data_8GZJ # _entry.id 8GZJ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8GZJ pdb_00008gzj 10.2210/pdb8gzj/pdb WWPDB D_1300032513 ? ? # 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 2023-08-09 2 'Structure model' 1 1 2024-05-29 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Data collection' # 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 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8GZJ _pdbx_database_status.recvd_initial_deposition_date 2022-09-27 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBC _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 ganjhh@fudan.edu.cn _pdbx_contact_author.name_first Jianhua _pdbx_contact_author.name_last Gan _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-8438-8852 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Gan, J.H.' 1 0000-0002-8438-8852 'Liu, H.H.' 2 0000-0001-5633-1333 'Gao, Y.Q.' 3 0000-0002-0989-0631 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 51 _citation.language ? _citation.page_first 4625 _citation.page_last 4636 _citation.title 'Crystal structures and identification of novel Cd2+-specific DNA aptamer.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkad239 _citation.pdbx_database_id_PubMed 37013991 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Liu, H.' 1 ? primary 'Gao, Y.' 2 ? primary 'Mathivanan, J.' 3 ? primary 'Armour-Garb, Z.' 4 ? primary 'Shao, Z.' 5 ? primary 'Zhang, Y.' 6 ? primary 'Zhao, X.' 7 ? primary 'Shao, Q.' 8 ? primary 'Zhang, W.' 9 ? primary 'Yang, J.' 10 ? primary 'Cao, C.' 11 ? primary 'Li, H.' 12 ? primary 'Sheng, J.' 13 0000-0001-6198-390X primary 'Gan, J.' 14 0000-0002-8438-8852 # 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 '25-mer DNA' 7690.945 3 ? ? ? ? 2 non-polymer syn 'CADMIUM ION' 112.411 3 ? ? ? ? 3 non-polymer syn 'BARIUM ION' 137.327 4 ? ? ? ? 4 water nat water 18.015 17 ? ? ? ? # _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 ;(DG)(DA)(DC)(DG)(DA)(DC)(DG)(DG)(DG)(DT)(DT)(DC)(DA)(DC)(DA)(DG)(DT)(DC)(DC)(DG) (DT)(DT)(DG)(DT)(DC) ; _entity_poly.pdbx_seq_one_letter_code_can GACGACGGGTTCACAGTCCGTTGTC _entity_poly.pdbx_strand_id A,B,C _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CADMIUM ION' CD 3 'BARIUM ION' BA 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DA n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DC n 1 7 DG n 1 8 DG n 1 9 DG n 1 10 DT n 1 11 DT n 1 12 DC n 1 13 DA n 1 14 DC n 1 15 DA n 1 16 DG n 1 17 DT n 1 18 DC n 1 19 DC n 1 20 DG n 1 21 DT n 1 22 DT n 1 23 DG n 1 24 DT n 1 25 DC 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 25 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327 CD non-polymer . 'CADMIUM ION' ? 'Cd 2' 112.411 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 DG 1 1 1 DG DG A . n A 1 2 DA 2 2 2 DA DA A . n A 1 3 DC 3 3 3 DC DC 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 DG 7 7 7 DG DG A . n A 1 8 DG 8 8 8 DG DG A . n A 1 9 DG 9 9 9 DG DG A . n A 1 10 DT 10 10 10 DT DT A . n A 1 11 DT 11 11 11 DT DT A . n A 1 12 DC 12 12 12 DC DC A . n A 1 13 DA 13 13 13 DA DA A . n A 1 14 DC 14 14 14 DC DC A . n A 1 15 DA 15 15 15 DA DA A . n A 1 16 DG 16 16 16 DG DG A . n A 1 17 DT 17 17 17 DT DT A . n A 1 18 DC 18 18 18 DC DC A . n A 1 19 DC 19 19 19 DC DC A . n A 1 20 DG 20 20 20 DG DG A . n A 1 21 DT 21 21 21 DT DT A . n A 1 22 DT 22 22 22 DT DT A . n A 1 23 DG 23 23 23 DG DG A . n A 1 24 DT 24 24 24 DT DT A . n A 1 25 DC 25 25 25 DC DC A . n B 1 1 DG 1 1 1 DG DG B . n B 1 2 DA 2 2 2 DA DA B . n B 1 3 DC 3 3 3 DC DC B . n B 1 4 DG 4 4 4 DG DG B . n B 1 5 DA 5 5 5 DA DA B . n B 1 6 DC 6 6 6 DC DC B . n B 1 7 DG 7 7 7 DG DG B . n B 1 8 DG 8 8 8 DG DG B . n B 1 9 DG 9 9 9 DG DG B . n B 1 10 DT 10 10 10 DT DT B . n B 1 11 DT 11 11 11 DT DT B . n B 1 12 DC 12 12 12 DC DC B . n B 1 13 DA 13 13 13 DA DA B . n B 1 14 DC 14 14 14 DC DC B . n B 1 15 DA 15 15 15 DA DA B . n B 1 16 DG 16 16 16 DG DG B . n B 1 17 DT 17 17 17 DT DT B . n B 1 18 DC 18 18 18 DC DC B . n B 1 19 DC 19 19 19 DC DC B . n B 1 20 DG 20 20 20 DG DG B . n B 1 21 DT 21 21 21 DT DT B . n B 1 22 DT 22 22 22 DT DT B . n B 1 23 DG 23 23 23 DG DG B . n B 1 24 DT 24 24 24 DT DT B . n B 1 25 DC 25 25 25 DC DC B . n C 1 1 DG 1 1 1 DG DG C . n C 1 2 DA 2 2 2 DA DA C . n C 1 3 DC 3 3 3 DC DC C . n C 1 4 DG 4 4 4 DG DG C . n C 1 5 DA 5 5 5 DA DA C . n C 1 6 DC 6 6 6 DC DC C . n C 1 7 DG 7 7 7 DG DG C . n C 1 8 DG 8 8 8 DG DG C . n C 1 9 DG 9 9 9 DG DG C . n C 1 10 DT 10 10 10 DT DT C . n C 1 11 DT 11 11 11 DT DT C . n C 1 12 DC 12 12 12 DC DC C . n C 1 13 DA 13 13 13 DA DA C . n C 1 14 DC 14 14 14 DC DC C . n C 1 15 DA 15 15 15 DA DA C . n C 1 16 DG 16 16 16 DG DG C . n C 1 17 DT 17 17 17 DT DT C . n C 1 18 DC 18 18 18 DC DC C . n C 1 19 DC 19 19 19 DC DC C . n C 1 20 DG 20 20 20 DG DG C . n C 1 21 DT 21 21 21 DT DT C . n C 1 22 DT 22 22 22 DT DT C . n C 1 23 DG 23 23 23 DG DG C . n C 1 24 DT 24 24 24 DT DT C . n C 1 25 DC 25 25 ? ? ? 