data_9YD3 # _entry.id 9YD3 # _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 9YD3 pdb_00009yd3 10.2210/pdb9yd3/pdb WWPDB D_1000300302 ? ? # 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 9YD3 _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 Y # _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 ;RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*GP*G)-3') ; 4858.010 2 ? ? ? ? 2 non-polymer syn "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" 428.297 2 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 9 ? ? ? ? 4 water nat water 18.015 132 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(LCC)(LCC)(LCC)(LCG)ACUUAAGUCGG' _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 "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" EQ4 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 LCC 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 G 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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 EQ4 'RNA linking' n "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" ? 'C13 H17 N8 O7 P' 428.297 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 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 LCC 1 1 1 LCC 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 G 15 15 15 G G A . n B 1 1 LCC 1 1 1 LCC 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 G 15 15 15 G G B . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id EQ4 _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id EQ4 _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 EQ4 1 101 101 EQ4 EQ4 A . D 3 MG 1 102 1 MG MG A . E 3 MG 1 103 3 MG MG A . F 3 MG 1 104 6 MG MG A . G 3 MG 1 105 7 MG MG A . H 3 MG 1 106 9 MG MG A . I 2 EQ4 1 101 101 EQ4 EQ4 B . J 3 MG 1 102 2 MG MG B . K 3 MG 1 103 4 MG MG B . L 3 MG 1 104 5 MG MG B . M 3 MG 1 105 8 MG MG B . N 4 HOH 1 201 29 HOH HOH A . N 4 HOH 2 202 86 HOH HOH A . N 4 HOH 3 203 80 HOH HOH A . N 4 HOH 4 204 121 HOH HOH A . N 4 HOH 5 205 25 HOH HOH A . N 4 HOH 6 206 130 HOH HOH A . N 4 HOH 7 207 59 HOH HOH A . N 4 HOH 8 208 82 HOH HOH A . N 4 HOH 9 209 79 HOH HOH A . N 4 HOH 10 210 39 HOH HOH A . N 4 HOH 11 211 74 HOH HOH A . N 4 HOH 12 212 83 HOH HOH A . N 4 HOH 13 213 77 HOH HOH A . N 4 HOH 14 214 1 HOH HOH A . N 4 HOH 15 215 3 HOH HOH A . N 4 HOH 16 216 27 HOH HOH A . N 4 HOH 17 217 84 HOH HOH A . N 4 HOH 18 218 21 HOH HOH A . N 4 HOH 19 219 129 HOH HOH A . N 4 HOH 20 220 94 HOH HOH A . N 4 HOH 21 221 43 HOH HOH A . N 4 HOH 22 222 32 HOH HOH A . N 4 HOH 23 223 26 HOH HOH A . N 4 HOH 24 224 35 HOH HOH A . N 4 HOH 25 225 109 HOH HOH A . N 4 HOH 26 226 28 HOH HOH A . N 4 HOH 27 227 38 HOH HOH A . N 4 HOH 28 228 12 HOH HOH A . N 4 HOH 29 229 104 HOH HOH A . N 4 HOH 30 230 34 HOH HOH A . N 4 HOH 31 231 30 HOH HOH A . N 4 HOH 32 232 60 HOH HOH A . N 4 HOH 33 233 41 HOH HOH A . N 4 HOH 34 234 47 HOH HOH A . N 4 HOH 35 235 111 HOH HOH A . N 4 HOH 36 236 98 HOH HOH A . N 4 HOH 37 237 45 HOH HOH A . N 4 HOH 38 238 14 HOH HOH A . N 4 HOH 39 239 46 HOH HOH A . N 4 HOH 40 240 112 HOH HOH A . N 4 HOH 41 241 11 HOH HOH A . N 4 HOH 42 242 56 HOH HOH A . N 4 HOH 43 243 99 HOH HOH A . N 4 HOH 44 244 103 HOH HOH A . N 4 HOH 45 245 42 HOH HOH A . N 4 HOH 46 246 57 HOH HOH A . N 4 HOH 47 247 31 HOH HOH A . N 4 HOH 48 248 107 HOH HOH A . N 4 HOH 49 249 44 HOH HOH A . N 4 HOH 50 250 120 HOH HOH A . N 4 HOH 51 251 133 HOH HOH A . N 4 HOH 52 252 95 HOH HOH A . N 4 HOH 53 253 106 HOH HOH A . N 4 HOH 54 254 105 HOH HOH A . N 4 HOH 55 255 132 HOH HOH A . N 4 HOH 56 256 91 HOH HOH A . N 4 HOH 57 257 7 HOH HOH A . N 4 HOH 58 258 125 HOH HOH A . N 4 HOH 59 259 87 HOH HOH A . N 4 HOH 60 260 100 HOH HOH A . N 4 HOH 61 