data_9YD4 # _entry.id 9YD4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.407 _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 9YD4 pdb_00009yd4 10.2210/pdb9yd4/pdb WWPDB D_1000300303 ? ? # 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 2025-10-22 ? 2 'Structure model' 1 1 2025-11-19 ? # _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' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 2 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category diffrn_detector # _pdbx_audit_revision_item.ordinal 1 _pdbx_audit_revision_item.revision_ordinal 2 _pdbx_audit_revision_item.data_content_type 'Structure model' _pdbx_audit_revision_item.item '_diffrn_detector.type' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9YD4 _pdbx_database_status.recvd_initial_deposition_date 2025-09-21 _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_contact_author.id 2 _pdbx_contact_author.email jwszostak@uchicago.edu _pdbx_contact_author.name_first Jack _pdbx_contact_author.name_last Szostak _pdbx_contact_author.name_mi W _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4131-1203 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Fang, Z.' 1 0000-0001-8679-6633 'Szostak, J.W.' 2 0000-0003-4131-1203 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Nonenzymatic RNA copying with deoxypurine' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Fang, Z.' 1 0000-0001-8679-6633 primary 'Szostak, J.W.' 2 0000-0003-4131-1203 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA/RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-D(P*G)-3') ; 4762.030 2 ? ? ? ? 2 non-polymer syn ;(2-azanylimidazol-1-yl)-[[(2~{R},3~{S},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy]phosphinic acid ; 412.298 2 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 7 ? ? ? ? 4 water nat water 18.015 122 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polydeoxyribonucleotide/polyribonucleotide hybrid' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(LKC)(LCC)(LCC)(LCG)ACUUAAGUCG(DG)' _entity_poly.pdbx_seq_one_letter_code_can NNNGACUUAAGUCGG _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 ;(2-azanylimidazol-1-yl)-[[(2~{R},3~{S},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy]phosphinic acid ; A1CWA 3 'MAGNESIUM ION' MG 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 LKC n 1 2 LCC n 1 3 LCC n 1 4 LCG n 1 5 A n 1 6 C n 1 7 U n 1 8 U n 1 9 A n 1 10 A n 1 11 G n 1 12 U n 1 13 C n 1 14 G n 1 15 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 15 _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 A1CWA 'DNA linking' . ;(2-azanylimidazol-1-yl)-[[(2~{R},3~{S},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy]phosphinic acid ; "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]-2'-deoxyguanosine" 'C13 H17 N8 O6 P' 412.298 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 LCC 'RNA linking' . '[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H16 N3 O8 P' 349.234 LCG 'RNA linking' n '[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H14 N5 O8 P' 375.231 LKC 'RNA linking' . '4-AMINO-1-[(1S,3R,4R,7S)-7-HYDROXY-1-(HYDROXYMETHYL)-2,5-DIOXABICYCLO[2.2.1]HEPT-3-YL]-5-METHYLPYRIMIDIN-2(1H)-ONE' ? 'C11 H15 N3 O5' 269.254 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 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 LKC 1 1 1 LKC LCC A . n A 1 2 LCC 2 2 2 LCC LCC A . n A 1 3 LCC 3 3 3 LCC LCC A . n A 1 4 LCG 4 4 4 LCG LCG A . n A 1 5 A 5 5 5 A A A . n A 1 6 C 6 6 6 C C A . n A 1 7 U 7 7 7 U U A . n A 1 8 U 8 8 8 U U 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 G 11 11 11 G G A . n A 1 12 U 12 12 12 U U A . n A 1 13 C 13 13 13 C C A . n A 1 14 G 14 14 14 G G A . n A 1 15 DG 15 15 15 DG DG A . n B 1 1 LKC 1 1 1 LKC LCC B . n B 1 2 LCC 2 2 2 LCC LCC B . n B 1 3 LCC 3 3 3 LCC LCC B . n B 1 4 LCG 4 4 4 LCG LCG B . n B 1 5 A 5 5 5 A A B . n B 1 6 C 6 6 6 C C B . n B 1 7 U 7 7 7 U U B . n B 1 8 U 8 8 8 U U 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 G 11 11 11 G G B . n B 1 12 U 12 12 12 U U B . n B 1 13 C 13 13 13 C C B . n B 1 14 G 14 14 14 G G B . n B 1 15 DG 15 15 15 DG DG B . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id A1CWA _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id A1CWA _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 A1CWA 1 101 101 A1CWA EQE A . D 3 MG 1 102 3 MG MG A . E 3 MG 1 103 4 MG MG A . F 3 MG 1 104 7 MG MG A . G 2 A1CWA 1 101 101 A1CWA EQE B . H 3 MG 1 102 1 MG MG B . I 3 MG 1 103 2 MG MG B . J 3 MG 1 104 5 MG MG B . K 3 MG 1 105 6 MG MG B . L 4 HOH 1 201 62 HOH HOH A . L 4 HOH 2 202 107 HOH HOH A . L 4 HOH 3 203 105 HOH HOH A . L 4 HOH 4 204 119 HOH HOH A . L 4 HOH 5 205 118 HOH HOH A . L 4 HOH 6 206 102 HOH HOH A . L 4 HOH 7 207 40 HOH HOH A . L 4 HOH 8 208 3 HOH HOH A . L 4 HOH 9 209 60 HOH HOH A . L 4 HOH 10 210 13 HOH HOH A . L 4 HOH 11 211 56 HOH HOH A . L 4 HOH 12 212 69 HOH HOH A . L 4 HOH 13 213 27 HOH HOH A . L 4 HOH 14 214 31 HOH HOH A . L 4 HOH 15 215 61 HOH HOH A . L 4 HOH 16 216 2 HOH HOH A . L 4 HOH 17 217 53 HOH HOH A . L 4 HOH 18 218 108 HOH HOH A . L 4 HOH 19 219 39 HOH HOH A . L 4 HOH 20 220 125 HOH HOH A . L 4 HOH 21 221 80 HOH HOH A . L 4 HOH 22 222 25 HOH HOH A . L 4 HOH 23 223 79 HOH HOH A . L 4 HOH 24 224 55 HOH HOH A . L 4 HOH 25 225 22 HOH HOH A . L 4 HOH 26 226 24 HOH HOH A . L 4 HOH 27 227 117 HOH HOH A . L 4 HOH 28 228 37 HOH HOH A . L 4 HOH 29 229 9 HOH HOH A . L 4 HOH 30 230 87 HOH HOH A . L 4 HOH 31 231 91 HOH HOH A . L 4 HOH 32 232 95 HOH HOH A . L 4 HOH 33 233 78 HOH HOH A . L 4 HOH 34 234 77 HOH HOH A . L 4 HOH 35 235 42 HOH HOH A . L 4 HOH 36 236 82 HOH HOH A . L 4 HOH 37 237 88 HOH HOH A . L 4 HOH 38 238 21 HOH HOH A . L 4 HOH 39 239 43 HOH HOH A . L 4 HOH 40 240 41 HOH HOH A . L 4 HOH 41 241 23 HOH HOH A . L 4 HOH 42 242 38 HOH HOH A . L 4 HOH 43 243 15 HOH HOH A . L 4 HOH 44 244 12 HOH HOH A . L 4 HOH 45 245 97 HOH HOH A . L 4 HOH 46 246 36 HOH HOH A . L 4 HOH 47 247 76 HOH HOH A . L 4 HOH 48 248 115 HOH HOH A . L 4 HOH 49 249 104 HOH HOH A . L 4 HOH 50 250 122 HOH HOH A . L 4 HOH 51 251 7 HOH HOH A . L 4 HOH 52 252 103 HOH HOH A . L 4 HOH 53 253 32 HOH HOH A . L 4 HOH 54 254 52 HOH HOH A . L 4 HOH 55 255 6 HOH HOH A . L 4 HOH 56 256 57 HOH HOH A . L 4 HOH 57 257 106 HOH HOH A . L 4 HOH 58 258 109 HOH HOH A . M 4 HOH 1 201 93 HOH HOH B . M 4 HOH 2 202 68 HOH HOH B . M 4 HOH 3 203 90 HOH HOH B . M 4 HOH 4 204 49 HOH HOH B . M 4 HOH 5 205 58 HOH HOH B . M 4 HOH 6 206 81 HOH HOH B . M 4 HOH 7 207 71 