13 C14 sing Y N 16 884 C9 C8 sing Y N 17 884 C14 C15 doub Y N 18 884 C8 C7 doub Y N 19 884 C15 C7 sing Y N 20 884 C7 C4 sing Y N 21 884 C4 C3 doub Y N 22 884 C4 C5 sing Y N 23 884 C3 C2 sing Y N 24 884 C5 C6 doub Y N 25 884 C2 C1 doub Y N 26 884 C6 C1 sing Y N 27 884 C1 C22 sing N N 28 884 C22 N23 sing N N 29 884 C22 N24 doub N N 30 884 C2 H2 sing N N 31 884 C3 H3 sing N N 32 884 C5 H5 sing N N 33 884 C6 H6 sing N N 34 884 C8 H8 sing N N 35 884 N10 HN10 sing N N 36 884 C12 H12 sing N N 37 884 C14 H14 sing N N 38 884 C15 H15 sing N N 39 884 C17 H17 sing N N 40 884 C18 H18 sing N N 41 884 C20 H20 sing N N 42 884 C21 H21 sing N N 43 884 N23 HN23 sing N N 44 884 N23 HN2A sing N N 45 884 N24 HN24 sing N N 46 884 N26 HN26 sing N N 47 884 N26 HN2B sing N N 48 884 N27 HN27 sing N N 49 DA OP3 P sing N N 50 DA OP3 HOP3 sing N N 51 DA P OP1 doub N N 52 DA P OP2 sing N N 53 DA P "O5'" sing N N 54 DA OP2 HOP2 sing N N 55 DA "O5'" "C5'" sing N N 56 DA "C5'" "C4'" sing N N 57 DA "C5'" "H5'" sing N N 58 DA "C5'" "H5''" sing N N 59 DA "C4'" "O4'" sing N N 60 DA "C4'" "C3'" sing N N 61 DA "C4'" "H4'" sing N N 62 DA "O4'" "C1'" sing N N 63 DA "C3'" "O3'" sing N N 64 DA "C3'" "C2'" sing N N 65 DA "C3'" "H3'" sing N N 66 DA "O3'" "HO3'" sing N N 67 DA "C2'" "C1'" sing N N 68 DA "C2'" "H2'" sing N N 69 DA "C2'" "H2''" sing N N 70 DA "C1'" N9 sing N N 71 DA "C1'" "H1'" sing N N 72 DA N9 C8 sing Y N 73 DA N9 C4 sing Y N 74 DA C8 N7 doub Y N 75 DA C8 H8 sing N N 76 DA N7 C5 sing Y N 77 DA C5 C6 sing Y N 78 DA C5 C4 doub Y N 79 DA C6 N6 sing N N 80 DA C6 N1 doub Y N 81 DA N6 H61 sing N N 82 DA N6 H62 sing N N 83 DA N1 C2 sing Y N 84 DA C2 N3 doub Y N 85 DA C2 H2 sing N N 86 DA N3 C4 sing Y N 87 DC OP3 P sing N N 88 DC OP3 HOP3 sing N N 89 DC P OP1 doub N N 90 DC P OP2 sing N N 91 DC P "O5'" sing N N 92 DC OP2 HOP2 sing N N 93 DC "O5'" "C5'" sing N N 94 DC "C5'" "C4'" sing N N 95 DC "C5'" "H5'" sing N N 96 DC "C5'" "H5''" sing N N 97 DC "C4'" "O4'" sing N N 98 DC "C4'" "C3'" sing N N 99 DC "C4'" "H4'" sing N N 100 DC "O4'" "C1'" sing N N 101 DC "C3'" "O3'" sing N N 102 DC "C3'" "C2'" sing N N 103 DC "C3'" "H3'" sing N N 104 DC "O3'" "HO3'" sing N N 105 DC "C2'" "C1'" sing N N 106 DC "C2'" "H2'" sing N N 107 DC "C2'" "H2''" sing N N 108 DC "C1'" N1 sing N N 109 DC "C1'" "H1'" sing N N 110 DC N1 C2 sing N N 111 DC N1 C6 sing N N 112 DC C2 O2 doub N N 113 DC C2 N3 sing N N 114 DC N3 C4 doub N N 115 DC C4 N4 sing N N 116 DC C4 C5 sing N N 117 DC N4 H41 sing N N 118 DC N4 H42 sing N N 119 DC C5 C6 doub N N 120 DC C5 H5 sing N N 121 DC C6 H6 sing N N 122 DG OP3 P sing N N 123 DG OP3 HOP3 sing N N 124 DG P OP1 doub N N 125 DG P OP2 sing N N 126 DG P "O5'" sing N N 127 DG OP2 HOP2 sing N N 128 DG "O5'" "C5'" sing N N 129 DG "C5'" "C4'" sing N N 130 DG "C5'" "H5'" sing N N 131 DG "C5'" "H5''" sing N N 132 DG "C4'" "O4'" sing N N 133 DG "C4'" "C3'" sing N N 134 DG "C4'" "H4'" sing N N 135 DG "O4'" "C1'" sing N N 136 DG "C3'" "O3'" sing N N 137 DG "C3'" "C2'" sing N N 138 DG "C3'" "H3'" sing N N 139 DG "O3'" "HO3'" sing N N 140 DG "C2'" "C1'" sing N N 141 DG "C2'" "H2'" sing N N 142 DG "C2'" "H2''" sing N N 143 DG "C1'" N9 sing N N 144 DG "C1'" "H1'" sing N N 145 DG N9 C8 sing Y N 146 DG N9 C4 sing Y N 147 DG C8 N7 doub Y N 148 DG C8 H8 sing N N 149 DG N7 C5 sing Y N 150 DG C5 C6 sing N N 151 DG C5 C4 doub Y N 152 DG C6 O6 doub N N 153 DG C6 N1 sing N N 154 DG N1 C2 sing N N 155 DG N1 H1 sing N N 156 DG C2 N2 sing N N 157 DG C2 N3 doub N N 158 DG N2 H21 sing N N 159 DG N2 H22 sing N N 160 DG N3 C4 sing N N 161 DT OP3 P sing N N 162 DT OP3 HOP3 sing N N 163 DT P OP1 doub N N 164 DT P OP2 sing N N 165 DT P "O5'" sing N N 166 DT OP2 HOP2 sing N N 167 DT "O5'" "C5'" sing N N 168 DT "C5'" "C4'" sing N N 169 DT "C5'" "H5'" sing N N 170 DT "C5'" "H5''" sing N N 171 DT "C4'" "O4'" sing N N 172 DT "C4'" "C3'" sing N N 173 DT "C4'" "H4'" sing N N 174 DT "O4'" "C1'" sing N N 175 DT "C3'" "O3'" sing N N 176 DT "C3'" "C2'" sing N N 177 DT "C3'" "H3'" sing N N 178 DT "O3'" "HO3'" sing N N 179 DT "C2'" "C1'" sing N N 180 DT "C2'" "H2'" sing N N 181 DT "C2'" "H2''" sing N N 182 DT "C1'" N1 sing N N 183 DT "C1'" "H1'" sing N N 184 DT N1 C2 sing N N 185 DT N1 C6 sing N N 186 DT C2 O2 doub N N 187 DT C2 N3 sing N N 188 DT N3 C4 sing N N 189 DT N3 H3 sing N N 190 DT C4 O4 doub N N 191 DT C4 C5 sing N N 192 DT C5 C7 sing N N 193 DT C5 C6 doub N N 194 DT C7 H71 sing N N 195 DT C7 H72 sing N N 196 DT C7 H73 sing N N 197 DT C6 H6 sing N N 198 HOH O H1 sing N N 199 HOH O H2 sing N N 200 # _ndb_struct_conf_na.entry_id 8EDB _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 12 1_555 0.258 -0.193 0.150 4.162 -14.288 -0.623 1 B_DC1:DG24_C B 1 ? C 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.220 -0.298 0.373 5.430 -12.145 -2.442 2 B_DG2:DC23_C B 2 ? C 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.177 -0.212 0.217 -5.876 -5.715 -0.114 3 B_DC3:DG22_C B 3 ? C 22 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.125 -0.150 0.004 11.570 -6.478 -1.278 4 B_DG4:DC21_C B 4 ? C 21 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.161 -0.106 0.005 6.117 -17.332 3.575 5 B_DA5:DT20_C B 5 ? C 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.066 -0.133 0.030 1.264 -17.830 6.543 6 B_DA6:DT19_C B 6 ? C 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.065 -0.121 0.078 0.271 -18.302 7.713 7 B_DT7:DA18_C B 7 ? C 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.052 -0.221 -0.098 -3.023 -16.613 5.703 8 B_DT8:DA17_C B 8 ? C 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.127 -0.160 -0.012 -11.248 -6.728 -1.621 9 B_DC9:DG16_C B 9 ? C 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.145 -0.183 0.226 8.757 -6.073 2.687 10 B_DG10:DC15_C B 10 ? C 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.100 -0.263 0.266 1.974 -21.142 -2.904 11 B_DC11:DG14_C B 11 ? C 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.254 -0.180 0.477 3.945 -9.100 -1.638 12 B_DG12:DC13_C B 12 ? C 13 ? 