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 D 2 CD 1 101 3 CD CD A . E 3 BA 1 102 1 BA BA A . F 3 BA 1 103 2 BA BA A . G 2 CD 1 101 1 CD CD B . H 3 BA 1 102 3 BA BA B . I 2 CD 1 101 2 CD CD C . J 3 BA 1 102 4 BA BA C . K 4 HOH 1 201 2 HOH HOH A . K 4 HOH 2 202 4 HOH HOH A . K 4 HOH 3 203 5 HOH HOH A . K 4 HOH 4 204 7 HOH HOH A . K 4 HOH 5 205 9 HOH HOH A . K 4 HOH 6 206 3 HOH HOH A . K 4 HOH 7 207 14 HOH HOH A . K 4 HOH 8 208 6 HOH HOH A . K 4 HOH 9 209 8 HOH HOH A . K 4 HOH 10 210 11 HOH HOH A . K 4 HOH 11 211 12 HOH HOH A . K 4 HOH 12 212 13 HOH HOH A . L 4 HOH 1 201 10 HOH HOH B . L 4 HOH 2 202 17 HOH HOH B . L 4 HOH 3 203 1 HOH HOH B . L 4 HOH 4 204 15 HOH HOH B . M 4 HOH 1 201 16 HOH HOH C . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A DC 25 ? "C5'" ? A DC 25 "C5'" 2 1 Y 1 A DC 25 ? "C4'" ? A DC 25 "C4'" 3 1 Y 1 A DC 25 ? "O4'" ? A DC 25 "O4'" 4 1 Y 1 A DC 25 ? "C3'" ? A DC 25 "C3'" 5 1 Y 1 A DC 25 ? "O3'" ? A DC 25 "O3'" 6 1 Y 1 A DC 25 ? "C2'" ? A DC 25 "C2'" 7 1 Y 1 A DC 25 ? "C1'" ? A DC 25 "C1'" 8 1 Y 1 A DC 25 ? N1 ? A DC 25 N1 9 1 Y 1 A DC 25 ? C2 ? A DC 25 C2 10 1 Y 1 A DC 25 ? O2 ? A DC 25 O2 11 1 Y 1 A DC 25 ? N3 ? A DC 25 N3 12 1 Y 1 A DC 25 ? C4 ? A DC 25 C4 13 1 Y 1 A DC 25 ? N4 ? A DC 25 N4 14 1 Y 1 A DC 25 ? C5 ? A DC 25 C5 15 1 Y 1 A DC 25 ? C6 ? A DC 25 C6 16 1 Y 1 B DC 25 ? "C5'" ? B DC 25 "C5'" 17 1 Y 1 B DC 25 ? "C4'" ? B DC 25 "C4'" 18 1 Y 1 B DC 25 ? "O4'" ? B DC 25 "O4'" 19 1 Y 1 B DC 25 ? "C3'" ? B DC 25 "C3'" 20 1 Y 1 B DC 25 ? "O3'" ? B DC 25 "O3'" 21 1 Y 1 B DC 25 ? "C2'" ? B DC 25 "C2'" 22 1 Y 1 B DC 25 ? "C1'" ? B DC 25 "C1'" 23 1 Y 1 B DC 25 ? N1 ? B DC 25 N1 24 1 Y 1 B DC 25 ? C2 ? B DC 25 C2 25 1 Y 1 B DC 25 ? O2 ? B DC 25 O2 26 1 Y 1 B DC 25 ? N3 ? B DC 25 N3 27 1 Y 1 B DC 25 ? C4 ? B DC 25 C4 28 1 Y 1 B DC 25 ? N4 ? B DC 25 N4 29 1 Y 1 B DC 25 ? C5 ? B DC 25 C5 30 1 Y 1 B DC 25 ? C6 ? B DC 25 C6 31 1 Y 1 C DT 24 ? "C5'" ? C DT 24 "C5'" 32 1 Y 1 C DT 24 ? "C4'" ? C DT 24 "C4'" 33 1 Y 1 C DT 24 ? "O4'" ? C DT 24 "O4'" 34 1 Y 1 C DT 24 ? "C3'" ? C DT 24 "C3'" 35 1 Y 1 C DT 24 ? "O3'" ? C DT 24 "O3'" 36 1 Y 1 C DT 24 ? "C2'" ? C DT 24 "C2'" 37 1 Y 1 C DT 24 ? "C1'" ? C DT 24 "C1'" 38 1 Y 1 C DT 24 ? N1 ? C DT 24 N1 39 1 Y 1 C DT 24 ? C2 ? C DT 24 C2 40 1 Y 1 C DT 24 ? O2 ? C DT 24 O2 41 1 Y 1 C DT 24 ? N3 ? C DT 24 N3 42 1 Y 1 C DT 24 ? C4 ? C DT 24 C4 43 1 Y 1 C DT 24 ? O4 ? C DT 24 O4 44 1 Y 1 C DT 24 ? C5 ? C DT 24 C5 45 1 Y 1 C DT 24 ? C7 ? C DT 24 C7 46 1 Y 1 C DT 24 ? C6 ? C DT 24 C6 # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.12_2829 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.27 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? AutoSol ? ? ? . 5 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 106.200 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 8GZJ _cell.details ? _cell.formula_units_Z ? _cell.length_a 81.474 _cell.length_a_esd ? _cell.length_b 41.932 _cell.length_b_esd ? _cell.length_c 73.247 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 12 _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 8GZJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' _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 8GZJ _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 2.60 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 52.76 _exptl_crystal.description Rod-like _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 6.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '10% 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 'MARMOSAIC 325 mm CCD' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-12-10 _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 0.979 _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 'SSRF BEAMLINE BL17U1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.979 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL17U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate 29.340 _reflns.entry_id 8GZJ _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.09 _reflns.d_resolution_low 30.000 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 13259 _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 93.500 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 6.000 _reflns.pdbx_Rmerge_I_obs 0.061 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 13.000 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.881 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.067 _reflns.pdbx_Rpim_I_all 0.027 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_CC_split_method ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.meanI_over_sigI_all _reflns_shell.meanI_over_sigI_obs _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.number_unique_obs _reflns_shell.percent_possible_all _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_gt _reflns_shell.meanI_over_uI_all _reflns_shell.meanI_over_uI_gt _reflns_shell.number_measured_gt _reflns_shell.number_unique_gt _reflns_shell.percent_possible_gt _reflns_shell.Rmerge_F_gt _reflns_shell.Rmerge_I_gt _reflns_shell.pdbx_redundancy _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_CC_star _reflns_shell.pdbx_R_split _reflns_shell.pdbx_percent_possible_ellipsoidal _reflns_shell.pdbx_percent_possible_spherical _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous _reflns_shell.pdbx_percent_possible_spherical_anomalous _reflns_shell.pdbx_redundancy_anomalous _reflns_shell.pdbx_CC_half_anomalous _reflns_shell.pdbx_absDiff_over_sigma_anomalous _reflns_shell.pdbx_percent_possible_anomalous 2.100 2.180 ? ? ? ? ? ? 