data_9DXL # _entry.id 9DXL # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.404 _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 9DXL pdb_00009dxl 10.2210/pdb9dxl/pdb WWPDB D_1000288664 ? ? # 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 _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2024-10-23 ? 2 'Structure model' 1 1 2025-07-16 ? # _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 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.journal_volume' 7 2 'Structure model' '_citation.pdbx_database_id_DOI' 8 2 'Structure model' '_citation.pdbx_database_id_PubMed' 9 2 'Structure model' '_citation.title' 10 2 'Structure model' '_citation.year' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9DXL _pdbx_database_status.recvd_initial_deposition_date 2024-10-11 _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 N # _pdbx_database_related.db_name PDB _pdbx_database_related.details 'RhoBAST RNA aptamer in complex with 5(6)-carboxytetramethylrhodamine (TAMRA)' _pdbx_database_related.db_id 9BUN _pdbx_database_related.content_type unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email robert.batey@colorado.edu _pdbx_contact_author.name_first Robert _pdbx_contact_author.name_last Batey _pdbx_contact_author.name_mi T _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-1384-6625 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Siwik, S.H.' 1 0000-0003-3953-8978 'Batey, R.T.' 2 0000-0002-1384-6625 # _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 53 _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Structural basis for ring-opening fluorescence by the RhoBAST RNA aptamer.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkaf555 _citation.pdbx_database_id_PubMed 40598898 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Siwik, S.H.' 1 ? primary 'Wierzba, A.J.' 2 ? primary 'Lennon, S.R.' 3 ? primary 'Olenginski, L.T.' 4 ? primary 'Palmer, A.E.' 5 ? primary 'Batey, R.T.' 6 0000-0002-1384-6625 # 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 'RhoBAST aptamer' 15586.393 2 ? ? ? 'T7 RNA polymerase transcript of an in vitro selected aptamer' 2 non-polymer syn 'BARIUM ION' 137.327 9 ? ? ? ? 3 non-polymer syn '3-[3-(dimethylamino)-6-(dimethyl-$l^{4}-azanylidene)xanthen-9-yl]-4-(dimethylsulfamoylcarbamoyl)benzoic acid' 537.607 1 ? ? ? ? 4 water nat water 18.015 34 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code GGACUCGGAAACGUGAAGGAGAGGCGCAAGGUUAACCGCCUCAGUCCA _entity_poly.pdbx_seq_one_letter_code_can GGACUCGGAAACGUGAAGGAGAGGCGCAAGGUUAACCGCCUCAGUCCA _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'BARIUM ION' BA 3 '3-[3-(dimethylamino)-6-(dimethyl-$l^{4}-azanylidene)xanthen-9-yl]-4-(dimethylsulfamoylcarbamoyl)benzoic acid' A1BC9 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 A n 1 4 C n 1 5 U n 1 6 C n 1 7 G n 1 8 G n 1 9 A n 1 10 A n 1 11 A n 1 12 C n 1 13 G n 1 14 U n 1 15 G n 1 16 A n 1 17 A n 1 18 G n 1 19 G n 1 20 A n 1 21 G n 1 22 A n 1 23 G n 1 24 G n 1 25 C n 1 26 G n 1 27 C n 1 28 A n 1 29 A n 1 30 G n 1 31 G n 1 32 U n 1 33 U n 1 34 A n 1 35 A n 1 36 C n 1 37 C n 1 38 G n 1 39 C n 1 40 C n 1 41 U n 1 42 C n 1 43 A n 1 44 G n 1 45 U n 1 46 C n 1 47 C n 1 48 A 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 48 _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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 A1BC9 non-polymer . '3-[3-(dimethylamino)-6-(dimethyl-$l^{4}-azanylidene)xanthen-9-yl]-4-(dimethylsulfamoylcarbamoyl)benzoic acid' ? 'C27 H29 N4 O6 S' 537.607 BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # 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 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 A 3 3 3 A A A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 C 6 6 6 C C A . n A 1 7 G 7 7 7 G G A . n A 1 8 G 8 8 8 G G A . n A 1 9 A 9 9 9 A A A . n A 1 10 A 10 10 10 A A A . n A 1 11 A 11 11 11 A A A . n A 1 12 C 12 12 12 C C A . n A 1 13 G 13 13 13 G G A . n A 1 14 U 14 14 14 U U A . n A 1 15 G 15 15 15 G G A . n A 1 16 A 16 16 16 A A A . n A 1 17 A 17 17 17 A A A . n A 1 18 G 18 18 18 G G A . n A 1 19 G 19 19 19 G G A . n A 1 20 A 20 20 20 A A A . n A 1 21 G 21 21 21 G G A . n A 1 22 A 22 22 22 A A A . n A 1 23 G 23 23 23 G G A . n A 1 24 G 24 24 24 G G A . n A 1 25 C 25 25 25 C C A . n A 1 26 G 26 26 26 G G A . n A 1 27 C 27 27 27 C C A . n A 1 28 A 28 28 28 A A A . n A 1 29 A 29 29 29 A A A . n A 1 30 G 30 30 30 G G A . n A 1 31 G 31 31 31 G G A . n A 1 32 U 32 32 32 U U A . n A 1 33 U 33 33 33 U U A . n A 1 34 A 34 34 34 A A A . n A 1 35 A 35 35 35 A A A . n A 1 36 C 36 36 36 C C A . n A 1 37 C 37 37 37 C C A . n A 1 38 G 38 38 38 G G A . n A 1 39 C 39 39 39 C C A . n A 1 40 C 40 40 40 C C A . n A 1 41 U 41 41 41 U U A . n A 1 42 C 42 42 42 C C A . n A 1 43 A 43 43 43 A A A . n A 1 44 G 44 44 44 G G A . n A 1 45 U 45 45 45 U U A . n A 1 46 C 46 46 46 C C A . n A 1 47 C 47 47 47 C C A . n A 1 48 A 48 48 48 A A A . n B 1 1 G 1 1 1 G G B . n B 1 2 G 2 2 2 G G B . n B 1 3 A 3 3 3 A A B . n B 1 4 C 4 4 4 C C B . n B 1 5 U 5 5 5 U U B . n B 1 6 C 6 6 6 C C B . n B 1 7 G 7 7 7 G G B . n B 1 8 G 8 8 8 G G B . n B 1 9 A 9 9 9 A A B . n B 1 10 A 10 10 10 A A B . n B 1 11 A 11 11 11 A A B . n B 1 12 C 12 12 12 C