261 97 HOH HOH A . N 4 HOH 62 262 4 HOH HOH A . N 4 HOH 63 263 124 HOH HOH A . N 4 HOH 64 264 92 HOH HOH A . N 4 HOH 65 265 81 HOH HOH A . N 4 HOH 66 266 126 HOH HOH A . N 4 HOH 67 267 78 HOH HOH A . O 4 HOH 1 201 116 HOH HOH B . O 4 HOH 2 202 108 HOH HOH B . O 4 HOH 3 203 53 HOH HOH B . O 4 HOH 4 204 117 HOH HOH B . O 4 HOH 5 205 61 HOH HOH B . O 4 HOH 6 206 68 HOH HOH B . O 4 HOH 7 207 65 HOH HOH B . O 4 HOH 8 208 48 HOH HOH B . O 4 HOH 9 209 66 HOH HOH B . O 4 HOH 10 210 90 HOH HOH B . O 4 HOH 11 211 101 HOH HOH B . O 4 HOH 12 212 9 HOH HOH B . O 4 HOH 13 213 127 HOH HOH B . O 4 HOH 14 214 50 HOH HOH B . O 4 HOH 15 215 13 HOH HOH B . O 4 HOH 16 216 16 HOH HOH B . O 4 HOH 17 217 5 HOH HOH B . O 4 HOH 18 218 58 HOH HOH B . O 4 HOH 19 219 49 HOH HOH B . O 4 HOH 20 220 88 HOH HOH B . O 4 HOH 21 221 118 HOH HOH B . O 4 HOH 22 222 89 HOH HOH B . O 4 HOH 23 223 115 HOH HOH B . O 4 HOH 24 224 33 HOH HOH B . O 4 HOH 25 225 6 HOH HOH B . O 4 HOH 26 226 67 HOH HOH B . O 4 HOH 27 227 52 HOH HOH B . O 4 HOH 28 228 8 HOH HOH B . O 4 HOH 29 229 51 HOH HOH B . O 4 HOH 30 230 37 HOH HOH B . O 4 HOH 31 231 75 HOH HOH B . O 4 HOH 32 232 24 HOH HOH B . O 4 HOH 33 233 10 HOH HOH B . O 4 HOH 34 234 15 HOH HOH B . O 4 HOH 35 235 114 HOH HOH B . O 4 HOH 36 236 18 HOH HOH B . O 4 HOH 37 237 110 HOH HOH B . O 4 HOH 38 238 19 HOH HOH B . O 4 HOH 39 239 62 HOH HOH B . O 4 HOH 40 240 22 HOH HOH B . O 4 HOH 41 241 93 HOH HOH B . O 4 HOH 42 242 36 HOH HOH B . O 4 HOH 43 243 63 HOH HOH B . O 4 HOH 44 244 64 HOH HOH B . O 4 HOH 45 245 17 HOH HOH B . O 4 HOH 46 246 54 HOH HOH B . O 4 HOH 47 247 113 HOH HOH B . O 4 HOH 48 248 23 HOH HOH B . O 4 HOH 49 249 96 HOH HOH B . O 4 HOH 50 250 131 HOH HOH B . O 4 HOH 51 251 73 HOH HOH B . O 4 HOH 52 252 76 HOH HOH B . O 4 HOH 53 253 123 HOH HOH B . O 4 HOH 54 254 102 HOH HOH B . O 4 HOH 55 255 85 HOH HOH B . O 4 HOH 56 256 40 HOH HOH B . O 4 HOH 57 257 55 HOH HOH B . O 4 HOH 58 258 70 HOH HOH B . O 4 HOH 59 259 2 HOH HOH B . O 4 HOH 60 260 119 HOH HOH B . O 4 HOH 61 261 128 HOH HOH B . O 4 HOH 62 262 122 HOH HOH B . O 4 HOH 63 263 72 HOH HOH B . O 4 HOH 64 264 69 HOH HOH B . O 4 HOH 65 265 71 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 9YD3 _cell.details ? _cell.formula_units_Z ? _cell.length_a 47.338 _cell.length_a_esd ? _cell.length_b 47.338 _cell.length_b_esd ? _cell.length_c 83.136 _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 9YD3 _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 9YD3 _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 2.77 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 55.56 _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 2022-04-23 _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 9YD3 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.592 _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 14954 _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 99.3 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 8.4 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 37.2 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.902 _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 0.062 _reflns.pdbx_Rpim_I_all 0.022 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.982 _reflns.pdbx_CC_star 0.995 _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.058 _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 1.592 _reflns_shell.d_res_low 1.63 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 5.5 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 650 _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 5.7 _reflns_shell.pdbx_chi_squared 0.981 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.366 _reflns_shell.pdbx_Rpim_I_all 0.139 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.993 _reflns_shell.pdbx_CC_star 0.998 _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 88.8 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.336 _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] -0.005 _refine.aniso_B[1][2] -0.002 _refine.aniso_B[1][3] -0.000 _refine.aniso_B[2][2] -0.005 _refine.aniso_B[2][3] 0.000 _refine.aniso_B[3][3] 0.015 _refine.B_iso_max ? _refine.B_iso_mean 16.911 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.939 _refine.correlation_coeff_Fo_to_Fc_free 0.935 _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 9YD3 _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 1.592 _refine.ls_d_res_low 41.568 _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 12475 _refine.ls_number_reflns_R_free 682 _refine.ls_number_reflns_R_work 11793 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 82.979 _refine.ls_percent_reflns_R_free 5.467 _refine.ls_R_factor_all 0.227 _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_free 0.2474 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2264 _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 0.124 _refine.pdbx_overall_ESU_R_Free 0.114 _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 1.814 _refine.overall_SU_ML 0.064 _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 1.592 _refine_hist.d_res_low 41.568 _refine_hist.number_atoms_solvent 132 _refine_hist.number_atoms_total 843 _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 644 _refine_hist.pdbx_number_atoms_ligand 67 _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_Zscore _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.022 0.016 788 ? r_bond_refined_d ? ? ? 'X-RAY DIFFRACTION' ? 0.024 0.023 350 ? r_bond_other_d ? ? ? 'X-RAY DIFFRACTION' ? 2.968 2.233 1208 ? r_angle_refined_deg ? ? ? 'X-RAY DIFFRACTION' ? 3.642 2.365 824 ? r_angle_other_deg ? ? ? 'X-RAY DIFFRACTION' ? 0.085 5.000 16 ? r_dihedral_angle_other_2_deg ? ? ? 'X-RAY DIFFRACTION' ? 0.446 0.200 156 ? r_chiral_restr ? ? ? 'X-RAY DIFFRACTION' ? 1.927 0.200 18 ? r_chiral_restr_other ? ? ? 'X-RAY DIFFRACTION' ? 0.016 0.021 418 ? r_gen_planes_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.001 0.023 136 ? r_gen_planes_other ? ? ? 'X-RAY DIFFRACTION' ? 0.102 0.200 79 ? r_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.206 0.200 430 ? r_symmetry_nbd_other ? ? ? 'X-RAY DIFFRACTION' ? 0.248 0.200 316 ? r_nbtor_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.223 0.200 207 ? r_symmetry_nbtor_other ? ? ? 'X-RAY DIFFRACTION' ? 0.231 0.200 104 ? r_xyhbond_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.119 0.200 8 ? r_metal_ion_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.174 0.200 25 ? r_symmetry_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 0.173 0.200 40 ? r_nbd_other ? ? ? 'X-RAY DIFFRACTION' ? 0.214 0.200 31 ? r_symmetry_xyhbond_nbd_refined ? ? ? 'X-RAY DIFFRACTION' ? 2.726 2.062 788 ? r_scbond_it ? ? ? 'X-RAY DIFFRACTION' ? 2.725 2.070 789 ? r_scbond_other ? ? ? 'X-RAY DIFFRACTION' ? 4.375 3.752 1208 ? r_scangle_it ? ? ? 'X-RAY DIFFRACTION' ? 4.373 3.760 1209 ? r_scangle_other ? ? ? 'X-RAY DIFFRACTION' ? 6.825 23.056 1162 ? r_lrange_it ? ? ? 'X-RAY DIFFRACTION' ? 6.638 22.555 1109 ? 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' 1.592 1.634 1098 . 17 394 37.4317 . 0.244 . . 0.235 . . . . . 0.178 . . . . . 20 . 0.969 0.889 0.526 'X-RAY DIFFRACTION' 1.634 1.678 1058 . 26 463 46.2193 . 0.249 . . 0.244 . . . . . 0.196 . . . . . 20 . 0.965 0.969 0.351 'X-RAY DIFFRACTION' 1.678 1.727 1017 . 21 502 51.4258 . 0.213 . . 0.213 . . . . . 0.170 . . . . . 20 . 