1123 80.400 ? ? ? ? 0.660 ? ? ? ? ? ? ? ? 4.000 ? 0.885 ? ? 0.730 0.304 ? 1 1 0.904 ? ? ? ? ? ? ? ? ? ? 2.180 2.260 ? ? ? ? ? ? 1264 91.800 ? ? ? ? 0.545 ? ? ? ? ? ? ? ? 4.600 ? 0.911 ? ? 0.601 0.247 ? 2 1 0.958 ? ? ? ? ? ? ? ? ? ? 2.260 2.370 ? ? ? ? ? ? 1369 98.100 ? ? ? ? 0.557 ? ? ? ? ? ? ? ? 5.400 ? 1.227 ? ? 0.607 0.238 ? 3 1 0.966 ? ? ? ? ? ? ? ? ? ? 2.370 2.490 ? ? ? ? ? ? 1402 96.900 ? ? ? ? 0.384 ? ? ? ? ? ? ? ? 6.100 ? 0.955 ? ? 0.419 0.166 ? 4 1 0.974 ? ? ? ? ? ? ? ? ? ? 2.490 2.650 ? ? ? ? ? ? 1370 98.100 ? ? ? ? 0.212 ? ? ? ? ? ? ? ? 6.600 ? 0.921 ? ? 0.230 0.088 ? 5 1 0.993 ? ? ? ? ? ? ? ? ? ? 2.650 2.850 ? ? ? ? ? ? 1407 98.900 ? ? ? ? 0.141 ? ? ? ? ? ? ? ? 7.100 ? 0.889 ? ? 0.152 0.057 ? 6 1 0.995 ? ? ? ? ? ? ? ? ? ? 2.850 3.140 ? ? ? ? ? ? 1395 99.100 ? ? ? ? 0.074 ? ? ? ? ? ? ? ? 6.800 ? 0.898 ? ? 0.081 0.031 ? 7 1 0.995 ? ? ? ? ? ? ? ? ? ? 3.140 3.590 ? ? ? ? ? ? 1354 94.600 ? ? ? ? 0.065 ? ? ? ? ? ? ? ? 6.400 ? 0.853 ? ? 0.072 0.029 ? 8 1 0.988 ? ? ? ? ? ? ? ? ? ? 3.590 4.520 ? ? ? ? ? ? 1337 93.400 ? ? ? ? 0.042 ? ? ? ? ? ? ? ? 6.300 ? 0.663 ? ? 0.045 0.018 ? 9 1 0.995 ? ? ? ? ? ? ? ? ? ? 4.520 30.000 ? ? ? ? ? ? 1238 83.700 ? ? ? ? 0.038 ? ? ? ? ? ? ? ? 5.700 ? 0.614 ? ? 0.042 0.018 ? 10 1 0.994 ? ? ? ? ? ? ? ? ? ? # _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 180.900 _refine.B_iso_mean 43.5926 _refine.B_iso_min 9.720 _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 8GZJ _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.0930 _refine.ls_d_res_low 23.4460 _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 10075 _refine.ls_number_reflns_R_free 494 _refine.ls_number_reflns_R_work 9581 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 70.8500 _refine.ls_percent_reflns_R_free 4.9000 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2342 _refine.ls_R_factor_R_free 0.2735 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2321 _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 1.380 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 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 30.5500 _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 0.2600 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id final _refine_hist.details ? _refine_hist.d_res_high 2.0930 _refine_hist.d_res_low 23.4460 _refine_hist.number_atoms_solvent 17 _refine_hist.number_atoms_total 1488 _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 75 _refine_hist.pdbx_B_iso_mean_ligand 111.33 _refine_hist.pdbx_B_iso_mean_solvent 27.55 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1465 _refine_hist.pdbx_number_atoms_ligand 6 _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' ? 0.011 ? 1640 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.166 ? 2531 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.062 ? 284 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.008 ? 71 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 31.833 ? 704 ? f_dihedral_angle_d ? ? # 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 ? A 684 10.876 ? 1 'X-RAY DIFFRACTION' 2 ? ? ? ? ? 2 TORSIONAL ? B 684 10.876 ? 1 'X-RAY DIFFRACTION' 3 ? ? ? ? ? 3 TORSIONAL ? C 684 10.876 ? 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 _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.0930 2.3035 . . 73 1169 35.0000 . . . 0.3756 0.0000 0.3162 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.3035 2.6364 . . 101 2005 60.0000 . . . 0.3573 0.0000 0.3005 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.6364 3.3201 . . 170 3310 98.0000 . . . 0.3118 0.0000 0.2595 . . . . . . . . . . . 'X-RAY DIFFRACTION' 3.3201 23.4460 . . 150 3097 89.0000 . . . 0.2147 0.0000 0.1896 . . . . . . . . . . . # loop_ _struct_ncs_dom.pdbx_ens_id _struct_ncs_dom.id _struct_ncs_dom.details 1 1 '(chain A and (resid 1 through 23 or (resid 24 and (name P or name OP1 or name OP2 or name O5))))' 1 2 '(chain B and (resid 1 through 23 or (resid 24 and (name P or name OP1 or name OP2 or name O5))))' 1 3 '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 DG 1 . A DT 24 . A DG 1 A DT 24 ? '(chain A and (resid 1 through 23 or (resid 24 and (name P or name OP1 or name OP2 or name O5))))' 1 2 1 B DG 1 . B DT 24 . B DG 1 B DT 24 ? '(chain B and (resid 1 through 23 or (resid 24 and (name P or name OP1 or name OP2 or name O5))))' 1 3 1 C DG 1 . C DT 24 . C DG 1 C DT 24 ? 