HOH HOH B . M 4 HOH 8 208 120 HOH HOH B . M 4 HOH 9 209 67 HOH HOH B . M 4 HOH 10 210 30 HOH HOH B . M 4 HOH 11 211 5 HOH HOH B . M 4 HOH 12 212 66 HOH HOH B . M 4 HOH 13 213 74 HOH HOH B . M 4 HOH 14 214 11 HOH HOH B . M 4 HOH 15 215 33 HOH HOH B . M 4 HOH 16 216 92 HOH HOH B . M 4 HOH 17 217 86 HOH HOH B . M 4 HOH 18 218 73 HOH HOH B . M 4 HOH 19 219 83 HOH HOH B . M 4 HOH 20 220 46 HOH HOH B . M 4 HOH 21 221 8 HOH HOH B . M 4 HOH 22 222 100 HOH HOH B . M 4 HOH 23 223 72 HOH HOH B . M 4 HOH 24 224 54 HOH HOH B . M 4 HOH 25 225 1 HOH HOH B . M 4 HOH 26 226 14 HOH HOH B . M 4 HOH 27 227 19 HOH HOH B . M 4 HOH 28 228 64 HOH HOH B . M 4 HOH 29 229 17 HOH HOH B . M 4 HOH 30 230 110 HOH HOH B . M 4 HOH 31 231 59 HOH HOH B . M 4 HOH 32 232 28 HOH HOH B . M 4 HOH 33 233 10 HOH HOH B . M 4 HOH 34 234 45 HOH HOH B . M 4 HOH 35 235 101 HOH HOH B . M 4 HOH 36 236 50 HOH HOH B . M 4 HOH 37 237 123 HOH HOH B . M 4 HOH 38 238 99 HOH HOH B . M 4 HOH 39 239 18 HOH HOH B . M 4 HOH 40 240 98 HOH HOH B . M 4 HOH 41 241 34 HOH HOH B . M 4 HOH 42 242 29 HOH HOH B . M 4 HOH 43 243 16 HOH HOH B . M 4 HOH 44 244 44 HOH HOH B . M 4 HOH 45 245 47 HOH HOH B . M 4 HOH 46 246 65 HOH HOH B . M 4 HOH 47 247 96 HOH HOH B . M 4 HOH 48 248 112 HOH HOH B . M 4 HOH 49 249 89 HOH HOH B . M 4 HOH 50 250 113 HOH HOH B . M 4 HOH 51 251 124 HOH HOH B . M 4 HOH 52 252 111 HOH HOH B . M 4 HOH 53 253 70 HOH HOH B . M 4 HOH 54 254 121 HOH HOH B . M 4 HOH 55 255 63 HOH HOH B . M 4 HOH 56 256 94 HOH HOH B . M 4 HOH 57 257 114 HOH HOH B . M 4 HOH 58 258 116 HOH HOH B . M 4 HOH 59 259 26 HOH HOH B . M 4 HOH 60 260 85 HOH HOH B . M 4 HOH 61 261 48 HOH HOH B . M 4 HOH 62 262 4 HOH HOH B . M 4 HOH 63 263 75 HOH HOH B . M 4 HOH 64 264 84 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_reference_DOI _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0425 ? 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . ? 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . ? 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . ? 4 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 9YD4 _cell.details ? _cell.formula_units_Z ? _cell.length_a 48.254 _cell.length_a_esd ? _cell.length_b 48.254 _cell.length_b_esd ? _cell.length_c 82.532 _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 9YD4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 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 9YD4 _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 2.90 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 57.62 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.05 M HEPES pH 7.0, 0.2 M Ammonium acetate, 0.15 M Magnesium acetate, 10% w/v Polyethylene glycol 6,000.' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 298 # _diffrn.ambient_environment ? _diffrn.ambient_temp 99 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2022-06-23 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.033175 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'APS BEAMLINE 23-ID-B' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.033175 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 23-ID-B _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 9YD4 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.658 _reflns.d_resolution_low 50 _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 13714 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 8.7 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 22.3 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.903 _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 0.124 _reflns.pdbx_Rpim_I_all 0.044 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.963 _reflns.pdbx_CC_star 0.991 _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.115 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 1.658 _reflns_shell.d_res_low 1.69 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 8.0 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 646 _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 6.1 _reflns_shell.pdbx_chi_squared 0.964 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.311 _reflns_shell.pdbx_Rpim_I_all 0.116 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.992 _reflns_shell.pdbx_CC_star 0.998 _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 96.9 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.287 _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] 0.003 _refine.aniso_B[1][2] 0.001 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][2] 0.003 _refine.aniso_B[2][3] -0.000 _refine.aniso_B[3][3] -0.009 _refine.B_iso_max ? _refine.B_iso_mean 18.391 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.896 _refine.correlation_coeff_Fo_to_Fc_free 0.870 _refine.details 'Hydrogens have been added in their riding positions' _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 9YD4 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.658 _refine.ls_d_res_low 37.282 _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 11583 _refine.ls_number_reflns_R_free 559 _refine.ls_number_reflns_R_work 11024 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 84.105 _refine.ls_percent_reflns_R_free 4.826 _refine.ls_R_factor_all 0.258 _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_free 0.2891 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2568 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'MASK BULK SOLVENT' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _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 ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.150 _refine.pdbx_overall_ESU_R_Free 0.141 _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 2.444 _refine.overall_SU_ML 0.082 _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.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 642 _refine_hist.pdbx_number_atoms_ligand 63 _refine_hist.number_atoms_solvent 122 _refine_hist.number_atoms_total 827 _refine_hist.d_res_high 1.658 _refine_hist.d_res_low 37.282 # 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_Zscore _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.022 0.016 784 ? r_bond_refined_d ? ? ? 'X-RAY DIFFRACTION' ? 0.027 0.023 354 ? r_bond_other_d ? ? ? 'X-RAY DIFFRACTION' ? 2.575 2.230 1200 ? r_angle_refined_deg ? ? ? 'X-RAY DIFFRACTION' ? 3.714 2.357 832 ? r_angle_other_deg ? ? ? 'X-RAY DIFFRACTION' ? 0.055 5.000 16 ? r_dihedral_angle_other_2_deg ? ? ? 'X-RAY DIFFRACTION' ? 0.118 0.200 152 ? r_chiral_restr ? ? ? 'X-RAY DIFFRACTION' ? 