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 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.033 0.052 3.220 -1.610 6.508 33.879 -0.907 -0.190 3.173 11.033 2.729 34.517 1 BB_DC1DG2:DC23DG24_CC B 1 ? C 24 ? B 2 ? C 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.589 0.483 3.577 1.767 -6.516 42.875 1.341 -0.610 3.491 -8.849 -2.400 43.378 2 BB_DG2DC3:DG22DC23_CC B 2 ? C 23 ? B 3 ? C 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.204 0.668 2.967 2.397 8.050 26.591 -0.412 0.959 3.007 16.971 -5.053 27.864 3 BB_DC3DG4:DC21DG22_CC B 3 ? C 22 ? B 4 ? C 21 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 -0.121 -0.109 3.418 -0.743 2.876 38.067 -0.546 0.087 3.403 4.401 1.136 38.179 4 BB_DG4DA5:DT20DC21_CC B 4 ? C 21 ? B 5 ? C 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 0.226 -0.353 3.319 -0.866 1.579 34.836 -0.830 -0.510 3.294 2.635 1.446 34.881 5 BB_DA5DA6:DT19DT20_CC B 5 ? C 20 ? B 6 ? C 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 0.002 -0.575 3.231 -0.509 0.290 30.991 -1.131 -0.100 3.226 0.543 0.952 30.996 6 BB_DA6DT7:DA18DT19_CC B 6 ? C 19 ? B 7 ? C 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.040 -0.280 3.255 1.925 0.896 34.300 -0.613 0.366 3.240 1.518 -3.260 34.363 7 BB_DT7DT8:DA17DA18_CC B 7 ? C 18 ? B 8 ? C 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.315 -0.181 3.448 0.131 -0.297 40.611 -0.226 0.470 3.448 -0.427 -0.189 40.612 8 BB_DT8DC9:DG16DA17_CC B 8 ? C 17 ? B 9 ? C 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 0.494 0.868 2.935 -3.227 5.139 26.893 0.674 -1.758 2.967 10.874 6.829 27.557 9 BB_DC9DG10:DC15DG16_CC B 9 ? C 16 ? B 10 ? C 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.136 0.728 3.501 -2.921 -11.149 43.580 2.012 1.206 3.294 -14.713 3.855 45.007 10 BB_DG10DC11:DG14DC15_CC B 10 ? C 15 ? B 11 ? C 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 -0.038 0.356 3.170 -2.094 6.804 33.507 -0.447 -0.259 3.176 11.639 3.582 34.234 11 BB_DC11DG12:DC13DG14_CC B 11 ? C 14 ? B 12 ? C 13 ? # _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 GM111749 _pdbx_audit_support.ordinal 1 # _pdbx_initial_refinement_model.accession_code 1BNA _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details ? # _atom_sites.entry_id 8EDB _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] 0.038805 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.025151 _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] 0.015302 _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 H MG N O P # loop_