C B . n B 1 13 G 13 13 13 G G B . n B 1 14 U 14 14 14 U U B . n B 1 15 G 15 15 15 G G B . n B 1 16 A 16 16 16 A A B . n B 1 17 A 17 17 17 A A B . n B 1 18 G 18 18 18 G G B . n B 1 19 G 19 19 19 G G B . n B 1 20 A 20 20 20 A A B . n B 1 21 G 21 21 21 G G B . n B 1 22 A 22 22 22 A A B . n B 1 23 G 23 23 23 G G B . n B 1 24 G 24 24 24 G G B . n B 1 25 C 25 25 25 C C B . n B 1 26 G 26 26 26 G G B . n B 1 27 C 27 27 27 C C B . n B 1 28 A 28 28 28 A A B . n B 1 29 A 29 29 29 A A B . n B 1 30 G 30 30 30 G G B . n B 1 31 G 31 31 31 G G B . n B 1 32 U 32 32 32 U U B . n B 1 33 U 33 33 33 U U B . n B 1 34 A 34 34 34 A A B . n B 1 35 A 35 35 35 A A B . n B 1 36 C 36 36 36 C C B . n B 1 37 C 37 37 37 C C B . n B 1 38 G 38 38 38 G G B . n B 1 39 C 39 39 39 C C B . n B 1 40 C 40 40 40 C C B . n B 1 41 U 41 41 41 U U B . n B 1 42 C 42 42 42 C C B . n B 1 43 A 43 43 43 A A B . n B 1 44 G 44 44 44 G G B . n B 1 45 U 45 45 45 U U B . n B 1 46 C 46 46 46 C C B . n B 1 47 C 47 47 47 C C B . n B 1 48 A 48 48 48 A A B . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id A1BC9 _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id A1BC9 _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # 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 BA 1 101 1 BA BA A . D 2 BA 1 102 2 BA BA A . E 2 BA 1 103 3 BA BA A . F 2 BA 1 104 4 BA BA A . G 2 BA 1 105 5 BA BA A . H 2 BA 1 106 8 BA BA A . I 3 A1BC9 1 107 1 A1BC9 MAP A . J 2 BA 1 101 6 BA BA B . K 2 BA 1 102 9 BA BA B . L 2 BA 1 103 10 BA BA B . M 4 HOH 1 201 17 HOH HOH A . M 4 HOH 2 202 29 HOH HOH A . M 4 HOH 3 203 30 HOH HOH A . M 4 HOH 4 204 28 HOH HOH A . M 4 HOH 5 205 19 HOH HOH A . M 4 HOH 6 206 26 HOH HOH A . M 4 HOH 7 207 16 HOH HOH A . M 4 HOH 8 208 2 HOH HOH A . M 4 HOH 9 209 18 HOH HOH A . M 4 HOH 10 210 3 HOH HOH A . M 4 HOH 11 211 4 HOH HOH A . M 4 HOH 12 212 11 HOH HOH A . M 4 HOH 13 213 6 HOH HOH A . M 4 HOH 14 214 8 HOH HOH A . M 4 HOH 15 215 5 HOH HOH A . M 4 HOH 16 216 14 HOH HOH A . M 4 HOH 17 217 25 HOH HOH A . M 4 HOH 18 218 34 HOH HOH A . M 4 HOH 19 219 24 HOH HOH A . N 4 HOH 1 201 20 HOH HOH B . N 4 HOH 2 202 22 HOH HOH B . N 4 HOH 3 203 1 HOH HOH B . N 4 HOH 4 204 23 HOH HOH B . N 4 HOH 5 205 31 HOH HOH B . N 4 HOH 6 206 7 HOH HOH B . N 4 HOH 7 207 32 HOH HOH B . N 4 HOH 8 208 13 HOH HOH B . N 4 HOH 9 209 9 HOH HOH B . N 4 HOH 10 210 27 HOH HOH B . N 4 HOH 11 211 33 HOH HOH B . N 4 HOH 12 212 12 HOH HOH B . N 4 HOH 13 213 10 HOH HOH B . N 4 HOH 14 214 15 HOH HOH B . N 4 HOH 15 215 21 HOH HOH B . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.19.2_4158 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-3000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-3000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 103.263 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 9DXL _cell.details ? _cell.formula_units_Z ? _cell.length_a 38.529 _cell.length_a_esd ? _cell.length_b 54.818 _cell.length_b_esd ? _cell.length_c 83.513 _cell.length_c_esd ? _cell.volume 171681.651 _cell.volume_esd ? _cell.Z_PDB 4 _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 9DXL _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 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 9DXL _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 2.88 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 57.4 _exptl_crystal.description 'elongated prisms' _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_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '40 mM MES, 10 mM barium chloride, 80 mM potassium chloride, 25% MPD, 12 mM spermine tetrahydrochloride' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 292 # _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 PILATUS 200K' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2024-09-07 _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 'Ni filter' _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 1.54178 _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 'SEALED TUBE' _diffrn_source.target ? _diffrn_source.type 'RIGAKU MICROMAX-003' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.54178 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 9DXL _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.80 _reflns.d_resolution_low 20.00 _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 8812 _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 98.0 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 2.7 _reflns.pdbx_netI_over_av_sigmaI 11.56 _reflns.pdbx_netI_over_sigmaI 9.4 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.541 _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 0.127 _reflns.pdbx_Rpim_I_all 0.074 _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_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 2.80 _reflns_shell.d_res_low 2.90 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.69 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 839 _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 2.4 _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 0.127 _reflns_shell.pdbx_Rpim_I_all 0.074 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.815 _reflns_shell.pdbx_CC_star 0.948 _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 96.2 _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 ? _refine.B_iso_mean 73.10 _refine.B_iso_min ? _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 9DXL _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 2.80 _refine.ls_d_res_low 19.27 _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 8303 _refine.ls_number_reflns_R_free 848 _refine.ls_number_reflns_R_work 7455 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.03 _refine.ls_percent_reflns_R_free 10.21 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2629 _refine.ls_R_factor_R_free 0.2706 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2539 _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 21.83 _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 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details Random _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 40.8904 _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 ? _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 LAST _refine_hist.details ? _refine_hist.d_res_high 2.80 _refine_hist.d_res_low 19.27 _refine_hist.number_atoms_solvent 34 _refine_hist.number_atoms_total 2153 _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 ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 2072 _refine_hist.pdbx_number_atoms_ligand 47 _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' ? 0.0015 ? 2363 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.4954 ? 3682 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0336 ? 480 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0042 ? 101 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 19.8034 ? 1150 ? f_dihedral_angle_d ? ? # 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' 2.80 2.97 . . 132 1225 87.50 . . . . 0.3485 . . . . . . . . . . . 0.3692 'X-RAY DIFFRACTION' 2.97 3.20 . . 143 1251 87.97 . . . . 0.3372 . . . . . . . . . . . 0.3192 'X-RAY DIFFRACTION' 3.20 3.52 . . 139 1216 88.37 . . . . 0.2939 . . . . . . . . . . . 0.3122 'X-RAY DIFFRACTION' 3.52 4.03 . . 139 1236 88.98 . . . . 0.2749 . . . . . . . . . . . 0.2890 'X-RAY DIFFRACTION' 4.03 5.06 . . 139 1282 89.53 . . . . 0.2383 . . . . . . . . . . . 0.2319 'X-RAY DIFFRACTION' 5.06 19.27 . . 143 1258 86.70 . . . . 0.1991 . . . . . . . . . . . 0.2421 # _struct.entry_id 9DXL _struct.title 'RhoBAST RNA aptamer in complex with the SpyRho555 analogue, MaP555' _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 9DXL _struct_keywords.text 'aptamer, fluorophore, dye, MaP555, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 2 ? I N N 3 ? J N N 2 ? K N N 2 ? L N N 2 ? M N N 4 ? N N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9DXL _struct_ref.pdbx_db_accession 9DXL _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 9DXL A 1 ? 48 ? 9DXL 1 ? 48 ? 1 48 2 1 9DXL B 1 ? 48 ? 9DXL 1 ? 48 ? 1 48 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? monomeric 1 2 author_defined_assembly ? monomeric 1 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,C,D,E,F,G,H,I,M 2 1 B,J,K,L,N # loop_ _pdbx_struct_assembly_auth_evidence.id _pdbx_struct_assembly_auth_evidence.assembly_id _pdbx_struct_assembly_auth_evidence.experimental_support _pdbx_struct_assembly_auth_evidence.details 1 1 none ? 2 2 none ? # _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 G 18 O6 ? ? ? 1_555 F BA . BA ? ? A G 18 A BA 104 1_555 ? ? ? ? ? ? ? 2.919 ? ? metalc2 metalc ? ? A G 24 O6 ? ? ? 1_555 D BA . BA ? ? A G 24 A BA 102 1_555 ? ? ? ? ? ? ? 2.800 ? ? metalc3 metalc ? ? C BA . BA ? ? ? 1_555 M HOH . O ? ? A BA 101 A HOH 203 1_555 ? ? ? ? ? ? ? 2.706 ? ? metalc4 metalc ? ? D BA . BA ? ? ? 1_555 M HOH . O ? ? A BA 102 A HOH 216 1_555 ? ? ? ? ? ? ? 2.698 ? ? metalc5 metalc ? ? E BA . BA ? ? ? 2_444 B A 28 OP2 ? ? A BA 103 B A 28 1_555 ? ? ? ? ? ? ? 3.069 ? ? metalc6 metalc ? ? G BA . BA ? ? ? 1_555 M HOH . O ? ? A BA 105 A HOH 208 1_555 ? ? ? ? ? ? ? 2.699 ? ? metalc7 metalc ? ? B G 1 O6 ? ? ? 1_555 K BA . BA ? ? B G 1 B BA 102 1_555 ? ? ? ? ? ? ? 3.152 ? ? metalc8 metalc ? ? B G 18 O6 ? ? ? 1_555 L BA . BA ? ? B G 18 B BA 103 1_555 ? ? ? ? ? ? ? 2.670 ? ? metalc9 metalc ? ? B G 19 O6 ? ? ? 1_555 J BA . BA ? ? B G 19 B BA 101 1_555 ? ? ? ? ? ? ? 3.182 ? ? metalc10 metalc ? ? J BA . BA ? ? ? 1_555 N HOH . O ? ? B BA 101 B HOH 206 1_555 ? ? ? ? ? ? ? 2.704 ? ? hydrog1 hydrog ? ? A C 4 N3 ? ? ? 1_555 A G 44 N1 ? ? A C 4 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 4 N4 ? ? ? 1_555 A G 44 O6 ? ? A C 4 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 4 O2 ? ? ? 1_555 A G 44 N2 ? ? A C 4 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 5 N3 ? ? ? 1_555 A A 43 N1 ? ? A U 5 A A 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A U 5 O4 ? ? ? 1_555 A A 43 N6 ? ? A U 5 A A 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 6 N3 ? ? ? 1_555 A G 13 N1 ? ? A C 6 A G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 6 N4 ? ? ? 1_555 A G 13 O6 ? ? A C 6 A G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 6 O2 ? ? ? 1_555 A G 13 N2 ? ? A C 6 A G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 12 N3 ? ? A G 7 A C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 12 O2 ? ? A G 7 A C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 12 N4 ? ? A G 7 A C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 8 N2 ? ? ? 