1.950 0.200 20 ? r_chiral_restr_other ? ? ? 'X-RAY DIFFRACTION' ? 0.014 0.021 418 ? r_gen_planes_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.001 0.023 136 ? r_gen_planes_other ? ? ? 'X-RAY DIFFRACTION' ? 0.128 0.200 63 ? r_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.199 0.200 424 ? r_symmetry_nbd_other ? ? ? 'X-RAY DIFFRACTION' ? 0.251 0.200 313 ? r_nbtor_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.236 0.200 204 ? r_symmetry_nbtor_other ? ? ? 'X-RAY DIFFRACTION' ? 0.211 0.200 80 ? r_xyhbond_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.070 0.200 11 ? r_metal_ion_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.141 0.200 20 ? r_symmetry_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.150 0.200 38 ? r_nbd_other ? ? ? 'X-RAY DIFFRACTION' ? 0.245 0.200 21 ? r_symmetry_xyhbond_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 2.791 2.223 784 ? r_scbond_it ? ? ? 'X-RAY DIFFRACTION' ? 2.790 2.228 785 ? r_scbond_other ? ? ? 'X-RAY DIFFRACTION' ? 4.351 4.060 1200 ? r_scangle_it ? ? ? 'X-RAY DIFFRACTION' ? 4.350 4.065 1201 ? r_scangle_other ? ? ? 'X-RAY DIFFRACTION' ? 6.366 25.521 1133 ? r_lrange_it ? ? ? 'X-RAY DIFFRACTION' ? 6.254 25.368 1089 ? r_lrange_other ? ? ? # 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.correlation_coeff_Fo_to_Fc _refine_ls_shell.correlation_coeff_Fo_to_Fc_free _refine_ls_shell.correlation_coeff_I_to_Fcsqd_work _refine_ls_shell.correlation_coeff_I_to_Fcsqd_free _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 1.658 1.701 997 . 30 389 42.0261 . 0.246 . . 0.239 . . . . . 0.200 . . . . . 20 . 0.967 0.883 0.359 'X-RAY DIFFRACTION' 1.701 1.747 974 . 28 429 46.9199 . 0.229 . . 0.220 . . . . . 0.187 . . . . . 20 . 0.972 0.938 0.373 'X-RAY DIFFRACTION' 1.747 1.798 936 . 43 457 53.4188 . 0.279 . . 0.283 . . . . . 0.256 . . . . . 20 . 0.952 0.963 0.242 'X-RAY DIFFRACTION' 1.798 1.853 927 . 24 541 60.9493 . 0.258 . . 0.255 . . . . . 0.219 . . . . . 20 . 0.955 0.938 0.312 'X-RAY DIFFRACTION' 1.853 1.913 899 . 26 615 71.3014 . 0.269 . . 0.269 . . . . . 0.266 . . . . . 20 . 0.951 0.950 0.265 'X-RAY DIFFRACTION' 1.913 1.980 847 . 43 795 98.9374 . 0.302 . . 0.298 . . . . . 0.290 . . . . . 20 . 0.939 0.880 0.379 'X-RAY DIFFRACTION' 1.980 2.055 832 . 35 797 100.0000 . 0.277 . . 0.278 . . . . . 0.258 . . . . . 20 . 0.949 0.961 0.266 'X-RAY DIFFRACTION' 2.055 2.139 802 . 46 756 100.0000 . 0.244 . . 0.241 . . . . . 0.228 . . . . . 20 . 0.965 0.937 0.323 'X-RAY DIFFRACTION' 2.139 2.233 774 . 43 731 100.0000 . 0.258 . . 0.255 . . . . . 0.252 . . . . . 20 . 0.958 0.941 0.297 'X-RAY DIFFRACTION' 2.233 2.342 743 . 28 715 100.0000 . 0.246 . . 0.246 . . . . . 0.261 . . . . . 20 . 0.960 0.957 0.242 'X-RAY DIFFRACTION' 2.342 2.468 712 . 38 672 99.7191 . 0.232 . . 0.226 . . . . . 0.250 . . . . . 20 . 0.967 0.929 0.331 'X-RAY DIFFRACTION' 2.468 2.617 673 . 21 647 99.2571 . 0.223 . . 0.223 . . . . . 0.262 . . . . . 20 . 0.969 0.979 0.201 'X-RAY DIFFRACTION' 2.617 2.797 643 . 27 614 99.6890 . 0.230 . . 0.231 . . . . . 0.296 . . . . . 20 . 0.968 0.961 0.214 'X-RAY DIFFRACTION' 2.797 3.020 596 . 22 571 99.4966 . 0.245 . . 0.245 . . . . . 0.311 . . . . . 20 . 0.965 0.970 0.241 'X-RAY DIFFRACTION' 3.020 3.306 548 . 29 512 98.7226 . 0.268 . . 0.266 . . . . . 0.428 . . . . . 20 . 0.940 0.971 0.297 'X-RAY DIFFRACTION' 3.306 3.692 505 . 14 489 99.6040 . 0.236 . . 0.235 . . . . . 0.340 . . . . . 20 . 0.965 0.970 0.274 'X-RAY DIFFRACTION' 3.692 4.256 454 . 17 437 100.0000 . 0.243 . . 0.242 . . . . . 0.314 . . . . . 20 . 0.950 0.932 0.286 'X-RAY DIFFRACTION' 4.256 5.196 388 . 18 365 98.7113 . 0.235 . . 0.232 . . . . . 0.441 . . . . . 20 . 0.963 0.978 0.292 'X-RAY DIFFRACTION' 5.196 7.278 314 . 15 299 100.0000 . 0.287 . . 0.290 . . . . . 0.397 . . . . . 20 . 0.953 0.981 0.234 'X-RAY DIFFRACTION' 7.278 37.282 204 . 12 192 100.0000 . 0.612 . . 0.613 . . . . . 0.697 . . . . . 20 . 0.868 0.835 0.590 # _struct.entry_id 9YD4 _struct.title 'RNA primer non-enzymatic extension product with DNA substrate' _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 9YD4 _struct_keywords.text 'Nonenzymatic RNA primer extension, Product, RNA duplex, Origin of Life, 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 3 ? E N N 3 ? F N N 3 ? G N N 2 ? H N N 3 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 4 ? M N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9YD4 _struct_ref.pdbx_db_accession 9YD4 _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 9YD4 A 1 ? 15 ? 9YD4 1 ? 15 ? 1 15 2 1 9YD4 B 1 ? 15 ? 9YD4 1 ? 15 ? 1 15 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 4080 ? 1 MORE -30 ? 1 'SSA (A^2)' 5880 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A LKC 1 "O3'" ? ? ? 1_555 A LCC 2 P ? ? A LKC 1 A LCC 2 1_555 ? ? ? ? ? ? ? 1.672 ? ? covale2 covale both ? A LCC 2 "O3'" ? ? ? 1_555 A LCC 3 P ? ? A LCC 2 A LCC 3 1_555 ? ? ? ? ? ? ? 1.641 ? ? covale3 covale both ? A LCC 3 "O3'" ? ? ? 1_555 A LCG 4 P ? ? A LCC 3 A LCG 4 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale4 covale both ? A LCG 4 "O3'" ? ? ? 1_555 A A 5 P ? ? A LCG 4 A A 5 1_555 ? ? ? ? ? ? ? 1.640 ? ? covale5 covale both ? B LKC 1 "O3'" ? ? ? 1_555 B LCC 2 P ? ? B LKC 1 B LCC 2 1_555 ? ? ? ? ? ? ? 1.683 ? ? covale6 covale both ? B LCC 2 "O3'" ? ? ? 1_555 B LCC 3 P ? ? B LCC 2 B LCC 3 1_555 ? ? ? ? ? ? ? 1.654 ? ? covale7 covale both ? B LCC 3 "O3'" ? ? ? 1_555 B LCG 4 P ? ? B LCC 3 B LCG 4 1_555 ? ? ? ? ? ? ? 1.616 ? ? covale8 covale both ? B LCG 4 "O3'" ? ? ? 1_555 B A 5 P ? ? B LCG 4 B A 5 1_555 ? ? ? ? ? ? ? 1.613 ? ? metalc1 metalc ? ? D MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 102 A HOH 213 1_555 ? ? ? ? ? ? ? 2.098 ? ? metalc2 metalc ? ? D MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 102 A HOH 222 1_555 ? ? ? ? ? ? ? 2.120 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 102 A HOH 226 1_555 ? ? ? ? ? ? ? 2.162 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 102 B HOH 232 1_555 ? ? ? ? ? ? ? 1.937 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 102 B HOH 242 1_555 ? ? ? ? ? ? ? 2.111 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 102 B HOH 259 1_555 ? ? ? ? ? ? ? 1.926 ? ? metalc7 metalc ? ? E MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 103 A HOH 201 1_555 ? ? ? ? ? ? ? 1.975 ? ? metalc8 metalc ? ? E MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 103 A HOH 209 1_555 ? ? ? ? ? ? ? 2.120 ? ? metalc9 metalc ? ? E MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 103 A HOH 215 1_555 ? ? ? ? ? ? ? 