'chain C' # _struct_ncs_ens.id 1 _struct_ncs_ens.details ? # _struct.entry_id 8GZJ _struct.title 'Crystal structure of Cd2+-bound DNA aptamer' _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 8GZJ _struct_keywords.text 'DNA aptamer, Cd2+-binding, complex, DNA' _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 2 ? H N N 3 ? I N N 2 ? J N N 3 ? K N N 4 ? L N N 4 ? M N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8GZJ _struct_ref.pdbx_db_accession 8GZJ _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 8GZJ A 1 ? 25 ? 8GZJ 1 ? 25 ? 1 25 2 1 8GZJ B 1 ? 25 ? 8GZJ 1 ? 25 ? 1 25 3 1 8GZJ C 1 ? 25 ? 8GZJ 1 ? 25 ? 1 25 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA monomeric 1 2 author_and_software_defined_assembly PISA monomeric 1 3 author_and_software_defined_assembly PISA monomeric 1 # 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)' 310 ? 1 MORE -15 ? 1 'SSA (A^2)' 4740 ? 2 'ABSA (A^2)' 310 ? 2 MORE -14 ? 2 'SSA (A^2)' 4860 ? 3 'ABSA (A^2)' 290 ? 3 MORE -13 ? 3 'SSA (A^2)' 4550 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,D,E,F,K 2 1 B,G,H,L 3 1 C,I,J,M # _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 ? ? A DG 9 N7 ? ? ? 1_555 D CD . CD ? ? A DG 9 A CD 101 1_555 ? ? ? ? ? ? ? 2.303 ? ? metalc2 metalc ? ? A DC 12 O2 ? ? ? 1_555 D CD . CD ? ? A DC 12 A CD 101 1_555 ? ? ? ? ? ? ? 2.461 ? ? metalc3 metalc ? ? A DC 12 N3 ? ? ? 1_555 D CD . CD ? ? A DC 12 A CD 101 1_555 ? ? ? ? ? ? ? 2.436 ? ? metalc4 metalc ? ? A DG 16 N7 ? ? ? 1_555 D CD . CD ? ? A DG 16 A CD 101 1_555 ? ? ? ? ? ? ? 2.496 ? ? metalc5 metalc ? ? D CD . CD ? ? ? 1_555 K HOH . O ? ? A CD 101 A HOH 201 1_555 ? ? ? ? ? ? ? 2.357 ? ? metalc6 metalc ? ? D CD . CD ? ? ? 1_555 K HOH . O ? ? A CD 101 A HOH 212 1_555 ? ? ? ? ? ? ? 2.502 ? ? metalc7 metalc ? ? B DG 9 N7 ? ? ? 1_555 G CD . CD ? ? B DG 9 B CD 101 1_555 ? ? ? ? ? ? ? 2.269 ? ? metalc8 metalc ? ? B DC 12 O2 ? ? ? 1_555 G CD . CD ? ? B DC 12 B CD 101 1_555 ? ? ? ? ? ? ? 2.635 ? ? metalc9 metalc ? ? B DC 12 N3 ? ? ? 1_555 G CD . CD ? ? B DC 12 B CD 101 1_555 ? ? ? ? ? ? ? 2.377 ? ? metalc10 metalc ? ? B DG 16 N7 ? ? ? 1_555 G CD . CD ? ? B DG 16 B CD 101 1_555 ? ? ? ? ? ? ? 2.409 ? ? metalc11 metalc ? ? G CD . CD ? ? ? 1_555 L HOH . O ? ? B CD 101 B HOH 202 1_555 ? ? ? ? ? ? ? 2.361 ? ? metalc12 metalc ? ? C DG 9 N7 ? ? ? 1_555 I CD . CD ? ? C DG 9 C CD 101 1_555 ? ? ? ? ? ? ? 2.598 ? ? metalc13 metalc ? ? C DC 12 N3 ? ? ? 1_555 I CD . CD ? ? C DC 12 C CD 101 1_555 ? ? ? ? ? ? ? 2.537 ? ? metalc14 metalc ? ? C DG 16 N7 ? ? ? 1_555 I CD . CD ? ? C DG 16 C CD 101 1_555 ? ? ? ? ? ? ? 2.373 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DA 2 N7 ? ? A DG 1 B DA 2 1_555 ? ? ? ? ? ? TYPE_9_PAIR ? ? ? hydrog2 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DA 2 N6 ? ? A DG 1 B DA 2 1_555 ? ? ? ? ? ? TYPE_9_PAIR ? ? ? hydrog3 hydrog ? ? A DA 2 N6 ? ? ? 1_555 B DG 1 O6 ? ? A DA 2 B DG 1 1_555 ? ? ? ? ? ? TYPE_9_PAIR ? ? ? hydrog4 hydrog ? ? A DA 2 N7 ? ? ? 1_555 B DG 1 N1 ? ? A DA 2 B DG 1 1_555 ? ? ? ? ? ? TYPE_9_PAIR ? ? ? hydrog5 hydrog ? ? A DC 3 N3 ? ? ? 1_555 A DG 23 N1 ? ? A DC 3 A DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 N4 ? ? ? 1_555 A DG 23 O6 ? ? A DC 3 A DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 O2 ? ? ? 1_555 A DG 23 N2 ? ? A DC 3 A DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DT 22 O2 ? ? A DG 4 A DT 22 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DT 22 N3 ? ? A DG 4 A DT 22 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog10 hydrog ? ? A DA 5 N1 ? ? ? 1_555 A DT 21 N3 ? ? A DA 5 A DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N6 ? ? ? 1_555 A DT 21 O4 ? ? A DA 5 A DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 6 N3 ? ? ? 1_555 A DG 20 N1 ? ? A DC 6 A DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 6 N4 ? ? ? 1_555 A DG 20 O6 ? ? A DC 6 A DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 O2 ? ? ? 1_555 A DG 20 N2 ? ? A DC 6 A DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 7 N1 ? ? ? 1_555 A DC 19 N3 ? ? A DG 7 A DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 7 N2 ? ? ? 1_555 A DC 19 O2 ? ? A DG 7 A DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 O6 ? ? ? 1_555 A DC 19 N4 ? ? A DG 7 A DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 8 N1 ? ? ? 1_555 A DC 18 N3 ? ? A DG 8 A DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 8 N2 ? ? ? 1_555 A DC 18 O2 ? ? A DG 8 A DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 8 O6 ? ? ? 1_555 A DC 18 N4 ? ? A DG 8 A DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DT 11 N3 ? ? ? 1_555 A DA 15 N1 ? ? A DT 11 A DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DT 11 O4 ? ? ? 1_555 A DA 15 N6 ? ? A DT 11 A DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? B DC 3 N3 ? ? ? 1_555 B DG 23 N1 ? ? B DC 3 B DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? B DC 3 N4 ? ? ? 1_555 B DG 23 O6 ? ? B DC 3 B DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? B DC 3 O2 ? ? ? 1_555 B DG 23 N2 ? ? B DC 3 B DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? B DG 4 N1 ? ? ? 1_555 B DT 22 O2 ? ? B DG 4 B DT 22 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog27 hydrog ? ? B DG 4 O6 ? ? ? 