1_555 A A 11 N7 ? ? A G 8 A A 11 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog13 hydrog ? ? A U 14 N3 ? ? ? 1_555 A A 20 N1 ? ? A U 14 A A 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 14 O4 ? ? ? 1_555 A A 20 N6 ? ? A U 14 A A 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 15 N1 ? ? ? 1_555 A C 36 N3 ? ? A G 15 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 15 N2 ? ? ? 1_555 A C 36 O2 ? ? A G 15 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 15 O6 ? ? ? 1_555 A C 36 N4 ? ? A G 15 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 16 N1 ? ? ? 1_555 A A 34 N6 ? ? A A 16 A A 34 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog19 hydrog ? ? A A 16 N6 ? ? ? 1_555 A A 34 N7 ? ? A A 16 A A 34 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog20 hydrog ? ? A G 18 N2 ? ? ? 1_555 A A 35 N7 ? ? A G 18 A A 35 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog21 hydrog ? ? A G 18 N3 ? ? ? 1_555 A A 35 N6 ? ? A G 18 A A 35 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog22 hydrog ? ? A G 19 N1 ? ? ? 1_555 A C 27 N3 ? ? A G 19 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 19 N2 ? ? ? 1_555 A C 27 O2 ? ? A G 19 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 19 O6 ? ? ? 1_555 A C 27 N4 ? ? A G 19 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 21 N1 ? ? ? 1_555 A C 42 N3 ? ? A G 21 A C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 21 N2 ? ? ? 1_555 A C 42 O2 ? ? A G 21 A C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 21 O6 ? ? ? 1_555 A C 42 N4 ? ? A G 21 A C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A A 22 N1 ? ? ? 1_555 A U 41 N3 ? ? A A 22 A U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A A 22 N6 ? ? ? 1_555 A U 41 O4 ? ? A A 22 A U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 23 N1 ? ? ? 1_555 A C 40 N3 ? ? A G 23 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 23 N2 ? ? ? 1_555 A C 40 O2 ? ? A G 23 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 23 O6 ? ? ? 1_555 A C 40 N4 ? ? A G 23 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 24 N1 ? ? ? 1_555 A C 39 N3 ? ? A G 24 A C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 24 N2 ? ? ? 1_555 A C 39 O2 ? ? A G 24 A C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 24 O6 ? ? ? 1_555 A C 39 N4 ? ? A G 24 A C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 25 N3 ? ? ? 1_555 A G 38 N1 ? ? A C 25 A G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A C 25 N4 ? ? ? 1_555 A G 38 O6 ? ? A C 25 A G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 25 O2 ? ? ? 1_555 A G 38 N2 ? ? A C 25 A G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A G 26 N1 ? ? ? 1_555 A C 37 N3 ? ? A G 26 A C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 26 N2 ? ? ? 1_555 A C 37 O2 ? ? A G 26 A C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A G 26 O6 ? ? ? 1_555 A C 37 N4 ? ? A G 26 A C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A G 31 N3 ? ? ? 1_555 A U 33 N3 ? ? A G 31 A U 33 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog43 hydrog ? ? B G 1 N2 ? ? ? 1_555 B A 48 N1 ? ? B G 1 B A 48 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog44 hydrog ? ? B G 2 N2 ? ? ? 1_555 B C 47 N3 ? ? B G 2 B C 47 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog45 hydrog ? ? B A 3 N1 ? ? ? 1_555 B C 46 N4 ? ? B A 3 B C 46 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog46 hydrog ? ? B C 4 N3 ? ? ? 1_555 B G 44 N2 ? ? B C 4 B G 44 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog47 hydrog ? ? B C 6 N3 ? ? ? 1_555 B G 13 N1 ? ? B C 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? B C 6 N4 ? ? ? 1_555 B G 13 O6 ? ? B C 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? B C 6 O2 ? ? ? 1_555 B G 13 N2 ? ? B C 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? B G 7 N1 ? ? ? 1_555 B C 12 N3 ? ? B G 7 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? B G 7 N2 ? ? ? 1_555 B C 12 O2 ? ? B G 7 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? B G 7 O6 ? ? ? 1_555 B C 12 N4 ? ? B G 7 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? B G 8 N2 ? ? ? 1_555 B A 11 N7 ? ? B G 8 B A 11 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog54 hydrog ? ? B G 8 N3 ? ? ? 1_555 B A 11 N6 ? ? B G 8 B A 11 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog55 hydrog ? ? B U 14 N3 ? ? ? 1_555 B A 20 N1 ? ? B U 14 B A 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? B U 14 O4 ? ? ? 1_555 B A 20 N6 ? ? B U 14 B A 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? B G 15 N1 ? ? ? 1_555 B C 36 N3 ? ? B G 15 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? B G 15 N2 ? ? ? 1_555 B C 36 O2 ? ? B G 15 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? B G 15 O6 ? ? ? 1_555 B C 36 N4 ? ? B G 15 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? B A 16 N1 ? ? ? 1_555 B A 34 N6 ? ? B A 16 B A 34 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog61 hydrog ? ? B G 19 N1 ? ? ? 1_555 B C 27 N3 ? ? B G 19 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? B G 19 N2 ? ? ? 1_555 B C 27 O2 ? ? B G 19 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? B G 19 O6 ? ? ? 