2.206 ? ? metalc10 metalc ? ? E MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 103 A HOH 256 1_555 ? ? ? ? ? ? ? 2.454 ? ? metalc11 metalc ? ? E MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 103 B HOH 255 1_555 ? ? ? ? ? ? ? 1.915 ? ? metalc12 metalc ? ? F MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 104 A HOH 202 1_555 ? ? ? ? ? ? ? 2.390 ? ? metalc13 metalc ? ? F MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 104 A HOH 203 1_555 ? ? ? ? ? ? ? 1.865 ? ? metalc14 metalc ? ? F MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 104 A HOH 218 1_555 ? ? ? ? ? ? ? 2.380 ? ? metalc15 metalc ? ? F MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 104 A HOH 257 1_555 ? ? ? ? ? ? ? 1.942 ? ? metalc16 metalc ? ? F MG . MG ? ? ? 1_555 L HOH . O ? ? A MG 104 A HOH 258 1_555 ? ? ? ? ? ? ? 2.074 ? ? metalc17 metalc ? ? L HOH . O ? ? ? 1_555 H MG . MG ? ? A HOH 208 B MG 102 1_555 ? ? ? ? ? ? ? 2.025 ? ? metalc18 metalc ? ? L HOH . O ? ? ? 1_555 H MG . MG ? ? A HOH 216 B MG 102 1_555 ? ? ? ? ? ? ? 2.198 ? ? metalc19 metalc ? ? L HOH . O ? ? ? 1_555 I MG . MG ? ? A HOH 229 B MG 103 1_555 ? ? ? ? ? ? ? 2.015 ? ? metalc20 metalc ? ? L HOH . O ? ? ? 1_555 I MG . MG ? ? A HOH 244 B MG 103 1_555 ? ? ? ? ? ? ? 1.995 ? ? metalc21 metalc ? ? L HOH . O ? ? ? 1_555 J MG . MG ? ? A HOH 247 B MG 104 1_555 ? ? ? ? ? ? ? 2.197 ? ? metalc22 metalc ? ? L HOH . O ? ? ? 1_555 I MG . MG ? ? A HOH 251 B MG 103 1_555 ? ? ? ? ? ? ? 1.932 ? ? metalc23 metalc ? ? L HOH . O ? ? ? 1_555 H MG . MG ? ? A HOH 255 B MG 102 1_555 ? ? ? ? ? ? ? 2.046 ? ? metalc24 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 102 B HOH 211 1_555 ? ? ? ? ? ? ? 1.944 ? ? metalc25 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 102 B HOH 225 1_555 ? ? ? ? ? ? ? 2.061 ? ? metalc26 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 102 B HOH 262 1_555 ? ? ? ? ? ? ? 1.976 ? ? metalc27 metalc ? ? I MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 103 B HOH 214 1_555 ? ? ? ? ? ? ? 2.099 ? ? metalc28 metalc ? ? I MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 103 B HOH 221 1_555 ? ? ? ? ? ? ? 2.116 ? ? metalc29 metalc ? ? I MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 103 B HOH 233 1_555 ? ? ? ? ? ? ? 2.098 ? ? metalc30 metalc ? ? J MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 104 B HOH 203 1_555 ? ? ? ? ? ? ? 1.860 ? ? metalc31 metalc ? ? J MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 104 B HOH 213 1_555 ? ? ? ? ? ? ? 2.043 ? ? metalc32 metalc ? ? J MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 104 B HOH 218 1_555 ? ? ? ? ? ? ? 2.067 ? ? metalc33 metalc ? ? J MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 104 B HOH 263 1_555 ? ? ? ? ? ? ? 2.402 ? ? metalc34 metalc ? ? K MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 105 B HOH 201 1_555 ? ? ? ? ? ? ? 1.989 ? ? metalc35 metalc ? ? K MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 105 B HOH 228 1_555 ? ? ? ? ? ? ? 2.001 ? ? metalc36 metalc ? ? K MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 105 B HOH 260 1_555 ? ? ? ? ? ? ? 2.209 ? ? metalc37 metalc ? ? K MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 105 B HOH 264 1_555 ? ? ? ? ? ? ? 2.043 ? ? hydrog1 hydrog ? ? A LCG 4 N1 ? ? ? 1_555 B C 13 N3 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A LCG 4 N2 ? ? ? 1_555 B C 13 O2 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A LCG 4 O6 ? ? ? 1_555 B C 13 N4 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 12 N3 ? ? A A 5 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 12 O4 ? ? A A 5 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A U 7 N3 ? ? ? 1_555 B A 10 N1 ? ? A U 7 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 7 O4 ? ? ? 1_555 B A 10 N6 ? ? A U 7 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 9 N1 ? ? A U 8 B A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 9 N6 ? ? A U 8 B A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 9 N1 ? ? ? 1_555 B U 8 N3 ? ? A A 9 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 9 N6 ? ? ? 1_555 B U 8 O4 ? ? A A 9 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 7 N3 ? ? A A 10 B U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 7 O4 ? ? A A 10 B U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 6 N3 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 6 O2 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 6 N4 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 5 N1 ? ? A U 12 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 5 N6 ? ? A U 12 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 13 N3 ? ? ? 1_555 B LCG 4 N1 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 13 N4 ? ? ? 1_555 B LCG 4 O6 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 13 O2 ? ? ? 1_555 B LCG 4 N2 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? L HOH . ? A HOH 213 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? L HOH . ? A HOH 222 ? 1_555 91.0 ? 2 O ? L HOH . ? A HOH 213 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? L HOH . ? A HOH 226 ? 1_555 97.1 ? 3 O ? L HOH . ? A HOH 222 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? L HOH . ? A HOH 226 ? 1_555 88.2 ? 4 O ? L HOH . ? A HOH 213 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 232 ? 1_555 85.7 ? 5 O ? L HOH . ? A HOH 222 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 232 ? 1_555 174.9 ? 6 O ? L HOH . ? A HOH 226 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 232 ? 1_555 96.1 ? 7 O ? L HOH . ? A HOH 213 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 242 ? 1_555 89.5 ? 8 O ? L HOH . ? A HOH 222 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 242 ? 1_555 87.3 ? 9 O ? L HOH . ? A HOH 226 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 242 ? 1_555 172.1 ? 10 O ? M HOH . ? B HOH 232 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 242 ? 1_555 88.8 ? 11 O ? L HOH . ? A HOH 213 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 259 ? 1_555 174.8 ? 12 O ? L HOH . ? A HOH 222 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 259 ? 1_555 94.0 ? 13 O ? L HOH . ? A HOH 226 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 259 ? 1_555 84.7 ? 14 O ? M HOH . ? B HOH 232 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 259 ? 1_555 89.2 ? 15 O ? M HOH . ? B HOH 242 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? M HOH . ? B HOH 259 ? 1_555 89.1 ? 