1_555 B DT 22 N3 ? ? B DG 4 B DT 22 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog28 hydrog ? ? B DA 5 N1 ? ? ? 1_555 B DT 21 N3 ? ? B DA 5 B DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B DA 5 N6 ? ? ? 1_555 B DT 21 O4 ? ? B DA 5 B DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B DC 6 N3 ? ? ? 1_555 B DG 20 N1 ? ? B DC 6 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B DC 6 N4 ? ? ? 1_555 B DG 20 O6 ? ? B DC 6 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B DC 6 O2 ? ? ? 1_555 B DG 20 N2 ? ? B DC 6 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B DG 7 N1 ? ? ? 1_555 B DC 19 N3 ? ? B DG 7 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B DG 7 N2 ? ? ? 1_555 B DC 19 O2 ? ? B DG 7 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B DG 7 O6 ? ? ? 1_555 B DC 19 N4 ? ? B DG 7 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B DG 8 N1 ? ? ? 1_555 B DC 18 N3 ? ? B DG 8 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B DG 8 N2 ? ? ? 1_555 B DC 18 O2 ? ? B DG 8 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B DG 8 O6 ? ? ? 1_555 B DC 18 N4 ? ? B DG 8 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B DT 11 N3 ? ? ? 1_555 B DA 15 N1 ? ? B DT 11 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B DT 11 O4 ? ? ? 1_555 B DA 15 N6 ? ? B DT 11 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? B DC 12 N4 ? ? ? 1_555 B DG 16 O6 ? ? B DC 12 B DG 16 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog42 hydrog ? ? C DC 3 N3 ? ? ? 1_555 C DG 23 N1 ? ? C DC 3 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C DC 3 N4 ? ? ? 1_555 C DG 23 O6 ? ? C DC 3 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C DC 3 O2 ? ? ? 1_555 C DG 23 N2 ? ? C DC 3 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C DG 4 N1 ? ? ? 1_555 C DT 22 O2 ? ? C DG 4 C DT 22 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog46 hydrog ? ? C DG 4 O6 ? ? ? 1_555 C DT 22 N3 ? ? C DG 4 C DT 22 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog47 hydrog ? ? C DA 5 N1 ? ? ? 1_555 C DT 21 N3 ? ? C DA 5 C DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C DA 5 N6 ? ? ? 1_555 C DT 21 O4 ? ? C DA 5 C DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C DC 6 N3 ? ? ? 1_555 C DG 20 N1 ? ? C DC 6 C DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C DC 6 N4 ? ? ? 1_555 C DG 20 O6 ? ? C DC 6 C DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C DC 6 O2 ? ? ? 1_555 C DG 20 N2 ? ? C DC 6 C DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C DG 7 N1 ? ? ? 1_555 C DC 19 N3 ? ? C DG 7 C DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C DG 7 N2 ? ? ? 1_555 C DC 19 O2 ? ? C DG 7 C DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C DG 7 O6 ? ? ? 1_555 C DC 19 N4 ? ? C DG 7 C DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C DG 8 N1 ? ? ? 1_555 C DC 18 N3 ? ? C DG 8 C DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C DG 8 N2 ? ? ? 1_555 C DC 18 O2 ? ? C DG 8 C DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C DG 8 O6 ? ? ? 1_555 C DC 18 N4 ? ? C DG 8 C DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C DT 11 N3 ? ? ? 1_555 C DA 15 N1 ? ? C DT 11 C DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C DT 11 O4 ? ? ? 1_555 C DA 15 N6 ? ? C DT 11 C DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C DC 12 N4 ? ? ? 1_555 C DG 16 O6 ? ? C DC 12 C DG 16 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? # 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 N7 ? A DG 9 ? A DG 9 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O2 ? A DC 12 ? A DC 12 ? 1_555 94.1 ? 2 N7 ? A DG 9 ? A DG 9 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 N3 ? A DC 12 ? A DC 12 ? 1_555 89.0 ? 3 O2 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 N3 ? A DC 12 ? A DC 12 ? 1_555 54.9 ? 4 N7 ? A DG 9 ? A DG 9 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 N7 ? A DG 16 ? A DG 16 ? 1_555 91.7 ? 5 O2 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 N7 ? A DG 16 ? A DG 16 ? 1_555 170.9 ? 6 N3 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 N7 ? A DG 16 ? A DG 16 ? 1_555 132.3 ? 7 N7 ? A DG 9 ? A DG 9 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 201 ? 1_555 92.7 ? 8 O2 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 201 ? 1_555 85.2 ? 9 N3 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 201 ? 1_555 140.1 ? 10 N7 ? A DG 16 ? A DG 16 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 201 ? 1_555 87.5 ? 11 N7 ? A DG 9 ? A DG 9 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 212 ? 1_555 175.2 ? 12 O2 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 212 ? 1_555 88.9 ? 13 N3 ? A DC 12 ? A DC 12 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 212 ? 1_555 89.6 ? 14 N7 ? A DG 16 ? A DG 16 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 212 ? 1_555 85.8 ? 15 O ? K HOH . ? A HOH 201 ? 1_555 CD ? D CD . ? A CD 101 ? 1_555 O ? K HOH . ? A HOH 212 ? 1_555 91.3 ? 16 N7 ? B DG 9 ? B DG 9 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 O2 ? B DC 12 ? B DC 12 ? 