1_555 B C 27 N4 ? ? B G 19 B C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? B G 21 O6 ? ? ? 1_555 B C 42 N4 ? ? B G 21 B C 42 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog65 hydrog ? ? B A 22 N1 ? ? ? 1_555 B U 41 N3 ? ? B A 22 B U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? B A 22 N6 ? ? ? 1_555 B U 41 O4 ? ? B A 22 B U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? B G 23 N1 ? ? ? 1_555 B C 40 N3 ? ? B G 23 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? B G 23 N2 ? ? ? 1_555 B C 40 O2 ? ? B G 23 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? B G 23 O6 ? ? ? 1_555 B C 40 N4 ? ? B G 23 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? B G 23 N1 ? ? ? 1_555 B U 41 O4 ? ? B G 23 B U 41 1_555 ? ? ? ? ? ? TYPE_27_PAIR ? ? ? hydrog71 hydrog ? ? B G 23 O6 ? ? ? 1_555 B U 41 N3 ? ? B G 23 B U 41 1_555 ? ? ? ? ? ? TYPE_27_PAIR ? ? ? hydrog72 hydrog ? ? B G 24 N1 ? ? ? 1_555 B C 39 N3 ? ? B G 24 B C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? B G 24 N2 ? ? ? 1_555 B C 39 O2 ? ? B G 24 B C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? B G 24 O6 ? ? ? 1_555 B C 39 N4 ? ? B G 24 B C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? B C 25 N3 ? ? ? 1_555 B G 38 N1 ? ? B C 25 B G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? B C 25 N4 ? ? ? 1_555 B G 38 O6 ? ? B C 25 B G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? B C 25 O2 ? ? ? 1_555 B G 38 N2 ? ? B C 25 B G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? B G 26 N1 ? ? ? 1_555 B C 37 N3 ? ? B G 26 B C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? B G 26 N2 ? ? ? 1_555 B C 37 O2 ? ? B G 26 B C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? B G 26 O6 ? ? ? 1_555 B C 37 N4 ? ? B G 26 B C 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog81 hydrog ? ? B G 31 N3 ? ? ? 1_555 B U 33 N3 ? ? B G 31 B U 33 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? # 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 O6 ? A G 24 ? A G 24 ? 1_555 BA ? D BA . ? A BA 102 ? 1_555 O ? M HOH . ? A HOH 216 ? 1_555 98.5 ? 2 O6 ? B G 19 ? B G 19 ? 1_555 BA ? J BA . ? B BA 101 ? 1_555 O ? N HOH . ? B HOH 206 ? 1_555 68.8 ? # _pdbx_entry_details.entry_id 9DXL _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 _pdbx_entry_details.has_protein_modification N # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 N2 _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 G _pdbx_validate_close_contact.auth_seq_id_1 31 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 A1BC9 _pdbx_validate_close_contact.auth_seq_id_2 107 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.12 # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -x,y+1/2,-z # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 A1BC9 N1 N N N 38 A1BC9 N N N N 39 A1BC9 C C N N 40 A1BC9 O O N N 41 A1BC9 C1 C N N 42 A1BC9 C12 C N N 43 A1BC9 C13 C N N 44 A1BC9 C14 C Y N 45 A1BC9 C15 C N N 46 A1BC9 C16 C Y N 47 A1BC9 C17 C Y N 48 A1BC9 C18 C N N 49 A1BC9 C19 C Y N 50 A1BC9 C1A C N N 51 A1BC9 C1B C Y N 52 A1BC9 C1C C N N 53 A1BC9 C1D C Y N 54 A1BC9 C1E C Y N 55 A1BC9 C1F C N N 56 A1BC9 C1G C Y N 57 A1BC9 C1H C Y N 58 A1BC9 C1I C Y N 59 A1BC9 C1K C Y N 60 A1BC9 C1L C Y N 61 A1BC9 C1M C N N 62 A1BC9 C1N C N N 63 A1BC9 C1O C N N 64 A1BC9 C1P C N N 65 A1BC9 C1Q C N N 66 A1BC9 C1R C N N 67 A1BC9 N12 N N N 68 A1BC9 N13 N N N 69 A1BC9 O1 O N N 70 A1BC9 O12 O N N 71 A1BC9 O13 O N N 72 A1BC9 O14 O N N 73 A1BC9 O15 O N N 74 A1BC9 S S N N 75 A1BC9 H2 H N N 76 A1BC9 H124 H N N 77 A1BC9 H12 H N N 78 A1BC9 H1 H N N 79 A1BC9 H125 H N N 80 A1BC9 H123 H N N 81 A1BC9 H H N N 82 A1BC9 H126 H N N 83 A1BC9 H127 H N N 84 A1BC9 H128 H N N 85 A1BC9 H129 H N N 86 A1BC9 H12A H N N 87 A1BC9 H12B H N N 88 A1BC9 H12C H N N 89 A1BC9 H12E H N N 90 A1BC9 H12D H N N 91 A1BC9 H12G H N N 92 A1BC9 H12F H N N 93 A1BC9 H12H H N N 94 A1BC9 H12L H N N 95 A1BC9 H12K H N N 96 A1BC9 H12I H N N 97 A1BC9 H12O H N N 98 A1BC9 H12M H N N 99 A1BC9 H12N H N N 100 A1BC9 H12P H N N 101 A1BC9 H12R H N N 102 A1BC9 H12Q H N N 103 A1BC9 H3 H N N 104 BA BA BA N N 105 C OP3 O N N 106 C P P N N 107 C OP1 O N N 108 C OP2 O N N 109 C "O5'" O N N 110 C "C5'" C N N 111 C "C4'" C N R 112 C "O4'" O N N 113 C "C3'" C N S 114 C "O3'" O N N 115 C "C2'" C N R 116 C "O2'" O N N 117 C "C1'" C N R 118 C N1 N N N 119 C C2 C N N 120 C O2 O N N 121 C N3 N N N 122 C C4 C N N 123 C N4 N N N 124 C C5 C N N 125 C C6 C N N 126 C HOP3 H N N 127 C HOP2 H N N 128 C "H5'" H N N 129 C "H5''" H N N 130 C "H4'" H N N 131 C "H3'" H N N 132 C "HO3'" H N N 133 C "H2'" H N N 134 C "HO2'" H N N 135 C "H1'" H N N 136 C H41 H N N 137 C H42 H N N 138 C H5 H N N 139 C H6 H N N 140 G OP3 O N N 141 G P P N N 142 G OP1 O N N 143 G OP2 O N N 144 G "O5'" O N N 145 G "C5'" C N N 146 G "C4'" C N R 147 G "O4'" O N N 148 G "C3'" C N S 149 G "O3'" O N N 150 G "C2'" C N R 151 G "O2'" O N N 152 G "C1'" C N R 153 G N9 N Y N 154 G C8 C Y N 155 G N7 N Y N 156 G C5 C Y N 157 G C6 C N N 158 G O6 O N N 159 G N1 N N N 160 G C2 C N N 161 G N2 N N N 162 G N3 N N N 163 G C4 C Y N 164 G HOP3 H N N 165 G HOP2 H N N 166 G "H5'" H N N 167 G "H5''" H N N 168 G "H4'" H N N 169 G "H3'" H N N 170 G "HO3'" H N N 171 G "H2'" H N N 172 G "HO2'" H N N 173 G "H1'" H N N 174 G H8 H N N 175 G H1 H N N 176 G H21 H N N 177 G H22 H N N 178 HOH O O N N 179 HOH H1 H N N 180 HOH H2 H N N 181 U OP3 O N N 182 U P P N N 183 U OP1 O N N 184 U OP2 O N N 185 U "O5'" O N N 186 U "C5'" C N N 187 U "C4'" C N R 188 U "O4'" O N N 189 U "C3'" C N S 190 U "O3'" O N N 191 U "C2'" C N R 192 U "O2'" O N N 193 U "C1'" C N R 194 U N1 N N N 195 U C2 C N N 196 U O2 O N N 197 U N3 N N N 198 U C4 C N N 199 U O4 O N N 200 U C5 C N N 201 U C6 C N N 202 U HOP3 H N N 203 U HOP2 H N N 204 U "H5'" H N N 205 U "H5''" H N N 206 U "H4'" H N N 207 U "H3'" H N N 208 U "HO3'" H N N 209 U "H2'" H N N 210 U "HO2'" H N N 211 U "H1'" H N N 212 U H3 H N N 213 U H5 H N N 214 U H6 H N N 215 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 A1BC9 O1 S doub N N 40 A1BC9 O S doub N N 41 A1BC9 O13 C1O doub N N 42 A1BC9 C1M N12 sing N N 43 A1BC9 S N1 sing N N 44 A1BC9 S N sing N N 45 A1BC9 C1N N12 sing N N 46 A1BC9 N12 C1C doub N N 47 A1BC9 N1 C1 sing N N 48 A1BC9 N1 C sing N N 49 A1BC9 C1C C1A sing N N 50 A1BC9 C1C C1F sing N N 51 A1BC9 C1O N sing N N 52 A1BC9 C1O C1E sing N N 53 A1BC9 C1A C15 doub N N 54 A1BC9 C1F C18 doub N N 55 A1BC9 C15 O12 sing N N 56 A1BC9 C15 C13 sing N N 57 A1BC9 O12 C16 sing N N 58 A1BC9 C18 C13 sing N N 59 A1BC9 C13 C12 doub N N 60 A1BC9 C1E C1L doub Y N 61 A1BC9 C1E C17 sing Y N 62 A1BC9 C16 C1B doub Y N 63 A1BC9 C16 C14 sing Y N 64 A1BC9 C1B C1D sing Y N 65 A1BC9 C12 C14 sing N N 66 A1BC9 C12 C17 sing N N 67 A1BC9 C1L C1K sing Y N 68 A1BC9 C1Q N13 sing N N 69 A1BC9 C14 C19 doub Y N 70 A1BC9 C17 C1H doub Y N 71 A1BC9 C1D N13 sing N N 72 A1BC9 C1D C1G doub Y N 73 A1BC9 N13 C1P sing N N 74 A1BC9 C19 C1G sing Y N 75 A1BC9 C1K C1I doub Y N 76 A1BC9 C1H C1I sing Y N 77 A1BC9 C1I C1R sing N N 78 A1BC9 C1R O14 doub N N 79 A1BC9 C1R O15 sing N N 80 A1BC9 N H2 sing N N 81 A1BC9 C H124 sing N N 82 A1BC9 C H12 sing N N 83 A1BC9 C H1 sing N N 84 A1BC9 C1 H125 sing N N 85 A1BC9 C1 H123 sing N N 86 A1BC9 C1 H sing N N 87 A1BC9 C18 H126 sing N N 88 A1BC9 C19 H127 sing N N 89 A1BC9 C1A H128 sing N N 90 A1BC9 C1B H129 sing N N 91 A1BC9 C1F H12A sing N N 92 A1BC9 C1G H12B sing N N 93 A1BC9 C1H H12C sing N N 94 A1BC9 C1K H12E sing N N 95 A1BC9 C1L H12D sing N N 96 A1BC9 C1M H12G sing N N 97 A1BC9 C1M H12F sing N N 98 A1BC9 C1M H12H sing N N 99 A1BC9 C1N H12L sing N N 100 A1BC9 C1N H12K sing N N 101 A1BC9 C1N H12I sing N N 102 A1BC9 C1P H12O sing N N 103 A1BC9 C1P H12M sing N N 104 A1BC9 C1P H12N sing N N 105 A1BC9 C1Q H12P sing N N 106 A1BC9 C1Q H12R sing N N 107 A1BC9 C1Q H12Q sing N N 108 A1BC9 O15 H3 sing N N 109 C OP3 P sing N N 110 C OP3 HOP3 sing N N 111 C P OP1 doub N N 112 C P OP2 sing N N 113 C P "O5'" sing N N 114 C OP2 HOP2 sing N N 115 C "O5'" "C5'" sing N N 116 C "C5'" "C4'" sing N N 117 C "C5'" "H5'" sing N N 118 C "C5'" "H5''" sing N N 119 C "C4'" "O4'" sing N N 120 C "C4'" "C3'" sing N N 121 C "C4'" "H4'" sing N N 122 C "O4'" "C1'" sing N N 123 C "C3'" "O3'" sing N N 124 C "C3'" "C2'" sing N N 125 C "C3'" "H3'" sing N N 126 C "O3'" "HO3'" sing N N 127 C "C2'" "O2'" sing N N 128 C "C2'" "C1'" sing N N 129 C "C2'" "H2'" sing N N 130 C "O2'" "HO2'" sing N N 131 C "C1'" N1 sing N N 132 C "C1'" "H1'" sing N N 133 C N1 C2 sing N N 134 C N1 C6 sing N N 135 C C2 O2 doub N N 136 C C2 N3 sing N N 137 C N3 C4 doub N N 138 C C4 N4 sing N N 139 C C4 C5 sing N N 140 C N4 H41 sing N N 141 C N4 H42 sing N N 142 C C5 C6 doub N N 143 C C5 H5 sing N N 144 C C6 H6 sing N N 145 G OP3 P sing N N 146 G OP3 HOP3 sing N N 147 G P OP1 doub N N 148 G P OP2 sing N N 149 G P "O5'" sing N N 150 G OP2 HOP2 sing N N 151 G "O5'" "C5'" sing N N 152 G "C5'" "C4'" sing N N 153 G "C5'" "H5'" sing N N 154 G "C5'" "H5''" sing N N 155 G "C4'" "O4'" sing N N 156 G "C4'" "C3'" sing N N 157 G "C4'" "H4'" sing N N 158 G "O4'" "C1'" sing N N 159 G "C3'" "O3'" sing N N 160 G "C3'" "C2'" sing N N 161 G "C3'" "H3'" sing N N 162 G "O3'" "HO3'" sing N N 163 G "C2'" "O2'" sing N N 164 G "C2'" "C1'" sing N N 165 G "C2'" "H2'" sing N N 166 G "O2'" "HO2'" sing N N 167 G "C1'" N9 sing N N 168 G "C1'" "H1'" sing N N 169 G N9 C8 sing Y N 170 G N9 C4 sing Y N 171 G C8 N7 doub Y N 172 G C8 H8 sing N N 173 G N7 C5 sing Y N 174 G C5 C6 sing N N 175 G C5 C4 doub Y N 176 G C6 O6 doub N N 177 G C6 N1 sing N N 178 G N1 C2 sing N N 179 G N1 H1 sing N N 180 G C2 N2 sing N N 181 G C2 N3 doub N N 182 G N2 H21 sing N N 183 G N2 H22 sing N N 184 G N3 C4 sing N N 185 HOH O H1 sing N N 186 HOH O H2 sing N N 187 U OP3 P sing N N 188 U OP3 HOP3 sing N N 189 U P OP1 doub N N 190 U P OP2 sing N N 191 U P "O5'" sing N N 192 U OP2 HOP2 sing N N 193 U "O5'" "C5'" sing N N 194 U "C5'" "C4'" sing N N 195 U "C5'" "H5'" sing N N 196 U "C5'" "H5''" sing N N 197 U "C4'" "O4'" sing N N 198 U "C4'" "C3'" sing N N 199 U "C4'" "H4'" sing N N 200 U "O4'" "C1'" sing N N 201 U "C3'" "O3'" sing N N 202 U "C3'" "C2'" sing N N 203 U "C3'" "H3'" sing N N 204 U "O3'" "HO3'" sing N N 205 U "C2'" "O2'" sing N N 206 U "C2'" "C1'" sing N N 207 U "C2'" "H2'" sing N N 208 U "O2'" "HO2'" sing N N 209 U "C1'" N1 sing N N 210 U "C1'" "H1'" sing N N 211 U N1 C2 sing N N 212 U N1 C6 sing N N 213 U C2 O2 doub N N 214 U C2 N3 sing N N 215 U N3 C4 sing N N 216 U N3 H3 sing N N 217 U C4 O4 doub N N 218 U C4 C5 sing N N 219 U C5 C6 doub N N 220 U C5 H5 sing N N 221 U C6 H6 sing N N 222 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 9DXL 'double helix' 9DXL 'a-form double helix' 9DXL 'hairpin loop' 9DXL tetraloop 9DXL 'bulge loop' 9DXL '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 C 4 1_555 A G 44 1_555 0.159 -0.191 0.306 -1.566 -1.820 -0.743 1 A_C4:G44_A A 4 ? A 44 ? 