16 O ? L HOH . ? A HOH 201 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? L HOH . ? A HOH 209 ? 1_555 108.7 ? 17 O ? L HOH . ? A HOH 201 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? L HOH . ? A HOH 215 ? 1_555 86.9 ? 18 O ? L HOH . ? A HOH 209 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? L HOH . ? A HOH 215 ? 1_555 81.3 ? 19 O ? L HOH . ? A HOH 201 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? L HOH . ? A HOH 256 ? 1_555 175.0 ? 20 O ? L HOH . ? A HOH 209 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? L HOH . ? A HOH 256 ? 1_555 71.3 ? 21 O ? L HOH . ? A HOH 215 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? L HOH . ? A HOH 256 ? 1_555 88.1 ? 22 O ? L HOH . ? A HOH 201 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? M HOH . ? B HOH 255 ? 1_555 87.8 ? 23 O ? L HOH . ? A HOH 209 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? M HOH . ? B HOH 255 ? 1_555 116.7 ? 24 O ? L HOH . ? A HOH 215 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? M HOH . ? B HOH 255 ? 1_555 162.0 ? 25 O ? L HOH . ? A HOH 256 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? M HOH . ? B HOH 255 ? 1_555 96.7 ? 26 O ? L HOH . ? A HOH 202 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 203 ? 1_555 81.7 ? 27 O ? L HOH . ? A HOH 202 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 93.7 ? 28 O ? L HOH . ? A HOH 203 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 101.4 ? 29 O ? L HOH . ? A HOH 202 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 257 ? 1_555 173.3 ? 30 O ? L HOH . ? A HOH 203 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 257 ? 1_555 94.3 ? 31 O ? L HOH . ? A HOH 218 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 257 ? 1_555 81.8 ? 32 O ? L HOH . ? A HOH 202 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 258 ? 1_555 102.2 ? 33 O ? L HOH . ? A HOH 203 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 258 ? 1_555 103.2 ? 34 O ? L HOH . ? A HOH 218 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 258 ? 1_555 152.4 ? 35 O ? L HOH . ? A HOH 257 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? L HOH . ? A HOH 258 ? 1_555 83.9 ? 36 O ? L HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? L HOH . ? A HOH 216 ? 1_555 93.9 ? 37 O ? L HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? L HOH . ? A HOH 255 ? 1_555 87.0 ? 38 O ? L HOH . ? A HOH 216 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? L HOH . ? A HOH 255 ? 1_555 83.5 ? 39 O ? L HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 211 ? 1_555 86.0 ? 40 O ? L HOH . ? A HOH 216 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 211 ? 1_555 89.2 ? 41 O ? L HOH . ? A HOH 255 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 211 ? 1_555 169.5 ? 42 O ? L HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 225 ? 1_555 89.0 ? 43 O ? L HOH . ? A HOH 216 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 225 ? 1_555 173.6 ? 44 O ? L HOH . ? A HOH 255 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 225 ? 1_555 90.9 ? 45 O ? M HOH . ? B HOH 211 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 225 ? 1_555 96.8 ? 46 O ? L HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 262 ? 1_555 178.5 ? 47 O ? L HOH . ? A HOH 216 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 262 ? 1_555 87.5 ? 48 O ? L HOH . ? A HOH 255 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 262 ? 1_555 92.6 ? 49 O ? M HOH . ? B HOH 211 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 262 ? 1_555 94.6 ? 50 O ? M HOH . ? B HOH 225 ? 1_555 MG ? H MG . ? B MG 102 ? 1_555 O ? M HOH . ? B HOH 262 ? 1_555 89.6 ? 51 O ? L HOH . ? A HOH 229 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? L HOH . ? A HOH 244 ? 1_555 86.9 ? 52 O ? L HOH . ? A HOH 229 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? L HOH . ? A HOH 251 ? 1_555 89.5 ? 53 O ? L HOH . ? A HOH 244 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? L HOH . ? A HOH 251 ? 1_555 88.6 ? 54 O ? L HOH . ? A HOH 229 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 214 ? 1_555 83.3 ? 55 O ? L HOH . ? A HOH 244 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 214 ? 1_555 88.5 ? 56 O ? L HOH . ? A HOH 251 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 214 ? 1_555 172.4 ? 57 O ? L HOH . ? A HOH 229 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 221 ? 1_555 173.6 ? 58 O ? L HOH . ? A HOH 244 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 221 ? 1_555 89.1 ? 59 O ? L HOH . ? A HOH 251 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 221 ? 1_555 95.5 ? 60 O ? M HOH . ? B HOH 214 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 221 ? 1_555 91.5 ? 61 O ? L HOH . ? A HOH 229 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 233 ? 1_555 95.8 ? 62 O ? L HOH . ? A HOH 244 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 233 ? 1_555 174.2 ? 63 O ? L HOH . ? A HOH 251 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 233 ? 1_555 86.4 ? 64 O ? M HOH . ? B HOH 214 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 233 ? 1_555 96.8 ? 65 O ? M HOH . ? B HOH 221 ? 1_555 MG ? I MG . ? B MG 103 ? 1_555 O ? M HOH . ? B HOH 233 ? 1_555 88.6 ? 66 O ? L HOH . ? A HOH 247 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 203 ? 1_555 89.8 ? 67 O ? L HOH . ? A HOH 247 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 213 ? 1_555 101.1 ? 68 O ? M HOH . ? B HOH 203 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 213 ? 1_555 117.6 ? 69 O ? L HOH . ? A HOH 247 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 218 ? 1_555 171.8 ? 70 O ? M HOH . ? B HOH 203 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 218 ? 1_555 94.0 ? 71 O ? M HOH . ? B HOH 213 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 218 ? 1_555 83.6 ? 72 O ? L HOH . ? A HOH 247 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 263 ? 1_555 89.9 ? 73 O ? M HOH . ? B HOH 203 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 263 ? 1_555 166.6 ? 74 O ? M HOH . ? B HOH 213 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 263 ? 1_555 75.6 ? 75 O ? M HOH . ? B HOH 218 ? 1_555 MG ? J MG . ? B MG 104 ? 1_555 O ? M HOH . ? B HOH 263 ? 1_555 84.7 ? 76 O ? M HOH . ? B HOH 201 ? 1_555 MG ? K MG . ? B MG 105 ? 1_555 O ? M HOH . ? B HOH 228 ? 1_555 89.0 ? 77 O ? M HOH . ? B HOH 201 ? 1_555 MG ? K MG . ? B MG 105 ? 1_555 O ? M HOH . ? B HOH 260 ? 1_555 168.0 ? 78 O ? M HOH . ? B HOH 228 ? 1_555 MG ? K MG . ? B MG 105 ? 