1_555 99.3 ? 17 N7 ? B DG 9 ? B DG 9 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 N3 ? B DC 12 ? B DC 12 ? 1_555 94.1 ? 18 O2 ? B DC 12 ? B DC 12 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 N3 ? B DC 12 ? B DC 12 ? 1_555 53.2 ? 19 N7 ? B DG 9 ? B DG 9 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 N7 ? B DG 16 ? B DG 16 ? 1_555 91.6 ? 20 O2 ? B DC 12 ? B DC 12 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 N7 ? B DG 16 ? B DG 16 ? 1_555 168.8 ? 21 N3 ? B DC 12 ? B DC 12 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 N7 ? B DG 16 ? B DG 16 ? 1_555 128.9 ? 22 N7 ? B DG 9 ? B DG 9 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 O ? L HOH . ? B HOH 202 ? 1_555 87.2 ? 23 O2 ? B DC 12 ? B DC 12 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 O ? L HOH . ? B HOH 202 ? 1_555 96.0 ? 24 N3 ? B DC 12 ? B DC 12 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 O ? L HOH . ? B HOH 202 ? 1_555 149.1 ? 25 N7 ? B DG 16 ? B DG 16 ? 1_555 CD ? G CD . ? B CD 101 ? 1_555 O ? L HOH . ? B HOH 202 ? 1_555 81.9 ? 26 N7 ? C DG 9 ? C DG 9 ? 1_555 CD ? I CD . ? C CD 101 ? 1_555 N3 ? C DC 12 ? C DC 12 ? 1_555 89.0 ? 27 N7 ? C DG 9 ? C DG 9 ? 1_555 CD ? I CD . ? C CD 101 ? 1_555 N7 ? C DG 16 ? C DG 16 ? 1_555 91.5 ? 28 N3 ? C DC 12 ? C DC 12 ? 1_555 CD ? I CD . ? C CD 101 ? 1_555 N7 ? C DG 16 ? C DG 16 ? 1_555 140.4 ? # 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 DG 1 ? ? P A DA 2 ? ? 1.525 1.607 -0.082 0.012 Y 2 1 "O3'" A DG 7 ? ? P A DG 8 ? ? 1.535 1.607 -0.072 0.012 Y 3 1 "O3'" A DG 9 ? ? P A DT 10 ? ? 1.499 1.607 -0.108 0.012 Y 4 1 "O3'" A DT 17 ? ? "C3'" A DT 17 ? ? 1.378 1.419 -0.041 0.006 N 5 1 "O3'" A DC 19 ? ? "C3'" A DC 19 ? ? 1.379 1.419 -0.040 0.006 N 6 1 "O3'" A DG 23 ? ? "C3'" A DG 23 ? ? 1.378 1.419 -0.041 0.006 N 7 1 "O3'" B DA 2 ? ? P B DC 3 ? ? 1.523 1.607 -0.084 0.012 Y 8 1 "O3'" B DG 8 ? ? P B DG 9 ? ? 1.492 1.607 -0.115 0.012 Y 9 1 "O3'" B DA 13 ? ? "C3'" B DA 13 ? ? 1.377 1.419 -0.042 0.006 N 10 1 "O3'" C DA 13 ? ? "C3'" C DA 13 ? ? 1.378 1.419 -0.041 0.006 N 11 1 "O3'" C DC 14 ? ? "C3'" C DC 14 ? ? 1.373 1.419 -0.046 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 DA 15 ? ? "C1'" A DA 15 ? ? N9 A DA 15 ? ? 110.20 108.30 1.90 0.30 N 2 1 "O4'" A DC 19 ? ? "C1'" A DC 19 ? ? N1 A DC 19 ? ? 110.19 108.30 1.89 0.30 N 3 1 "O4'" B DC 3 ? ? "C1'" B DC 3 ? ? N1 B DC 3 ? ? 110.55 108.30 2.25 0.30 N 4 1 "O4'" B DA 13 ? ? "C1'" B DA 13 ? ? N9 B DA 13 ? ? 110.40 108.30 2.10 0.30 N 5 1 "O4'" C DA 2 ? ? "C1'" C DA 2 ? ? N9 C DA 2 ? ? 110.39 108.30 2.09 0.30 N 6 1 "O4'" C DT 21 ? ? "C1'" C DT 21 ? ? N1 C DT 21 ? ? 110.15 108.30 1.85 0.30 N # _pdbx_refine_tls.id 1 _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 21.2867 _pdbx_refine_tls.origin_y -13.4068 _pdbx_refine_tls.origin_z 31.7707 _pdbx_refine_tls.T[1][1] 0.3655 _pdbx_refine_tls.T[1][1]_esd ? _pdbx_refine_tls.T[1][2] 0.0905 _pdbx_refine_tls.T[1][2]_esd ? _pdbx_refine_tls.T[1][3] 0.1105 _pdbx_refine_tls.T[1][3]_esd ? _pdbx_refine_tls.T[2][2] 0.3843 _pdbx_refine_tls.T[2][2]_esd ? _pdbx_refine_tls.T[2][3] 0.0660 _pdbx_refine_tls.T[2][3]_esd ? _pdbx_refine_tls.T[3][3] 0.2884 _pdbx_refine_tls.T[3][3]_esd ? _pdbx_refine_tls.L[1][1] -0.2933 _pdbx_refine_tls.L[1][1]_esd ? _pdbx_refine_tls.L[1][2] 0.1157 _pdbx_refine_tls.L[1][2]_esd ? _pdbx_refine_tls.L[1][3] -0.2584 _pdbx_refine_tls.L[1][3]_esd ? _pdbx_refine_tls.L[2][2] -0.5770 _pdbx_refine_tls.L[2][2]_esd ? _pdbx_refine_tls.L[2][3] -0.2413 _pdbx_refine_tls.L[2][3]_esd ? _pdbx_refine_tls.L[3][3] 2.6929 _pdbx_refine_tls.L[3][3]_esd ? _pdbx_refine_tls.S[1][1] 0.0689 _pdbx_refine_tls.S[1][1]_esd ? _pdbx_refine_tls.S[1][2] 0.0762 _pdbx_refine_tls.S[1][2]_esd ? _pdbx_refine_tls.S[1][3] 0.1538 _pdbx_refine_tls.S[1][3]_esd ? _pdbx_refine_tls.S[2][1] -0.1015 _pdbx_refine_tls.S[2][1]_esd ? _pdbx_refine_tls.S[2][2] -0.0523 _pdbx_refine_tls.S[2][2]_esd ? _pdbx_refine_tls.S[2][3] -0.0862 _pdbx_refine_tls.S[2][3]_esd ? _pdbx_refine_tls.S[3][1] -0.0866 _pdbx_refine_tls.S[3][1]_esd ? _pdbx_refine_tls.S[3][2] 0.2733 _pdbx_refine_tls.S[3][2]_esd ? _pdbx_refine_tls.S[3][3] 0.0203 _pdbx_refine_tls.S[3][3]_esd ? # 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 25 ? ? all 2 'X-RAY DIFFRACTION' 1 ? ? B 1 ? ? ? B 25 ? ? all 3 'X-RAY DIFFRACTION' 1 ? ? C 1 ? ? ? C 24 ? ? all 4 'X-RAY DIFFRACTION' 1 ? ? X 1 ? ? ? X 3 ? ? all 5 'X-RAY DIFFRACTION' 1 ? ? D 1 ? ? ? D 4 ? ? all 6 'X-RAY DIFFRACTION' 1 ? ? E 1 ? ? ? E 17 ? ? all # _pdbx_entry_details.entry_id 8GZJ _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id C _pdbx_unobs_or_zero_occ_residues.auth_comp_id DC _pdbx_unobs_or_zero_occ_residues.auth_seq_id 25 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id C _pdbx_unobs_or_zero_occ_residues.label_comp_id DC _pdbx_unobs_or_zero_occ_residues.label_seq_id 25 # 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 BA BA BA N N 1 CD CD CD N N 2 DA OP3 O N N 3 DA P P N N 4 DA OP1 O N N 5 DA OP2 O N N 6 DA "O5'" O N N 7 DA "C5'" C N