19 1 1 A U 5 1_555 A A 43 1_555 -0.025 -0.126 0.450 -2.018 -2.788 0.597 2 A_U5:A43_A A 5 ? A 43 ? 20 1 1 A G 21 1_555 A C 42 1_555 -0.200 -0.160 -0.555 -8.228 -5.517 1.276 3 A_G21:C42_A A 21 ? A 42 ? 19 1 1 A A 22 1_555 A U 41 1_555 0.039 -0.103 -0.306 -7.518 4.180 0.517 4 A_A22:U41_A A 22 ? A 41 ? 20 1 1 A G 23 1_555 A C 40 1_555 -0.178 -0.134 0.076 -0.896 7.439 0.207 5 A_G23:C40_A A 23 ? A 40 ? 19 1 1 A G 24 1_555 A C 39 1_555 -0.176 -0.152 -0.382 -6.617 -3.329 -0.390 6 A_G24:C39_A A 24 ? A 39 ? 19 1 1 A C 25 1_555 A G 38 1_555 0.198 -0.167 0.256 -0.379 -2.536 0.383 7 A_C25:G38_A A 25 ? A 38 ? 19 1 1 A G 26 1_555 A C 37 1_555 -0.199 -0.102 0.012 0.379 -10.222 1.727 8 A_G26:C37_A A 26 ? A 37 ? 19 1 1 A C 27 1_555 A G 19 1_555 0.204 -0.177 -0.208 -2.074 -0.106 0.159 9 A_C27:G19_A A 27 ? A 19 ? 19 1 1 A A 11 1_555 A G 8 1_555 -6.908 -5.310 1.337 -23.690 11.177 -19.091 10 A_A11:G8_A A 11 ? A 8 ? ? ? 1 A C 12 1_555 A G 7 1_555 0.179 -0.158 0.229 5.040 7.230 0.906 11 A_C12:G7_A A 12 ? A 7 ? 19 1 1 A G 13 1_555 A C 6 1_555 -0.179 -0.125 -0.079 2.185 -6.661 0.439 12 A_G13:C6_A A 13 ? A 6 ? 19 1 1 A U 14 1_555 A A 20 1_555 -0.096 -0.133 -0.449 5.078 -5.583 2.460 13 A_U14:A20_A A 14 ? A 20 ? 20 1 1 A G 15 1_555 A C 36 1_555 -0.165 -0.167 -0.598 -11.750 0.654 -1.270 14 A_G15:C36_A A 15 ? A 36 ? 19 1 1 A G 18 1_555 A A 35 1_555 6.571 -3.944 0.721 -17.688 -21.514 -1.216 15 A_G18:A35_A A 18 ? A 35 ? 11 10 1 A A 16 1_555 A A 34 1_555 4.003 1.172 0.732 -0.105 -12.325 -105.336 16 A_A16:A34_A A 16 ? A 34 ? 5 4 1 A G 31 1_555 A U 33 1_555 3.257 2.126 -1.628 20.759 58.881 130.056 17 A_G31:U33_A A 31 ? A 33 ? ? ? 1 B G 1 1_555 B A 48 1_555 1.569 3.417 -0.571 4.164 10.170 35.741 18 B_G1:A48_B B 1 ? B 48 ? ? ? 1 B G 2 1_555 B C 47 1_555 1.794 0.027 1.461 1.908 -3.723 11.562 19 B_G2:C47_B B 2 ? B 47 ? ? 1 1 B A 3 1_555 B C 46 1_555 4.579 -0.350 1.710 3.240 -9.201 4.533 20 B_A3:C46_B B 3 ? B 46 ? ? ? 1 B C 4 1_555 B G 44 1_555 -2.048 0.915 -0.426 4.983 10.849 -11.068 21 B_C4:G44_B B 4 ? B 44 ? ? ? 1 B A 11 1_555 B G 8 1_555 -6.489 -4.020 1.371 0.621 -5.424 0.176 22 B_A11:G8_B B 11 ? B 8 ? 11 9 1 B C 12 1_555 B G 7 1_555 0.159 -0.137 -0.265 4.023 10.043 -0.421 23 B_C12:G7_B B 12 ? B 7 ? 19 1 1 B G 13 1_555 B C 6 1_555 -0.201 -0.161 -0.352 0.834 -3.190 0.440 24 B_G13:C6_B B 13 ? B 6 ? 19 1 1 B U 14 1_555 B A 20 1_555 -0.087 -0.146 -0.637 5.881 -3.342 1.708 25 B_U14:A20_B B 14 ? B 20 ? 20 1 1 B G 15 1_555 B C 36 1_555 -0.174 -0.154 -0.398 -2.589 3.137 -0.692 26 B_G15:C36_B B 15 ? B 36 ? 19 1 1 B A 16 1_555 B A 34 1_555 4.410 1.337 0.931 -17.526 -20.084 -77.593 27 B_A16:A34_B B 16 ? B 34 ? ? ? 1 B G 31 1_555 B U 33 1_555 2.968 2.977 -0.310 28.657 40.676 127.586 28 B_G31:U33_B B 31 ? B 33 ? ? ? 1 B G 19 1_555 B C 27 1_555 -0.165 -0.166 -0.358 1.534 -3.554 -0.561 29 B_G19:C27_B B 19 ? B 27 ? 19 1 1 B C 37 1_555 B G 26 1_555 0.161 -0.122 0.396 -12.503 -4.960 0.752 30 B_C37:G26_B B 37 ? B 26 ? 19 1 1 B G 38 1_555 B C 25 1_555 -0.191 -0.144 0.095 0.304 -2.317 -0.048 31 B_G38:C25_B B 38 ? B 25 ? 19 1 1 B C 39 1_555 B G 24 1_555 0.198 -0.128 0.179 0.739 -2.287 0.920 32 B_C39:G24_B B 39 ? B 24 ? 19 1 1 B C 40 1_555 B G 23 1_555 0.181 -0.214 -0.741 5.500 -2.101 -0.378 33 B_C40:G23_B B 40 ? B 23 ? 19 1 1 B U 41 1_555 B A 22 1_555 -0.571 -0.367 -1.765 20.697 9.405 -14.795 34 B_U41:A22_B B 41 ? B 22 ? 20 1 1 B C 42 1_555 B G 21 1_555 0.784 0.488 -1.649 22.686 -19.179 -14.241 35 B_C42:G21_B B 42 ? B 21 ? ? ? # 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 C 4 1_555 A G 44 1_555 A U 5 1_555 A A 43 1_555 0.286 -1.840 3.037 1.254 4.126 29.649 -4.320 -0.321 2.770 8.009 -2.434 29.954 1 AA_C4U5:A43G44_AA A 4 ? A 44 ? A 5 ? A 43 ? 1 A U 5 1_555 A A 43 1_555 A G 21 1_555 A C 42 1_555 -0.601 -2.182 3.275 13.036 17.747 44.394 -3.764 1.564 2.070 21.961 -16.131 49.307 2 AA_U5G21:C42A43_AA A 5 ? A 43 ? A 21 ? A 42 ? 1 A G 21 1_555 A C 42 1_555 A A 22 1_555 A U 41 1_555 -1.045 -2.089 3.119 -5.913 8.431 32.052 -4.856 0.934 2.646 14.800 10.379 33.624 3 AA_G21A22:U41C42_AA A 21 ? A 42 ? A 22 ? A 41 ? 1 A A 22 1_555 A U 41 1_555 A G 23 1_555 A C 40 1_555 0.055 -1.774 2.953 -2.858 8.174 29.982 -4.596 -0.555 2.382 15.400 5.384 31.180 4 AA_A22G23:C40U41_AA A 22 ? A 41 ? A 23 ? A 40 ? 1 A G 23 1_555 A C 40 1_555 A G 24 1_555 A C 39 1_555 0.257 -2.121 3.266 4.881 14.589 29.216 -5.881 0.263 2.024 26.714 -8.937 32.940 5 AA_G23G24:C39C40_AA A 23 ? A 40 ? A 24 ? A 39 ? 1 A G 24 1_555 A C 39 1_555 A C 25 1_555 A G 38 1_555 0.024 -1.315 3.231 -3.805 2.159 36.492 -2.374 -0.544 3.133 3.432 6.050 36.745 6 AA_G24C25:G38C39_AA A 24 ? A 39 ? A 25 ? A 38 ? 1 A C 25 1_555 A G 38 1_555 A G 26 1_555 A C 37 1_555 0.482 -1.843 2.971 3.031 9.341 30.289 -4.788 -0.416 2.349 17.315 -5.618 31.805 7 AA_C25G26:C37G38_AA A 25 ? A 38 ? A 26 ? A 37 ? 1 A G 26 1_555 A C 37 1_555 A C 27 1_555 A G 19 1_555 2.147 -0.517 3.229 6.267 -6.812 51.269 -0.118 -2.014 3.488 -7.800 -7.176 52.042 8 AA_G26C27:G19C37_AA A 26 ? A 37 ? A 27 ? A 19 ? 