0.974 0.980 0.201 'X-RAY DIFFRACTION' 1.727 1.780 1007 . 42 557 59.4836 . 0.258 . . 0.256 . . . . . 0.208 . . . . . 20 . 0.957 0.952 0.280 'X-RAY DIFFRACTION' 1.780 1.838 970 . 50 643 71.4433 . 0.240 . . 0.237 . . . . . 0.209 . . . . . 20 . 0.963 0.935 0.285 'X-RAY DIFFRACTION' 1.838 1.903 951 . 34 808 88.5384 . 0.246 . . 0.246 . . . . . 0.215 . . . . . 20 . 0.959 0.950 0.245 'X-RAY DIFFRACTION' 1.903 1.974 912 . 51 856 99.4518 . 0.255 . . 0.259 . . . . . 0.221 . . . . . 20 . 0.957 0.971 0.205 'X-RAY DIFFRACTION' 1.974 2.055 884 . 45 839 100.0000 . 0.263 . . 0.261 . . . . . 0.231 . . . . . 20 . 0.956 0.937 0.314 'X-RAY DIFFRACTION' 2.055 2.146 835 . 52 783 100.0000 . 0.236 . . 0.232 . . . . . 0.211 . . . . . 20 . 0.965 0.951 0.298 'X-RAY DIFFRACTION' 2.146 2.250 817 . 54 763 100.0000 . 0.248 . . 0.248 . . . . . 0.236 . . . . . 20 . 0.960 0.962 0.246 'X-RAY DIFFRACTION' 2.250 2.372 768 . 45 723 100.0000 . 0.225 . . 0.228 . . . . . 0.223 . . . . . 20 . 0.968 0.982 0.181 'X-RAY DIFFRACTION' 2.372 2.515 739 . 51 687 99.8647 . 0.240 . . 0.237 . . . . . 0.246 . . . . . 20 . 0.964 0.940 0.292 'X-RAY DIFFRACTION' 2.515 2.688 681 . 42 639 100.0000 . 0.265 . . 0.259 . . . . . 0.263 . . . . . 20 . 0.955 0.939 0.337 'X-RAY DIFFRACTION' 2.688 2.902 660 . 37 623 100.0000 . 0.251 . . 0.244 . . . . . 0.276 . . . . . 20 . 0.966 0.938 0.371 'X-RAY DIFFRACTION' 2.902 3.178 613 . 26 582 99.1843 . 0.208 . . 0.211 . . . . . 0.259 . . . . . 20 . 0.978 0.978 0.149 'X-RAY DIFFRACTION' 3.178 3.550 533 . 34 498 99.8124 . 0.193 . . 0.193 . . . . . 0.250 . . . . . 20 . 0.982 0.975 0.187 'X-RAY DIFFRACTION' 3.550 4.095 496 . 20 476 100.0000 . 0.171 . . 0.172 . . . . . 0.231 . . . . . 20 . 0.985 0.992 0.164 'X-RAY DIFFRACTION' 4.095 5.003 427 . 17 410 100.0000 . 0.160 . . 0.161 . . . . . 0.222 . . . . . 20 . 0.984 0.990 0.151 'X-RAY DIFFRACTION' 5.003 7.024 344 . 10 334 100.0000 . 0.211 . . 0.209 . . . . . 0.345 . . . . . 20 . 0.978 0.965 0.271 'X-RAY DIFFRACTION' 7.024 41.568 221 . 8 213 100.0000 . 0.357 . . 0.354 . . . . . 0.439 . . . . . 20 . 0.922 0.566 0.502 # _struct.entry_id 9YD3 _struct.title 'RNA primer non-enzymatic extension product with RNA 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 9YD3 _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 3 ? H N N 3 ? I N N 2 ? J N N 3 ? K N N 3 ? L N N 3 ? M N N 3 ? N N N 4 ? O N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9YD3 _struct_ref.pdbx_db_accession 9YD3 _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 9YD3 A 1 ? 15 ? 9YD3 1 ? 15 ? 1 15 2 1 9YD3 B 1 ? 15 ? 9YD3 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 # _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,N,O # _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 LCC 1 "O3'" ? ? ? 1_555 A LCC 2 P ? ? A LCC 1 A LCC 2 1_555 ? ? ? ? ? ? ? 1.654 ? ? covale2 covale both ? A LCC 2 "O3'" ? ? ? 1_555 A LCC 3 P ? ? A LCC 2 A LCC 3 1_555 ? ? ? ? ? ? ? 1.657 ? ? covale3 covale both ? A LCC 3 "O3'" ? ? ? 1_555 A LCG 4 P ? ? A LCC 3 A LCG 4 1_555 ? ? ? ? ? ? ? 1.637 ? ? covale4 covale both ? A LCG 4 "O3'" ? ? ? 1_555 A A 5 P ? ? A LCG 4 A A 5 1_555 ? ? ? ? ? ? ? 1.596 ? ? covale5 covale both ? B LCC 1 "O3'" ? ? ? 1_555 B LCC 2 P ? ? B LCC 1 B LCC 2 1_555 ? ? ? ? ? ? ? 1.660 ? ? covale6 covale both ? B LCC 2 "O3'" ? ? ? 1_555 B LCC 3 P ? ? B LCC 2 B LCC 3 1_555 ? ? ? ? ? ? ? 1.662 ? ? covale7 covale both ? B LCC 3 "O3'" ? ? ? 1_555 B LCG 4 P ? ? B LCC 3 B LCG 4 1_555 ? ? ? ? ? ? ? 1.634 ? ? covale8 covale both ? B LCG 4 "O3'" ? ? ? 1_555 B A 5 P ? ? B LCG 4 B A 5 1_555 ? ? ? ? ? ? ? 1.590 ? ? metalc1 metalc ? ? A G 15 "O3'" ? ? ? 1_555 H MG . MG ? ? A G 15 A MG 106 1_555 ? ? ? ? ? ? ? 2.485 ? ? metalc2 metalc ? ? A G 15 "O2'" ? ? ? 