N 8 DA "C4'" C N R 9 DA "O4'" O N N 10 DA "C3'" C N S 11 DA "O3'" O N N 12 DA "C2'" C N N 13 DA "C1'" C N R 14 DA N9 N Y N 15 DA C8 C Y N 16 DA N7 N Y N 17 DA C5 C Y N 18 DA C6 C Y N 19 DA N6 N N N 20 DA N1 N Y N 21 DA C2 C Y N 22 DA N3 N Y N 23 DA C4 C Y N 24 DA HOP3 H N N 25 DA HOP2 H N N 26 DA "H5'" H N N 27 DA "H5''" H N N 28 DA "H4'" H N N 29 DA "H3'" H N N 30 DA "HO3'" H N N 31 DA "H2'" H N N 32 DA "H2''" H N N 33 DA "H1'" H N N 34 DA H8 H N N 35 DA H61 H N N 36 DA H62 H N N 37 DA H2 H N N 38 DC OP3 O N N 39 DC P P N N 40 DC OP1 O N N 41 DC OP2 O N N 42 DC "O5'" O N N 43 DC "C5'" C N N 44 DC "C4'" C N R 45 DC "O4'" O N N 46 DC "C3'" C N S 47 DC "O3'" O N N 48 DC "C2'" C N N 49 DC "C1'" C N R 50 DC N1 N N N 51 DC C2 C N N 52 DC O2 O N N 53 DC N3 N N N 54 DC C4 C N N 55 DC N4 N N N 56 DC C5 C N N 57 DC C6 C N N 58 DC HOP3 H N N 59 DC HOP2 H N N 60 DC "H5'" H N N 61 DC "H5''" H N N 62 DC "H4'" H N N 63 DC "H3'" H N N 64 DC "HO3'" H N N 65 DC "H2'" H N N 66 DC "H2''" H N N 67 DC "H1'" H N N 68 DC H41 H N N 69 DC H42 H N N 70 DC H5 H N N 71 DC H6 H N N 72 DG OP3 O N N 73 DG P P N N 74 DG OP1 O N N 75 DG OP2 O N N 76 DG "O5'" O N N 77 DG "C5'" C N N 78 DG "C4'" C N R 79 DG "O4'" O N N 80 DG "C3'" C N S 81 DG "O3'" O N N 82 DG "C2'" C N N 83 DG "C1'" C N R 84 DG N9 N Y N 85 DG C8 C Y N 86 DG N7 N Y N 87 DG C5 C Y N 88 DG C6 C N N 89 DG O6 O N N 90 DG N1 N N N 91 DG C2 C N N 92 DG N2 N N N 93 DG N3 N N N 94 DG C4 C Y N 95 DG HOP3 H N N 96 DG HOP2 H N N 97 DG "H5'" H N N 98 DG "H5''" H N N 99 DG "H4'" H N N 100 DG "H3'" H N N 101 DG "HO3'" H N N 102 DG "H2'" H N N 103 DG "H2''" H N N 104 DG "H1'" H N N 105 DG H8 H N N 106 DG H1 H N N 107 DG H21 H N N 108 DG H22 H N N 109 DT OP3 O N N 110 DT P P N N 111 DT OP1 O N N 112 DT OP2 O N N 113 DT "O5'" O N N 114 DT "C5'" C N N 115 DT "C4'" C N R 116 DT "O4'" O N N 117 DT "C3'" C N S 118 DT "O3'" O N N 119 DT "C2'" C N N 120 DT "C1'" C N R 121 DT N1 N N N 122 DT C2 C N N 123 DT O2 O N N 124 DT N3 N N N 125 DT C4 C N N 126 DT O4 O N N 127 DT C5 C N N 128 DT C7 C N N 129 DT C6 C N N 130 DT HOP3 H N N 131 DT HOP2 H N N 132 DT "H5'" H N N 133 DT "H5''" H N N 134 DT "H4'" H N N 135 DT "H3'" H N N 136 DT "HO3'" H N N 137 DT "H2'" H N N 138 DT "H2''" H N N 139 DT "H1'" H N N 140 DT H3 H N N 141 DT H71 H N N 142 DT H72 H N N 143 DT H73 H N N 144 DT H6 H N N 145 HOH O O N N 146 HOH H1 H N N 147 HOH H2 H N N 148 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8GZJ 'double helix' 8GZJ 'b-form double helix' 8GZJ 'hairpin loop' 8GZJ 'mismatched base pair' # 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 18 1_555 A DG 8 1_555 0.222 -0.130 0.578 -20.743 -6.836 -0.742 1 A_DC18:DG8_A A 18 ? A 8 ? 19 1 1 A DC 19 1_555 A DG 7 1_555 0.311 -0.118 0.169 -7.516 -9.620 -0.591 2 A_DC19:DG7_A A 19 ? A 7 ? 19 1 1 A DG 20 1_555 A DC 6 1_555 -0.046 -0.122 0.028 -4.603 -15.377 3.641 3 A_DG20:DC6_A A 20 ? A 6 ? 19 1 1 A DT 21 1_555 A DA 5 1_555 0.077 -0.040 0.200 -5.999 -14.260 1.871 4 A_DT21:DA5_A A 21 ? A 5 ? 20 1 1 A DT 22 1_555 A DG 4 1_555 2.004 -0.493 -0.054 -7.449 -6.458 -2.437 5 A_DT22:DG4_A A 22 ? A 4 ? 28 1 1 A DG 23 1_555 A DC 3 1_555 -0.111 -0.148 0.375 14.814 -10.551 -0.450 6 A_DG23:DC3_A A 23 ? A 3 ? 19 1 1 B DG 1 1_555 A DA 2 1_555 0.250 3.977 0.704 -9.347 -15.964 -87.617 7 B_DG1:DA2_A B 1 ? A 2 ? 9 3 1 B DA 2 1_555 A DG 1 1_555 -0.192 -3.713 -0.443 9.720 17.978 92.049 8 B_DA2:DG1_A B 2 ? A 1 ? 9 3 1 B DC 3 1_555 B DG 23 1_555 0.611 -0.242 0.525 -17.564 -8.771 1.384 9 B_DC3:DG23_B B 3 ? B 23 ? 19 1 1 B DG 4 1_555 B DT 22 1_555 -2.009 -0.660 -0.051 3.523 -12.872 -2.047 10 B_DG4:DT22_B B 4 ? B 22 ? 28 1 1 B DA 5 1_555 B DT 21 1_555 -0.274 -0.130 0.357 4.619 -12.306 -0.178 11 B_DA5:DT21_B B 5 ? B 21 ? 20 1 1 B DC 6 1_555 B DG 20 1_555 0.194 0.089 0.373 1.248 -11.886 11.244 12 B_DC6:DG20_B B 6 ? B 20 ? 19 1 1 B DG 7 1_555 B DC 19 1_555 -0.109 -0.186 0.120 9.326 -1.448 0.027 13 B_DG7:DC19_B B 7 ? B 19 ? 19 1 1 B DG 8 1_555 B DC 18 1_555 0.051 -0.148 0.706 22.329 -10.677 -6.231 14 B_DG8:DC18_B B 8 ? B 18 ? 19 1 1 B DC 12 1_555 B DG 16 1_555 -0.096 3.894 -1.052 35.819 21.836 -89.999 15 B_DC12:DG16_B B 12 ? B 16 ? ? ? 1 B DT 11 1_555 B DA 15 1_555 0.162 0.153 0.470 -25.952 -11.459 -6.575 16 B_DT11:DA15_B B 11 ? B 15 ? 20 1 1 A DT 11 1_555 A DA 15 1_555 -0.018 -0.043 0.373 -20.819 -10.552 -1.119 17 A_DT11:DA15_A A 11 ? A 15 ? 20 1 1 C DC 3 1_555 C DG 23 1_555 -0.074 -0.064 0.520 -14.133 -9.365 -2.169 18 C_DC3:DG23_C C 3 ? C 23 ? 19 1 1 C DG 4 1_555 C DT 22 1_555 -1.726 -0.290 0.108 7.406 -5.024 -1.094 19 C_DG4:DT22_C C 4 ? C 22 ? 28 1 1 C DA 5 1_555 C DT 21 1_555 0.251 0.063 0.086 6.245 -18.092 -0.695 20 C_DA5:DT21_C C 5 ? C 21 ? 20 1 1 C DC 6 1_555 C DG 20 1_555 0.744 -0.106 0.150 0.453 -18.614 6.581 21 C_DC6:DG20_C C 6 ? C 20 ? 19 1 1 C DG 7 1_555 C DC 19 1_555 -0.923 -0.280 -0.091 2.453 -1.731 0.413 22 C_DG7:DC19_C C 7 ? C 19 ? 19 1 1 C DG 8 1_555 C DC 18 1_555 -0.376 -0.355 0.439 16.518 -6.033 -4.155 23 C_DG8:DC18_C C 8 ? C 18 ? 