1_555 O ? M HOH . ? B HOH 260 ? 1_555 93.9 ? 79 O ? M HOH . ? B HOH 201 ? 1_555 MG ? K MG . ? B MG 105 ? 1_555 O ? M HOH . ? B HOH 264 ? 1_555 114.1 ? 80 O ? M HOH . ? B HOH 228 ? 1_555 MG ? K MG . ? B MG 105 ? 1_555 O ? M HOH . ? B HOH 264 ? 1_555 106.1 ? 81 O ? M HOH . ? B HOH 260 ? 1_555 MG ? K MG . ? B MG 105 ? 1_555 O ? M HOH . ? B HOH 264 ? 1_555 76.3 ? # _pdbx_entry_details.entry_id 9YD4 _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 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O B HOH 212 ? ? O B HOH 246 ? ? 2.07 2 1 N7 A DG 15 ? ? O A HOH 201 ? ? 2.14 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 O B HOH 202 ? ? 1_555 O B HOH 202 ? ? 6_555 1.89 2 1 OP1 B DG 15 ? ? 1_555 "O3'" A A1CWA 101 ? ? 2_565 2.17 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 B _pdbx_validate_rmsd_bond.auth_comp_id_1 LKC _pdbx_validate_rmsd_bond.auth_seq_id_1 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 P _pdbx_validate_rmsd_bond.auth_asym_id_2 B _pdbx_validate_rmsd_bond.auth_comp_id_2 LCC _pdbx_validate_rmsd_bond.auth_seq_id_2 2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.683 _pdbx_validate_rmsd_bond.bond_target_value 1.607 _pdbx_validate_rmsd_bond.bond_deviation 0.076 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.012 _pdbx_validate_rmsd_bond.linker_flag Y # 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 "C3'" A LKC 1 ? ? "O3'" A LKC 1 ? ? P A LCC 2 ? ? 128.23 119.70 8.53 1.20 Y 2 1 "O3'" A C 6 ? ? P A U 7 ? ? OP2 A U 7 ? ? 117.62 110.50 7.12 1.10 Y 3 1 "O5'" A U 8 ? ? P A U 8 ? ? OP2 A U 8 ? ? 99.43 105.70 -6.27 0.90 N 4 1 "O5'" B U 8 ? ? P B U 8 ? ? OP2 B U 8 ? ? 99.35 105.70 -6.35 0.90 N # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 205 ? L HOH . 2 1 A HOH 248 ? L HOH . 3 1 B HOH 250 ? M HOH . 4 1 B HOH 257 ? M HOH . 5 1 B HOH 258 ? M HOH . # 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 A1CWA "C2'" C N N 38 A1CWA "C1'" C N R 39 A1CWA C2 C N N 40 A1CWA C4 C Y N 41 A1CWA "C5'" C N N 42 A1CWA "O5'" O N N 43 A1CWA C6 C N N 44 A1CWA C11 C Y N 45 A1CWA O6 O N N 46 A1CWA N1 N N N 47 A1CWA N2 N N N 48 A1CWA N3 N N N 49 A1CWA C5 C Y N 50 A1CWA N7 N Y N 51 A1CWA C8 C Y N 52 A1CWA N9 N Y N 53 A1CWA "O4'" O N N 54 A1CWA "C3'" C N S 55 A1CWA "O3'" O N N 56 A1CWA "C4'" C N R 57 A1CWA P1 P N N 58 A1CWA O1 O N N 59 A1CWA O2 O N N 60 A1CWA N10 N Y N 61 A1CWA C12 C Y N 62 A1CWA N13 N Y N 63 A1CWA C14 C Y N 64 A1CWA N14 N N N 65 A1CWA "H2'" H N N 66 A1CWA "H2''" H N N 67 A1CWA "H1'" H N N 68 A1CWA "H5'" H N N 69 A1CWA "H5''" H N N 70 A1CWA H11 H N N 71 A1CWA H1 H N N 72 A1CWA HN21 H N N 73 A1CWA HN22 H N N 74 A1CWA H8 H N N 75 A1CWA "H3'" H N N 76 A1CWA "HO3'" H N N 77 A1CWA "H4'" H N N 78 A1CWA H2 H N N 79 A1CWA H12 H N N 80 A1CWA H141 H N N 81 A1CWA H142 H N N 82 C OP3 O N N 83 C P P N N 84 C OP1 O N N 85 C OP2 O N N 86 C "O5'" O N N 87 C "C5'" C N N 88 C "C4'" C N R 89 C "O4'" O N N 90 C "C3'" C N S 91 C "O3'" O N N 92 C "C2'" C N R 93 C "O2'" O N N 94 C "C1'" C N R 95 C N1 N N N 96 C C2 C N N 97 C O2 O N N 98 C N3 N N N 99 C C4 C N N 100 C N4 N N N 101 C C5 C N N 102 C C6 C N N 103 C HOP3 H N N 104 C HOP2 H N N 105 C "H5'" H N N 106 C "H5''" H N N 107 C "H4'" H N N 108 C "H3'" H N N 109 C "HO3'" H N N 110 C "H2'" H N N 111 C "HO2'" H N N 112 C "H1'" H N N 113 C H41 H N N 114 C H42 H N N 115 C H5 H N N 116 C H6 H N N 117 DG OP3 O N N 118 DG P P N N 119 DG OP1 O N N 120 DG OP2 O N N 121 DG "O5'" O N N 122 DG "C5'" C N N 123 DG "C4'" C N R 124 DG "O4'" O N N 125 DG "C3'" C N S 126 DG "O3'" O N N 127 DG "C2'" C N N 128 DG "C1'" C N R 129 DG N9 N Y N 130 DG C8 C Y N 131 DG N7 N Y N 132 DG C5 C Y N 133 DG C6 C N N 134 DG O6 O N N 135 DG N1 N N N 136 DG C2 C N N 137 DG N2 N N N 138 DG N3 N N N 139 DG C4 C Y N 140 DG HOP3 H N N 141 DG HOP2 H N N 142 DG "H5'" H N N 143 DG "H5''" H N N 144 DG "H4'" H N N 145 DG "H3'" H N N 146 DG "HO3'" H N N 147 DG "H2'" H N N 148 DG "H2''" H N N 149 DG "H1'" H N N 150 DG H8 H N N 151 DG H1 H N N 152 DG H21 H N N 153 DG H22 H N N 154 G OP3 O N N 155 G P P N N 156 G OP1 O N N 157 G OP2 O N N 158 G "O5'" O N N 159 G "C5'" C N N 160 G "C4'" C N R 161 G "O4'" O N N 162 G "C3'" C N S 163 G "O3'" O N N 164 G "C2'" C N R 165 G "O2'" O N N 166 G "C1'" C N R 167 G N9 N Y N 168 G C8 C Y N 169 G N7 N Y N 170 G C5 C Y N 171 G C6 C N N 172 G O6 O N N 173 G N1 N N N 174 G C2 C N N 175 G N2 N N N 176 G N3 N N N 177 G C4 C Y N 178 G HOP3 H N N 179 G HOP2 H N N 180 G "H5'" H N N 181 G "H5''" H N N 182 G "H4'" H N N 183 G "H3'" H N N 184 G "HO3'" H N N 185 G "H2'" H N N 186 G "HO2'" H N N 187 G "H1'" H N N 188 G H8 H N N 189 G H1 H N N 190 G H21 H N N 191 G H22 H N N 192 HOH O O N N 193 HOH H1 H N N 194 HOH H2 H N N 195 LCC "O5'" O N N 196 LCC "C5'" C N N 197 LCC "C4'" C N R 198 LCC "O4'" O N N 199 LCC "C1'" C N R 200 LCC N1 N N N 201 LCC C6 C N N 202 LCC C5 C N N 203 LCC C5M C N N 204 LCC C4 C N N 205 LCC N4 N N N 206 LCC N3 N N N 207 LCC C2 C N N 208 LCC O2 O N N 209 LCC "C3'" C N S 210 LCC "C2'" C N R 211 LCC "O2'" O N N 212 LCC "O3'" O N N 213 LCC "C6'" C N N 214 LCC P P N N 215 LCC O1P O N N 216 LCC O2P O N N 217 LCC OXT O N N 218 LCC "H5'1" H N N 219 LCC "H5'2" H N N 220 LCC "H1'" H N N 221 LCC H6 H N N 222 LCC H5M1 H N N 223 LCC H5M2 H N N 224 LCC H5M3 H N N 225 LCC H41 H N N 226 LCC H42 H N N 227 LCC "H3'" H N N 228 LCC "H2'1" H N N 229 LCC H3T H N N 230 LCC "H6'1" H N N 231 LCC "H6'2" H N N 232 LCC H1P H N N 233 LCC HXT H N N 234 LCG P P N N 235 LCG OP1 O N N 236 LCG "O5'" O N N 237 LCG "C5'" C N N 238 LCG "C3'" C N S 239 LCG "C6'" C N N 240 LCG N9 N Y N 241 LCG C8 C Y N 242 LCG C4 C Y N 243 LCG N7 N Y N 244 LCG C5 C Y N 245 LCG C6 C N N 246 LCG "C2'" C N R 247 LCG O6 O N N 248 LCG "C4'" C N R 249 LCG "C1'" C N R 250 LCG C2 C N N 251 LCG N1 N N N 252 LCG "O4'" O N N 253 LCG OP2 O N N 254 LCG N2 N N N 255 LCG N3 N N N 256 LCG "O2'" O N N 257 LCG "O3'" O N N 258 LCG OP3 O N N 259 LCG "H5'" H N N 260 LCG "H5''" H N N 261 LCG "H3'" H N N 262 LCG "H6'1" H N N 263 LCG "H6'2" H N N 264 LCG H8 H N N 265 LCG "H2'" H N N 266 LCG "H1'" H N N 267 LCG H1 H N N 268 LCG HOP2 H N N 269 LCG H21 H N N 270 LCG H22 H N N 271 LCG "HO3'" H N N 272 LCG HOP3 H N N 273 LKC N1 N N N 274 LKC C2 C N N 275 LKC N3 N N N 276 LKC C4 C N N 277 LKC C5 C N N 278 LKC C6 C N N 279 LKC O2 O N N 280 LKC N4 N N N 281 LKC "C1'" C N R 282 LKC "C2'" C N R 283 LKC "C3'" C N S 284 LKC "C4'" C N S 285 LKC "O4'" O N N 286 LKC "O3'" O N N 287 LKC "C5'" C N N 288 LKC "O5'" O N N 289 LKC C5A C N N 290 LKC "O2'" O N N 291 LKC "C6'" C