1_555 H MG . MG ? ? A G 15 A MG 106 1_555 ? ? ? ? ? ? ? 2.305 ? ? metalc3 metalc ? ? A G 15 "O3'" ? ? ? 1_555 H MG . MG ? ? A G 15 A MG 106 2_565 ? ? ? ? ? ? ? 2.485 ? ? metalc4 metalc ? ? A G 15 "O2'" ? ? ? 1_555 H MG . MG ? ? A G 15 A MG 106 2_565 ? ? ? ? ? ? ? 2.305 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 102 A HOH 214 1_555 ? ? ? ? ? ? ? 2.120 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 102 A HOH 215 1_555 ? ? ? ? ? ? ? 2.213 ? ? metalc7 metalc ? ? D MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 102 A HOH 262 1_555 ? ? ? ? ? ? ? 2.185 ? ? metalc8 metalc ? ? D MG . MG ? ? ? 1_555 O HOH . O ? ? A MG 102 B HOH 217 1_555 ? ? ? ? ? ? ? 2.196 ? ? metalc9 metalc ? ? D MG . MG ? ? ? 1_555 O HOH . O ? ? A MG 102 B HOH 225 1_555 ? ? ? ? ? ? ? 2.137 ? ? metalc10 metalc ? ? D MG . MG ? ? ? 1_555 O HOH . O ? ? A MG 102 B HOH 259 1_555 ? ? ? ? ? ? ? 2.168 ? ? metalc11 metalc ? ? E MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 103 A HOH 210 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc12 metalc ? ? E MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 103 A HOH 224 1_555 ? ? ? ? ? ? ? 2.147 ? ? metalc13 metalc ? ? E MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 103 A HOH 227 1_555 ? ? ? ? ? ? ? 2.069 ? ? metalc14 metalc ? ? E MG . MG ? ? ? 1_555 O HOH . O ? ? A MG 103 B HOH 230 1_555 ? ? ? ? ? ? ? 2.071 ? ? metalc15 metalc ? ? E MG . MG ? ? ? 1_555 O HOH . O ? ? A MG 103 B HOH 242 1_555 ? ? ? ? ? ? ? 2.212 ? ? metalc16 metalc ? ? E MG . MG ? ? ? 1_555 O HOH . O ? ? A MG 103 B HOH 256 1_555 ? ? ? ? ? ? ? 1.895 ? ? metalc17 metalc ? ? F MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 104 A HOH 205 1_555 ? ? ? ? ? ? ? 2.036 ? ? metalc18 metalc ? ? F MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 104 A HOH 220 1_555 ? ? ? ? ? ? ? 1.935 ? ? metalc19 metalc ? ? F MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 104 A HOH 223 1_555 ? ? ? ? ? ? ? 2.182 ? ? metalc20 metalc ? ? F MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 104 A HOH 255 1_555 ? ? ? ? ? ? ? 2.092 ? ? metalc21 metalc ? ? F MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 104 A HOH 266 1_555 ? ? ? ? ? ? ? 1.857 ? ? metalc22 metalc ? ? F MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 104 A HOH 267 1_555 ? ? ? ? ? ? ? 2.056 ? ? metalc23 metalc ? ? G MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 105 A HOH 208 1_555 ? ? ? ? ? ? ? 1.992 ? ? metalc24 metalc ? ? G MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 105 A HOH 212 1_555 ? ? ? ? ? ? ? 2.303 ? ? metalc25 metalc ? ? G MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 105 A HOH 218 1_555 ? ? ? ? ? ? ? 2.260 ? ? metalc26 metalc ? ? G MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 105 A HOH 236 1_555 ? ? ? ? ? ? ? 2.410 ? ? metalc27 metalc ? ? G MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 105 A HOH 265 1_555 ? ? ? ? ? ? ? 2.266 ? ? metalc28 metalc ? ? N HOH . O ? ? ? 1_555 J MG . MG ? ? A HOH 228 B MG 102 1_555 ? ? ? ? ? ? ? 2.067 ? ? metalc29 metalc ? ? N HOH . O ? ? ? 1_555 J MG . MG ? ? A HOH 241 B MG 102 1_555 ? ? ? ? ? ? ? 2.183 ? ? metalc30 metalc ? ? N HOH . O ? ? ? 1_555 J MG . MG ? ? A HOH 257 B MG 102 1_555 ? ? ? ? ? ? ? 1.902 ? ? metalc31 metalc ? ? B G 15 "O3'" ? ? ? 1_555 M MG . MG ? ? B G 15 B MG 105 1_555 ? ? ? ? ? ? ? 2.337 ? ? metalc32 metalc ? ? B G 15 "O2'" ? ? ? 1_555 M MG . MG ? ? B G 15 B MG 105 1_555 ? ? ? ? ? ? ? 2.448 ? ? metalc33 metalc ? ? B G 15 "O3'" ? ? ? 1_555 M MG . MG ? ? B G 15 B MG 105 2_565 ? ? ? ? ? ? ? 2.337 ? ? metalc34 metalc ? ? B G 15 "O2'" ? ? ? 1_555 M MG . MG ? ? B G 15 B MG 105 2_565 ? ? ? ? ? ? ? 