1 A A 11 1_555 A G 8 1_555 A C 12 1_555 A G 7 1_555 2.432 -0.995 2.365 8.045 1.806 54.005 -1.169 -2.278 2.643 1.976 -8.802 54.584 9 AA_A11C12:G7G8_AA A 11 ? A 8 ? A 12 ? A 7 ? 1 A C 12 1_555 A G 7 1_555 A G 13 1_555 A C 6 1_555 0.066 -1.673 3.052 4.611 14.969 34.810 -4.155 0.388 2.170 23.599 -7.270 38.072 10 AA_C12G13:C6G7_AA A 12 ? A 7 ? A 13 ? A 6 ? 1 A G 13 1_555 A C 6 1_555 A U 14 1_555 A A 20 1_555 0.064 -1.114 3.080 4.359 1.853 36.585 -1.995 0.451 3.010 2.937 -6.908 36.880 11 AA_G13U14:A20C6_AA A 13 ? A 6 ? A 14 ? A 20 ? 1 A U 14 1_555 A A 20 1_555 A G 15 1_555 A C 36 1_555 1.999 0.717 3.669 16.755 -1.675 49.666 0.949 -0.918 4.076 -1.931 -19.318 52.271 12 AA_U14G15:C36A20_AA A 14 ? A 20 ? A 15 ? A 36 ? 1 A G 15 1_555 A C 36 1_555 A G 18 1_555 A A 35 1_555 -0.293 -0.030 3.710 5.255 37.303 65.748 -1.372 0.432 3.287 31.833 -4.485 74.710 13 AA_G15G18:A35C36_AA A 15 ? A 36 ? A 18 ? A 35 ? 1 A G 18 1_555 A A 35 1_555 A A 16 1_555 A A 34 1_555 -1.583 0.588 3.217 0.115 3.188 -14.575 -4.852 -6.004 3.030 -12.372 0.445 -14.918 14 AA_G18A16:A34A35_AA A 18 ? A 35 ? A 16 ? A 34 ? 1 A A 16 1_555 A A 34 1_555 A G 31 1_555 A U 33 1_555 1.171 0.912 6.763 15.143 -22.090 124.302 0.892 -0.397 6.702 -12.430 -8.521 125.941 15 AA_A16G31:U33A34_AA A 16 ? A 34 ? A 31 ? A 33 ? 1 B G 1 1_555 B A 48 1_555 B G 2 1_555 B C 47 1_555 -3.618 -1.344 3.335 -8.186 34.717 23.413 -5.286 4.187 1.472 56.222 13.256 42.457 16 BB_G1G2:C47A48_BB B 1 ? B 48 ? B 2 ? B 47 ? 1 B G 2 1_555 B C 47 1_555 B A 3 1_555 B C 46 1_555 -0.258 -0.961 4.098 -0.556 1.254 33.338 -1.933 0.335 4.064 2.184 0.970 33.366 17 BB_G2A3:C46C47_BB B 2 ? B 47 ? B 3 ? B 46 ? 1 B A 3 1_555 B C 46 1_555 B C 4 1_555 B G 44 1_555 0.194 -2.020 5.323 -6.799 27.581 21.268 -8.826 -1.675 1.641 52.337 12.901 35.355 18 BB_A3C4:G44C46_BB B 3 ? B 46 ? B 4 ? B 44 ? 1 B A 11 1_555 B G 8 1_555 B C 12 1_555 B G 7 1_555 2.089 -0.756 2.725 -0.896 16.845 43.902 -2.054 -2.685 2.265 21.607 1.149 46.881 19 BB_A11C12:G7G8_BB B 11 ? B 8 ? B 12 ? B 7 ? 1 B C 12 1_555 B G 7 1_555 B G 13 1_555 B C 6 1_555 -0.407 -1.738 3.181 2.090 13.106 31.562 -4.758 0.979 2.270 22.871 -3.646 34.173 20 BB_C12G13:C6G7_BB B 12 ? B 7 ? B 13 ? B 6 ? 1 B G 13 1_555 B C 6 1_555 B U 14 1_555 B A 20 1_555 -0.179 -1.503 3.016 1.712 4.113 30.864 -3.494 0.623 2.783 7.679 -3.196 31.177 21 BB_G13U14:A20C6_BB B 13 ? B 6 ? B 14 ? B 20 ? 1 B U 14 1_555 B A 20 1_555 B G 15 1_555 B C 36 1_555 2.428 1.076 3.457 12.839 -2.408 46.520 1.532 -1.820 3.901 -2.980 -15.891 48.221 22 BB_U14G15:C36A20_BB B 14 ? B 20 ? B 15 ? B 36 ? 1 B A 16 1_555 B A 34 1_555 B G 31 1_555 B U 33 1_555 -0.047 1.521 5.636 10.536 -18.013 118.912 1.172 0.199 5.462 -10.418 -6.093 120.026 23 BB_A16G31:U33A34_BB B 16 ? B 34 ? B 31 ? B 33 ? 1 B G 19 1_555 B C 27 1_555 B C 37 1_555 B G 26 1_555 -2.356 -0.819 3.513 -12.528 -8.134 55.958 -0.338 1.653 3.987 -8.502 13.094 57.761 24 BB_G19C37:G26C27_BB B 19 ? B 27 ? B 37 ? B 26 ? 1 B C 37 1_555 B G 26 1_555 B G 38 1_555 B C 25 1_555 -0.429 -1.608 2.813 2.417 3.316 28.064 -3.915 1.336 2.564 6.791 -4.950 28.357 25 BB_C37G38:C25G26_BB B 37 ? B 26 ? B 38 ? B 25 ? 1 B G 38 1_555 B C 25 1_555 B C 39 1_555 B G 24 1_555 0.181 -1.910 3.223 0.222 0.127 35.644 -3.138 -0.264 3.217 0.208 -0.363 35.645 26 BB_G38C39:G24C25_BB B 38 ? B 25 ? B 39 ? B 24 ? 1 B C 39 1_555 B G 24 1_555 B C 40 1_555 B G 23 1_555 0.299 -2.223 3.058 10.278 7.624 27.997 -5.491 1.183 2.349 14.818 -19.977 30.730 27 BB_C39C40:G23G24_BB B 39 ? B 24 ? B 40 ? B 23 ? 1 B C 40 1_555 B G 23 1_555 B U 41 1_555 B A 22 1_555 -0.259 -1.280 2.948 12.110 21.282 34.567 -3.527 1.354 1.737 31.414 -17.876 42.144 28 BB_C40U41:A22G23_BB B 40 ? B 23 ? B 41 ? B 22 ? 1 B U 41 1_555 B A 22 1_555 B C 42 1_555 B G 21 1_555 0.815 -1.155 3.539 4.278 8.984 33.295 -3.387 -0.675 3.206 15.260 -7.267 34.709 29 BB_U41C42:G21A22_BB B 41 ? B 22 ? B 42 ? B 21 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Science Foundation (NSF, United States)' 'United States' 2404117 1 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' 'United States' 'R35 GM152029' 2 # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 9BUN _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'P 1 21 1' _space_group.name_Hall 'P 2yb' _space_group.IT_number 4 _space_group.crystal_system monoclinic _space_group.id 1 # _atom_sites.entry_id 9DXL _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.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.025954 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.006118 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.018242 _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] 0.012302 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source BA ? ? 46.69444 9.00985 ? ? 2.07616 47.04031 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? H ? ? 0.51345 0.48472 ? ? 24.73122 6.32584 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 7.96527 ? ? ? 9.05267 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O1- ? ? 5.12366 3.84317 ? ? 3.49406 27.47979 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? S ? ? 9.55732 6.39887 ? ? 1.23737 29.19336 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_ #