N N 292 LKC H6 H N N 293 LKC H41 H N N 294 LKC H42 H N N 295 LKC "H1'" H N N 296 LKC "H2'1" H N N 297 LKC "H3'" H N N 298 LKC H3T H N N 299 LKC "H5'1" H N N 300 LKC "H5'2" H N N 301 LKC H5T H N N 302 LKC H5M1 H N N 303 LKC H5M2 H N N 304 LKC H5M3 H N N 305 LKC "H6'1" H N N 306 LKC "H6'2" H N N 307 MG MG MG N N 308 U OP3 O N N 309 U P P N N 310 U OP1 O N N 311 U OP2 O N N 312 U "O5'" O N N 313 U "C5'" C N N 314 U "C4'" C N R 315 U "O4'" O N N 316 U "C3'" C N S 317 U "O3'" O N N 318 U "C2'" C N R 319 U "O2'" O N N 320 U "C1'" C N R 321 U N1 N N N 322 U C2 C N N 323 U O2 O N N 324 U N3 N N N 325 U C4 C N N 326 U O4 O N N 327 U C5 C N N 328 U C6 C N N 329 U HOP3 H N N 330 U HOP2 H N N 331 U "H5'" H N N 332 U "H5''" H N N 333 U "H4'" H N N 334 U "H3'" H N N 335 U "HO3'" H N N 336 U "H2'" H N N 337 U "HO2'" H N N 338 U "H1'" H N N 339 U H3 H N N 340 U H5 H N N 341 U H6 H N N 342 # 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 A1CWA C6 O6 doub N N 40 A1CWA C6 N1 sing N N 41 A1CWA C6 C5 sing N N 42 A1CWA C2 N1 sing N N 43 A1CWA C2 N2 sing N N 44 A1CWA C2 N3 doub N N 45 A1CWA C4 N3 sing N N 46 A1CWA C4 C5 doub Y N 47 A1CWA C4 N9 sing Y N 48 A1CWA C5 N7 sing Y N 49 A1CWA C8 N7 doub Y N 50 A1CWA N9 C8 sing Y N 51 A1CWA "C1'" N9 sing N N 52 A1CWA "C1'" "O4'" sing N N 53 A1CWA "C1'" "C2'" sing N N 54 A1CWA "C4'" "O4'" sing N N 55 A1CWA "C3'" "C2'" sing N N 56 A1CWA "C3'" "O3'" sing N N 57 A1CWA "C3'" "C4'" sing N N 58 A1CWA "C4'" "C5'" sing N N 59 A1CWA "C5'" "O5'" sing N N 60 A1CWA P1 "O5'" sing N N 61 A1CWA P1 O1 doub N N 62 A1CWA P1 O2 sing N N 63 A1CWA N10 P1 sing N N 64 A1CWA N10 C11 sing Y N 65 A1CWA N10 C14 sing Y N 66 A1CWA C11 C12 doub Y N 67 A1CWA C12 N13 sing Y N 68 A1CWA C14 N13 doub Y N 69 A1CWA C14 N14 sing N N 70 A1CWA "C2'" "H2'" sing N N 71 A1CWA "C2'" "H2''" sing N N 72 A1CWA "C1'" "H1'" sing N N 73 A1CWA "C5'" "H5'" sing N N 74 A1CWA "C5'" "H5''" sing N N 75 A1CWA C11 H11 sing N N 76 A1CWA N1 H1 sing N N 77 A1CWA N2 HN21 sing N N 78 A1CWA N2 HN22 sing N N 79 A1CWA C8 H8 sing N N 80 A1CWA "C3'" "H3'" sing N N 81 A1CWA "O3'" "HO3'" sing N N 82 A1CWA "C4'" "H4'" sing N N 83 A1CWA O2 H2 sing N N 84 A1CWA C12 H12 sing N N 85 A1CWA N14 H141 sing N N 86 A1CWA N14 H142 sing N N 87 C OP3 P sing N N 88 C OP3 HOP3 sing N N 89 C P OP1 doub N N 90 C P OP2 sing N N 91 C P "O5'" sing N N 92 C OP2 HOP2 sing N N 93 C "O5'" "C5'" sing N N 94 C "C5'" "C4'" sing N N 95 C "C5'" "H5'" sing N N 96 C "C5'" "H5''" sing N N 97 C "C4'" "O4'" sing N N 98 C "C4'" "C3'" sing N N 99 C "C4'" "H4'" sing N N 100 C "O4'" "C1'" sing N N 101 C "C3'" "O3'" sing N N 102 C "C3'" "C2'" sing N N 103 C "C3'" "H3'" sing N N 104 C "O3'" "HO3'" sing N N 105 C "C2'" "O2'" sing N N 106 C "C2'" "C1'" sing N N 107 C "C2'" "H2'" sing N N 108 C "O2'" "HO2'" sing N N 109 C "C1'" N1 sing N N 110 C "C1'" "H1'" sing N N 111 C N1 C2 sing N N 112 C N1 C6 sing N N 113 C C2 O2 doub N N 114 C C2 N3 sing N N 115 C N3 C4 doub N N 116 C C4 N4 sing N N 117 C C4 C5 sing N N 118 C N4 H41 sing N N 119 C N4 H42 sing N N 120 C C5 C6 doub N N 121 C C5 H5 sing N N 122 C C6 H6 sing N N 123 DG OP3 P sing N N 124 DG OP3 HOP3 sing N N 125 DG P OP1 doub N N 126 DG P OP2 sing N N 127 DG P "O5'" sing N N 128 DG OP2 HOP2 sing N N 129 DG "O5'" "C5'" sing N N 130 DG "C5'" "C4'" sing N N 131 DG "C5'" "H5'" sing N N 132 DG "C5'" "H5''" sing N N 133 DG "C4'" "O4'" sing N N 134 DG "C4'" "C3'" sing N N 135 DG "C4'" "H4'" sing N N 136 DG "O4'" "C1'" sing N N 137 DG "C3'" "O3'" sing N N 138 DG "C3'" "C2'" sing N N 139 DG "C3'" "H3'" sing N N 140 DG "O3'" "HO3'" sing N N 141 DG "C2'" "C1'" sing N N 142 DG "C2'" "H2'" sing N N 143 DG "C2'" "H2''" sing N N 144 DG "C1'" N9 sing N N 145 DG "C1'" "H1'" sing N N 146 DG N9 C8 sing Y N 147 DG N9 C4 sing Y N 148 DG C8 N7 doub Y N 149 DG C8 H8 sing N N 150 DG N7 C5 sing Y N 151 DG C5 C6 sing N N 152 DG C5 C4 doub Y N 153 DG C6 O6 doub N N 154 DG C6 N1 sing N N 155 DG N1 C2 sing N N 156 DG N1 H1 sing N N 157 DG C2 N2 sing N N 158 DG C2 N3 doub N N 159 DG N2 H21 sing N N 160 DG N2 H22 sing N N 161 DG N3 C4 sing N N 162 G OP3 P sing N N 163 G OP3 HOP3 sing N N 164 G P OP1 doub N N 165 G P OP2 sing N N 166 G P "O5'" sing N N 167 G OP2 HOP2 sing N N 168 G "O5'" "C5'" sing N N 169 G "C5'" "C4'" sing N N 170 G "C5'" "H5'" sing N N 171 G "C5'" "H5''" sing N N 172 G "C4'" "O4'" sing N N 173 G "C4'" "C3'" sing N N 174 G "C4'" "H4'" sing N N 175 G "O4'" "C1'" sing N N 176 G "C3'" "O3'" sing N N 177 G "C3'" "C2'" sing N N 178 G "C3'" "H3'" sing N N 179 G "O3'" "HO3'" sing N N 180 G "C2'" "O2'" sing N N 181 G "C2'" "C1'" sing N N 182 G "C2'" "H2'" sing N N 183 G "O2'" "HO2'" sing N N 184 G "C1'" N9 sing N N 185 G "C1'" "H1'" sing N N 186 G N9 C8 sing Y N 187 G N9 C4 sing Y N 188 G C8 N7 doub Y N 189 G C8 H8 sing N N 190 G N7 C5 sing Y N 191 G C5 C6 sing N N 192 G C5 C4 doub Y N 193 G C6 O6 doub N N 194 G C6 N1 sing N N 195 G N1 C2 sing N N 196 G N1 H1 sing N N 197 G C2 N2 sing N N 198 G C2 N3 doub N N 199 G N2 H21 sing N N 200 G N2 H22 sing N N 201 G N3 C4 sing N N 202 HOH O H1 sing N N 203 HOH O H2 sing N N 204 LCC "O5'" "C5'" sing N N 205 LCC "O5'" P sing N N 206 LCC "C5'" "C4'" sing N N 207 LCC "C5'" "H5'1" sing N N 208 LCC "C5'" "H5'2" sing N N 209 LCC "C4'" "O4'" sing N N 210 LCC "C4'" "C3'" sing N N 211 LCC "C4'" "C6'" sing N N 212 LCC "O4'" "C1'" sing N N 213 LCC "C1'" N1 sing N N 214 LCC "C1'" "C2'" sing N N 215 LCC "C1'" "H1'" sing N N 216 LCC N1 C6 sing N N 217 LCC N1 C2 sing N N 218 LCC C6 C5 doub N N 219 LCC C6 H6 sing N N 220 LCC C5 C5M sing N N 221 LCC C5 C4 sing N N 222 LCC C5M H5M1 sing N N 223 LCC C5M H5M2 sing N N 224 LCC C5M H5M3 sing N N 225 LCC C4 N4 sing N N 226 LCC C4 N3 doub N N 227 LCC N4 H41 sing N N 228 LCC N4 H42 sing N N 229 LCC N3 C2 sing N N 230 LCC C2 O2 doub N N 231 LCC "C3'" "C2'" sing N N 232 LCC "C3'" "O3'" sing N N 233 LCC "C3'" "H3'" sing N N 234 LCC "C2'" "O2'" sing N N 235 LCC "C2'" "H2'1" sing N N 236 LCC "O2'" "C6'" sing N N 237 LCC "O3'" H3T sing N N 238 LCC "C6'" "H6'1" sing N N 239 LCC "C6'" "H6'2" sing N N 240 LCC P O1P sing N N 241 LCC P O2P doub N N 242 LCC P OXT sing N N 243 LCC O1P H1P sing N N 244 LCC OXT HXT sing N N 245 LCG P OP1 doub N N 246 LCG P "O5'" sing N N 247 LCG P OP2 sing N N 248 LCG P OP3 sing N N 249 LCG "O5'" "C5'" sing N N 250 LCG "C5'" "C4'" sing N N 251 LCG "C5'" "H5'" sing N N 252 LCG "C5'" "H5''" sing N N 253 LCG "C3'" "C2'" sing N N 254 LCG "C3'" "C4'" sing N N 255 LCG "C3'" "O3'" sing N N 256 LCG "C3'" "H3'" sing N N 257 LCG "C6'" "C4'" sing N N 258 LCG "C6'" "O2'" sing N N 259 LCG "C6'" "H6'1" sing N N 260 LCG "C6'" "H6'2" sing N N 261 LCG N9 C8 sing Y N 262 LCG N9 C4 sing Y N 263 LCG N9 "C1'" sing N N 264 LCG C8 N7 doub Y N 265 LCG C8 H8 sing N N 266 LCG C4 C5 doub Y N 267 LCG C4 N3 sing N N 268 LCG N7 C5 sing Y N 269 LCG C5 C6 sing N N 270 LCG C6 O6 doub N N 271 LCG C6 N1 sing N N 272 LCG "C2'" "C1'" sing N N 273 LCG "C2'" "O2'" sing N N 274 LCG "C2'" "H2'" sing N N 275 LCG "C4'" "O4'" sing N N 276 LCG "C1'" "O4'" sing N N 277 LCG "C1'" "H1'" sing N N 278 LCG C2 N1 sing N N 279 LCG C2 N2 sing N N 280 LCG C2 N3 doub N N 281 LCG N1 H1 sing N N 282 LCG OP2 HOP2 sing N N 283 LCG N2 H21 sing N N 284 LCG N2 H22 sing N N 285 LCG "O3'" "HO3'" sing N N 286 LCG OP3 HOP3 sing N N 287 LKC N1 C2 sing N N 288 LKC N1 C6 sing N N 289 LKC N1 "C1'" sing N N 290 LKC C2 N3 sing N N 291 LKC C2 O2 doub N N 292 LKC N3 C4 doub N N 293 LKC C4 C5 sing N N 294 LKC C4 N4 sing N N 295 LKC C5 C6 doub N N 296 LKC C5 C5A sing N N 297 LKC C6 H6 sing N N 298 LKC N4 H41 sing N N 299 LKC N4 H42 sing N N 300 LKC "C1'" "C2'" sing N N 301 LKC "C1'" "O4'" sing N N 302 LKC "C1'" "H1'" sing N N 303 LKC "C2'" "C3'" sing N N 304 LKC "C2'" "O2'" sing N N 305 LKC "C2'" "H2'1" sing N N 306 LKC "C3'" "C4'" sing N N 307 LKC "C3'" "O3'" sing N N 308 LKC "C3'" "H3'" sing N N 309 LKC "C4'" "O4'" sing N N 310 LKC "C4'" "C5'" sing N N 311 LKC "C4'" "C6'" sing N N 312 LKC "O3'" H3T sing N N 313 LKC "C5'" "O5'" sing N N 314 LKC "C5'" "H5'1" sing N N 315 LKC "C5'" "H5'2" sing N N 316 LKC "O5'" H5T sing N N 317 LKC C5A H5M1 sing N N 318 LKC C5A H5M2 sing N N 319 LKC C5A H5M3 sing N N 320 LKC "O2'" "C6'" sing N N 321 LKC "C6'" "H6'1" sing N N 322 LKC "C6'" "H6'2" sing N N 323 U OP3 P sing N N 324 U OP3 HOP3 sing N N 325 U P OP1 doub N N 326 U P OP2 sing N N 327 U P "O5'" sing N N 328 U OP2 HOP2 sing N N 329 U "O5'" "C5'" sing N N 330 U "C5'" "C4'" sing N N 331 U "C5'" "H5'" sing N N 332 U "C5'" "H5''" sing N N 333 U "C4'" "O4'" sing N N 334 U "C4'" "C3'" sing N N 335 U "C4'" "H4'" sing N N 336 U "O4'" "C1'" sing N N 337 U "C3'" "O3'" sing N N 338 U "C3'" "C2'" sing N N 339 U "C3'" "H3'" sing N N 340 U "O3'" "HO3'" sing N N 341 U "C2'" "O2'" sing N N 342 U "C2'" "C1'" sing N N 343 U "C2'" "H2'" sing N N 344 U "O2'" "HO2'" sing N N 345 U "C1'" N1 sing N N 346 U "C1'" "H1'" sing N N 347 U N1 C2 sing N N 348 U N1 C6 sing N N 349 U C2 O2 doub N N 350 U C2 N3 sing N N 351 U N3 C4 sing N N 352 U N3 H3 sing N N 353 U C4 O4 doub N N 354 U C4 C5 sing N N 355 U C5 C6 doub N N 356 U C5 H5 sing N N 357 U C6 H6 sing N N 358 # _ndb_struct_conf_na.entry_id 9YD4 _ndb_struct_conf_na.feature 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A LCG 4 1_555 B C 13 1_555 -0.208 -0.112 0.034 -4.472 -17.100 0.467 1 A_LCG4:C13_B A 4 ? B 13 ? 19 1 1 A A 5 1_555 B U 12 1_555 -0.241 -0.077 0.057 2.129 -9.700 -5.722 2 A_A5:U12_B A 5 ? B 12 ? 20 1 1 A C 6 1_555 B G 11 1_555 0.218 -0.265 0.022 7.972 -15.980 -2.487 3 A_C6:G11_B A 6 ? B 11 ? 19 1 1 A U 7 1_555 B A 10 1_555 -0.165 -0.129 0.038 2.822 -14.869 -1.269 4 A_U7:A10_B A 7 ? B 10 ? 20 1 1 A U 8 1_555 B A 9 1_555 -0.198 -0.037 -0.225 2.861 -11.196 4.244 5 A_U8:A9_B A 8 ? B 9 ? 20 1 1 A A 9 1_555 B U 8 1_555 0.239 -0.172 -0.003 -0.426 -13.675 0.975 6 A_A9:U8_B A 9 ? B 8 ? 20 1 1 A A 10 1_555 B U 7 1_555 0.214 -0.136 0.006 0.693 -16.777 -0.711 7 A_A10:U7_B A 10 ? B 7 ? 20 1 1 A G 11 1_555 B C 6 1_555 -0.256 -0.222 0.019 -8.427 -15.020 -1.594 8 A_G11:C6_B A 11 ? B 6 ? 19 1 1 A U 12 1_555 B A 5 1_555 0.091 -0.078 0.005 -2.144 -10.124 -4.949 9 A_U12:A5_B A 12 ? B 5 ? 20 1 1 A C 13 1_555 B LCG 4 1_555 0.267 -0.091 0.107 2.814 -15.873 0.917 10 A_C13:LCG4_B A 13 ? B 4 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A LCG 4 1_555 B C 13 1_555 A A 5 1_555 B U 12 1_555 -0.532 -1.294 3.126 -2.075 3.911 30.430 -3.159 0.622 2.969 7.401 3.927 30.743 1 AA_LCG4A5:U12C13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A A 5 1_555 B U 12 1_555 A C 6 1_555 B G 11 1_555 0.618 -1.423 3.131 1.032 3.867 34.510 -2.937 -0.888 2.976 6.491 -1.732 34.735 2 AA_A5C6:G11U12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A C 6 1_555 B G 11 1_555 A U 7 1_555 B A 10 1_555 -0.063 -1.810 3.377 -1.538 10.043 29.361 -5.208 -0.162 2.630 19.107 2.926 31.032 3 AA_C6U7:A10G11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A U 7 1_555 B A 10 1_555 A U 8 1_555 B A 9 1_555 -0.014 -1.274 3.188 1.323 10.748 29.371 -4.215 0.254 2.570 20.346 -2.504 31.262 4 AA_U7U8:A9A10_BB A 7 ? B 10 ? A 8 ? B 9 ? 1 A U 8 1_555 B A 9 1_555 A A 9 1_555 B U 8 1_555 -0.140 -1.000 3.332 -1.168 18.895 35.206 -3.552 0.076 2.502 28.813 1.781 39.831 5 AA_U8A9:U8A9_BB A 8 ? B 9 ? A 9 ? B 8 ? 1 A A 9 1_555 B U 8 1_555 A A 10 1_555 B U 7 1_555 0.181 -1.329 3.221 1.174 10.096 29.622 -4.225 -0.131 2.641 19.054 -2.215 31.280 6 AA_A9A10:U7U8_BB A 9 ? B 8 ? A 10 ? B 7 ? 1 A A 10 1_555 B U 7 1_555 A G 11 1_555 B C 6 1_555 0.155 -1.757 3.460 0.773 11.605 29.074 -5.370 -0.147 2.589 22.036 -1.468 31.267 7 AA_A10G11:C6U7_BB A 10 ? B 7 ? A 11 ? B 6 ? 1 A G 11 1_555 B C 6 1_555 A U 12 1_555 B A 5 1_555 -0.706 -1.396 3.122 -0.817 3.959 34.330 -2.920 1.070 2.963 6.679 1.379 34.560 8 AA_G11U12:A5C6_BB A 11 ? B 6 ? A 12 ? B 5 ? 1 A U 12 1_555 B A 5 1_555 A C 13 1_555 B LCG 4 1_555 0.540 -1.280 3.181 0.700 3.932 31.296 -3.049 -0.869 3.013 7.251 -1.291 31.543 9 AA_U12C13:LCG4A5_BB A 12 ? B 5 ? A 13 ? B 4 ? # 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' 2104708 1 'Howard Hughes Medical Institute (HHMI)' 'United States' ? 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 6C8O _pdbx_initial_refinement_model.details ? # _atom_sites.entry_id 9YD4 _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] 0.020724 _atom_sites.fract_transf_matrix[1][2] 0.011965 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.023930 _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] 0.012117 _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.pdbx_scat_Z _atom_type.pdbx_N_electrons _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c C 6 6 2.3103 20.8439 1.0201 10.2075 1.5888 0.5687 0.8651 51.6512 0.2156 H 1 1 0.4930 10.5109 0.3229 26.1257 0.1402 3.1424 0.0408 57.7997 0.0030 MG 12 12 5.4265 2.8275 2.1759 79.2611 1.2283 0.3808 2.3099 7.1937 0.8594 N 7 7 12.2220 0.0057 3.1346 9.8933 2.0141 28.9975 1.1672 0.5826 -11.5379 O 8 8 3.0487 13.2771 2.2870 5.7011 1.5464 0.3239 0.8671 32.9089 0.2508 P 15 15 6.4348 1.9067 4.1793 27.1570 1.7801 0.5260 1.4909 68.1645 1.1150 # loop_ #