2.449 ? ? metalc35 metalc ? ? J MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 102 B HOH 212 1_555 ? ? ? ? ? ? ? 2.081 ? ? metalc36 metalc ? ? J MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 102 B HOH 228 1_555 ? ? ? ? ? ? ? 2.157 ? ? metalc37 metalc ? ? J MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 102 B HOH 233 1_555 ? ? ? ? ? ? ? 2.048 ? ? metalc38 metalc ? ? K MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 103 B HOH 206 1_555 ? ? ? ? ? ? ? 1.928 ? ? metalc39 metalc ? ? K MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 103 B HOH 209 1_555 ? ? ? ? ? ? ? 2.294 ? ? metalc40 metalc ? ? K MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 103 B HOH 226 1_555 ? ? ? ? ? ? ? 2.290 ? ? metalc41 metalc ? ? K MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 103 B HOH 249 1_555 ? ? ? ? ? ? ? 2.231 ? ? metalc42 metalc ? ? K MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 103 B HOH 264 1_555 ? ? ? ? ? ? ? 2.136 ? ? metalc43 metalc ? ? L MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 104 B HOH 208 1_555 ? ? ? ? ? ? ? 1.999 ? ? metalc44 metalc ? ? L MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 104 B HOH 219 1_555 ? ? ? ? ? ? ? 2.118 ? ? metalc45 metalc ? ? L MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 104 B HOH 251 1_555 ? ? ? ? ? ? ? 1.814 ? ? metalc46 metalc ? ? L MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 104 B HOH 263 1_555 ? ? ? ? ? ? ? 1.878 ? ? metalc47 metalc ? ? L MG . MG ? ? ? 1_555 O HOH . O ? ? B MG 104 B HOH 265 1_555 ? ? ? ? ? ? ? 1.821 ? ? 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 "O3'" ? A G 15 ? A G 15 ? 1_555 MG ? H MG . ? A MG 106 ? 1_555 "O2'" ? A G 15 ? A G 15 ? 1_555 71.7 ? 2 "O3'" ? A G 15 ? A G 15 ? 1_555 MG ? H MG . ? A MG 106 ? 1_555 "O3'" ? A G 15 ? A G 15 ? 1_555 0.0 ? 3 "O2'" ? A G 15 ? A G 15 ? 1_555 MG ? H MG . ? A MG 106 ? 1_555 "O3'" ? A G 15 ? A G 15 ? 1_555 71.7 ? 4 "O3'" ? A G 15 ? A G 15 ? 1_555 MG ? H MG . ? A MG 106 ? 1_555 "O2'" ? A G 15 ? A G 15 ? 1_555 71.7 ? 5 "O2'" ? A G 15 ? A G 15 ? 1_555 MG ? H MG . ? A MG 106 ? 1_555 "O2'" ? A G 15 ? A G 15 ? 1_555 0.0 ? 6 "O3'" ? A G 15 ? A G 15 ? 1_555 MG ? H MG . ? A MG 106 ? 1_555 "O2'" ? A G 15 ? A G 15 ? 1_555 71.7 ? 7 O ? N HOH . ? A HOH 214 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? N HOH . ? A HOH 215 ? 1_555 89.4 ? 8 O ? N HOH . ? A HOH 214 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? N HOH . ? A HOH 262 ? 1_555 83.5 ? 9 O ? N HOH . ? A HOH 215 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? N HOH . ? A HOH 262 ? 1_555 84.0 ? 10 O ? N HOH . ? A HOH 214 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 217 ? 1_555 97.6 ? 11 O ? N HOH . ? A HOH 215 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 217 ? 1_555 168.8 ? 12 O ? N HOH . ? A HOH 262 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 217 ? 1_555 88.1 ? 13 O ? N HOH . ? A HOH 214 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 225 ? 1_555 103.4 ? 14 O ? N HOH . ? A HOH 215 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 225 ? 1_555 99.3 ? 15 O ? N HOH . ? A HOH 262 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 225 ? 1_555 172.3 ? 16 O ? O HOH . ? B HOH 217 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 225 ? 1_555 87.7 ? 17 O ? N HOH . ? A HOH 214 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 259 ? 1_555 171.3 ? 18 O ? N HOH . ? A HOH 215 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 259 ? 1_555 85.3 ? 19 O ? N HOH . ? A HOH 262 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 259 ? 1_555 89.1 ? 20 O ? O HOH . ? B HOH 217 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 259 ? 