19 1 1 C DC 12 1_555 C DG 16 1_555 0.064 4.113 -1.299 34.631 13.374 -91.365 24 C_DC12:DG16_C C 12 ? C 16 ? ? ? 1 C DT 11 1_555 C DA 15 1_555 0.017 0.198 0.475 -32.234 -10.389 0.415 25 C_DT11:DA15_C C 11 ? C 15 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 18 1_555 A DG 8 1_555 A DC 19 1_555 A DG 7 1_555 -0.395 0.260 2.990 1.375 1.972 28.049 0.113 1.106 2.979 4.059 -2.831 28.149 1 AA_DC18DC19:DG7DG8_AA A 18 ? A 8 ? A 19 ? A 7 ? 1 A DC 19 1_555 A DG 7 1_555 A DG 20 1_555 A DC 6 1_555 -0.126 0.776 3.256 -2.628 13.575 34.180 -0.701 -0.174 3.318 22.013 4.261 36.794 2 AA_DC19DG20:DC6DG7_AA A 19 ? A 7 ? A 20 ? A 6 ? 1 A DG 20 1_555 A DC 6 1_555 A DT 21 1_555 A DA 5 1_555 -0.023 -0.518 3.289 -1.043 4.411 29.743 -1.896 -0.167 3.179 8.531 2.017 30.078 3 AA_DG20DT21:DA5DC6_AA A 20 ? A 6 ? A 21 ? A 5 ? 1 A DT 21 1_555 A DA 5 1_555 A DT 22 1_555 A DG 4 1_555 0.664 -0.283 3.295 6.025 2.832 43.634 -0.648 -0.308 3.330 3.783 -8.050 44.115 4 AA_DT21DT22:DG4DA5_AA A 21 ? A 5 ? A 22 ? A 4 ? 1 A DT 22 1_555 A DG 4 1_555 A DG 23 1_555 A DC 3 1_555 0.084 -0.104 2.669 -1.031 12.743 24.007 -2.822 -0.389 2.314 28.219 2.284 27.155 5 AA_DT22DG23:DC3DG4_AA A 22 ? A 4 ? A 23 ? A 3 ? 1 A DG 23 1_555 A DC 3 1_555 B DG 1 1_555 A DA 2 1_555 0.736 -2.802 3.339 -2.878 5.344 73.578 -2.501 -0.703 3.132 4.454 2.399 73.792 6 AB_DG23DG1:DA2DC3_AA A 23 ? A 3 ? B 1 ? A 2 ? 1 B DG 1 1_555 A DA 2 1_555 B DA 2 1_555 A DG 1 1_555 0.033 -4.066 1.819 -163.127 74.274 98.951 -2.193 -0.367 0.268 37.175 81.647 179.506 7 BB_DG1DA2:DG1DA2_AA B 1 ? A 2 ? B 2 ? A 1 ? 1 B DA 2 1_555 A DG 1 1_555 B DC 3 1_555 B DG 23 1_555 -0.822 -3.732 -1.945 135.233 -113.581 130.317 -2.076 0.161 -1.021 -56.892 -67.737 178.573 8 BB_DA2DC3:DG23DG1_BA B 2 ? A 1 ? B 3 ? B 23 ? 1 B DC 3 1_555 B DG 23 1_555 B DG 4 1_555 B DT 22 1_555 0.310 0.347 2.800 4.297 7.342 26.059 -0.865 0.280 2.806 15.758 -9.221 27.389 9 BB_DC3DG4:DT22DG23_BB B 3 ? B 23 ? B 4 ? B 22 ? 1 B DG 4 1_555 B DT 22 1_555 B DA 5 1_555 B DT 21 1_555 -0.371 -0.221 3.197 -5.988 1.089 42.479 -0.409 -0.078 3.212 1.493 8.214 42.893 10 BB_DG4DA5:DT21DT22_BB B 4 ? B 22 ? B 5 ? B 21 ? 1 B DA 5 1_555 B DT 21 1_555 B DC 6 1_555 B DG 20 1_555 0.628 -0.176 3.430 1.384 -0.387 34.004 -0.235 -0.841 3.454 -0.662 -2.364 34.034 11 BB_DA5DC6:DG20DT21_BB B 5 ? B 21 ? B 6 ? B 20 ? 1 B DC 6 1_555 B DG 20 1_555 B DG 7 1_555 B DC 19 1_555 0.260 1.464 3.183 4.539 2.885 37.441 1.889 0.179 3.291 4.466 -7.026 37.812 12 BB_DC6DG7:DC19DG20_BB B 6 ? B 20 ? B 7 ? B 19 ? 1 B DG 7 1_555 B DC 19 1_555 B DG 8 1_555 B DC 18 1_555 -0.403 0.302 3.101 -4.034 -0.633 31.589 0.661 0.032 3.121 -1.157 7.372 31.845 13 BB_DG7DG8:DC18DC19_BB B 7 ? B 19 ? B 8 ? B 18 ? 1 B DG 8 1_555 B DC 18 1_555 B DC 12 1_555 B DG 16 1_555 1.126 3.563 4.438 -0.319 10.976 124.018 1.885 -0.641 4.612 6.209 0.180 124.297 14 BB_DG8DC12:DG16DC18_BB B 8 ? B 18 ? B 12 ? B 16 ? 1 B DC 12 1_555 B DG 16 1_555 B DT 11 1_555 B DA 15 1_555 -0.112 0.523 6.642 -38.682 -29.947 -81.671 0.860 -1.654 6.090 21.318 -27.536 -92.947 15 BB_DC12DT11:DA15DG16_BB B 12 ? B 16 ? B 11 ? B 15 ? 1 C DC 3 1_555 C DG 23 1_555 C DG 4 1_555 C DT 22 1_555 -0.019 -0.151 2.638 -0.287 13.467 26.628 -2.542 -0.011 2.297 27.143 0.578 29.787 16 CC_DC3DG4:DT22DG23_CC C 3 ? C 23 ? C 4 ? C 22 ? 1 C DG 4 1_555 C DT 22 1_555 C DA 5 1_555 C DT 21 1_555 -0.755 -0.380 3.316 -4.103 1.415 43.106 -0.656 0.614 3.357 1.920 5.568 43.313 17 CC_DG4DA5:DT21DT22_CC C 4 ? C 22 ? C 5 ? C 21 ? 1 C DA 5 1_555 C DT 21 1_555 C DC 6 1_555 C DG 20 1_555 0.193 -0.646 3.428 -0.669 1.681 31.851 -1.495 -0.478 3.386 3.059 1.218 31.901 18 CC_DA5DC6:DG20DT21_CC C 5 ? C 21 ? C 6 ? C 20 ? 1 C DC 6 1_555 C DG 20 1_555 C DG 7 1_555 C DC 19 1_555 0.307 1.186 3.336 3.631 9.687 28.505 0.144 0.209 3.551 18.904 -7.086 30.288 19 CC_DC6DG7:DC19DG20_CC C 6 ? C 20 ? C 7 ? C 19 ? 1 C DG 7 1_555 C DC 19 1_555 C DG 8 1_555 C DC 18 1_555 -0.637 0.674 2.928 -5.525 2.505 32.425 0.795 0.260 3.035 4.437 9.788 32.973 20 CC_DG7DG8:DC18DC19_CC C 7 ? C 19 ? C 8 ? C 18 ? 1 C DG 8 1_555 C DC 18 1_555 C DC 12 1_555 C DG 16 1_555 0.817 4.129 3.955 2.792 9.791 128.926 2.195 -0.426 4.129 5.422 -1.546 129.141 21 CC_DG8DC12:DG16DC18_CC C 8 ? C 18 ? C 12 ? C 16 ? 1 C DC 12 1_555 C DG 16 1_555 C DT 11 1_555 C DA 15 1_555 0.147 0.277 6.806 -38.263 -22.245 -86.380 0.682 -1.397 6.416 15.439 -26.556 -95.033 22 CC_DC12DT11:DA15DG16_CC C 12 ? C 16 ? C 11 ? C 15 ? # _pdbx_audit_support.funding_organization 'National Natural Science Foundation of China (NSFC)' _pdbx_audit_support.country China _pdbx_audit_support.grant_number 32171197 _pdbx_audit_support.ordinal 1 # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 BA ? ? BA ? ? 'SUBJECT OF INVESTIGATION' ? 2 CD ? ? CD ? ? 'SUBJECT OF INVESTIGATION' ? # _atom_sites.entry_id 8GZJ _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] 0.012274 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.003567 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.023848 _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] 0.014217 _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 BA C CD N O P # loop_