1_555 86.7 ? 21 O ? O HOH . ? B HOH 225 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? O HOH . ? B HOH 259 ? 1_555 84.2 ? 22 O ? N HOH . ? A HOH 210 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? N HOH . ? A HOH 224 ? 1_555 85.9 ? 23 O ? N HOH . ? A HOH 210 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? N HOH . ? A HOH 227 ? 1_555 92.1 ? 24 O ? N HOH . ? A HOH 224 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? N HOH . ? A HOH 227 ? 1_555 86.6 ? 25 O ? N HOH . ? A HOH 210 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 230 ? 1_555 89.3 ? 26 O ? N HOH . ? A HOH 224 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 230 ? 1_555 175.2 ? 27 O ? N HOH . ? A HOH 227 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 230 ? 1_555 94.4 ? 28 O ? N HOH . ? A HOH 210 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 242 ? 1_555 89.1 ? 29 O ? N HOH . ? A HOH 224 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 242 ? 1_555 86.5 ? 30 O ? N HOH . ? A HOH 227 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 242 ? 1_555 172.8 ? 31 O ? O HOH . ? B HOH 230 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 242 ? 1_555 92.7 ? 32 O ? N HOH . ? A HOH 210 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 256 ? 1_555 176.5 ? 33 O ? N HOH . ? A HOH 224 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 256 ? 1_555 94.6 ? 34 O ? N HOH . ? A HOH 227 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 256 ? 1_555 91.4 ? 35 O ? O HOH . ? B HOH 230 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 256 ? 1_555 90.1 ? 36 O ? O HOH . ? B HOH 242 ? 1_555 MG ? E MG . ? A MG 103 ? 1_555 O ? O HOH . ? B HOH 256 ? 1_555 87.5 ? 37 O ? N HOH . ? A HOH 205 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 220 ? 1_555 89.2 ? 38 O ? N HOH . ? A HOH 205 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 223 ? 1_555 92.5 ? 39 O ? N HOH . ? A HOH 220 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 223 ? 1_555 90.6 ? 40 O ? N HOH . ? A HOH 205 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 255 ? 1_555 171.9 ? 41 O ? N HOH . ? A HOH 220 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 255 ? 1_555 89.2 ? 42 O ? N HOH . ? A HOH 223 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 255 ? 1_555 79.6 ? 43 O ? N HOH . ? A HOH 205 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 266 ? 1_555 93.6 ? 44 O ? N HOH . ? A HOH 220 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 266 ? 1_555 174.2 ? 45 O ? N HOH . ? A HOH 223 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 266 ? 1_555 84.3 ? 46 O ? N HOH . ? A HOH 255 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 266 ? 1_555 87.3 ? 47 O ? N HOH . ? A HOH 205 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 267 ? 1_555 101.7 ? 48 O ? N HOH . ? A HOH 220 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 267 ? 1_555 100.0 ? 49 O ? N HOH . ? A HOH 223 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 267 ? 1_555 162.4 ? 50 O ? N HOH . ? A HOH 255 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 267 ? 1_555 86.4 ? 51 O ? N HOH . ? A HOH 266 ? 1_555 MG ? F MG . ? A MG 104 ? 1_555 O ? N HOH . ? A HOH 267 ? 1_555 84.4 ? 52 O ? N HOH . ? A HOH 208 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 212 ? 1_555 80.0 ? 53 O ? N HOH . ? A HOH 208 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 218 ? 1_555 94.8 ? 54 O ? N HOH . ? A HOH 212 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 218 ? 1_555 87.6 ? 55 O ? N HOH . ? A HOH 208 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 236 ? 1_555 75.8 ? 56 O ? N HOH . ? A HOH 212 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 236 ? 1_555 75.6 ? 57 O ? N HOH . ? A HOH 218 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 236 ? 1_555 161.9 ? 58 O ? N HOH . ? A HOH 208 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 265 ? 1_555 160.5 ? 59 O ? N HOH . ? A HOH 212 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 265 ? 1_555 80.5 ? 60 O ? N HOH . ? A HOH 218 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 265 ? 1_555 85.0 ? 61 O ? N HOH . ? A HOH 236 ? 1_555 MG ? G MG . ? A MG 105 ? 1_555 O ? N HOH . ? A HOH 265 ? 1_555 98.7 ? 62 O ? N HOH . ? A HOH 228 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? N HOH . ? A HOH 241 ? 1_555 91.8 ? 63 O ? N HOH . ? A HOH 228 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? N HOH . ? A HOH 257 ? 1_555 90.3 ? 64 O ? N HOH . ? A HOH 241 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? N HOH . ? A HOH 257 ? 1_555 86.5 ? 65 O ? N HOH . ? A HOH 228 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 212 ? 1_555 88.2 ? 66 O ? N HOH . ? A HOH 241 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 212 ? 1_555 89.6 ? 67 O ? N HOH . ? A HOH 257 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 212 ? 1_555 175.7 ? 68 O ? N HOH . ? A HOH 228 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 228 ? 1_555 175.9 ? 69 O ? N HOH . ? A HOH 241 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 228 ? 1_555 87.9 ? 70 O ? N HOH . ? A HOH 257 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 228 ? 1_555 93.7 ? 71 O ? O HOH . ? B HOH 212 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 228 ? 1_555 87.7 ? 72 O ? N HOH . ? A HOH 228 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 233 ? 1_555 92.7 ? 73 O ? N HOH . ? A HOH 241 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 233 ? 1_555 175.1 ? 74 O ? N HOH . ? A HOH 257 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 233 ? 1_555 91.4 ? 75 O ? O HOH . ? B HOH 212 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 233 ? 1_555 92.6 ? 76 O ? O HOH . ? B HOH 228 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? O HOH . ? B HOH 233 ? 1_555 87.9 ? 77 "O3'" ? B G 15 ? B G 15 ? 1_555 MG ? M MG . ? B MG 105 ? 1_555 "O2'" ? B G 15 ? B G 15 ? 1_555 71.9 ? 78 "O3'" ? B G 15 ? B G 15 ? 1_555 MG ? M MG . ? B MG 105 ? 1_555 "O3'" ? B G 15 ? B G 15 ? 1_555 0.0 ? 79 "O2'" ? B G 15 ? B G 15 ? 1_555 MG ? M MG . ? B MG 105 ? 1_555 "O3'" ? B G 15 ? B G 15 ? 1_555 71.9 ? 80 "O3'" ? B G 15 ? B G 15 ? 1_555 MG ? M MG . ? B MG 105 ? 1_555 "O2'" ? B G 15 ? B G 15 ? 1_555 71.9 ? 81 "O2'" ? B G 15 ? B G 15 ? 1_555 MG ? M MG . ? B MG 105 ? 1_555 "O2'" ? B G 15 ? B G 15 ? 1_555 0.0 ? 82 "O3'" ? B G 15 ? B G 15 ? 1_555 MG ? M MG . ? B MG 105 ? 1_555 "O2'" ? B G 15 ? B G 15 ? 1_555 71.9 ? 83 O ? O HOH . ? B HOH 206 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 209 ? 1_555 79.8 ? 84 O ? O HOH . ? B HOH 206 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 226 ? 1_555 91.9 ? 85 O ? O HOH . ? B HOH 209 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 226 ? 1_555 87.9 ? 86 O ? O HOH . ? B HOH 206 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 249 ? 1_555 75.0 ? 87 O ? O HOH . ? B HOH 209 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 249 ? 1_555 91.1 ? 88 O ? O HOH . ? B HOH 226 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 249 ? 1_555 166.7 ? 89 O ? O HOH . ? B HOH 206 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 264 ? 1_555 164.1 ? 90 O ? O HOH . ? B HOH 209 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 264 ? 1_555 84.9 ? 91 O ? O HOH . ? B HOH 226 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 264 ? 1_555 83.2 ? 92 O ? O HOH . ? B HOH 249 ? 1_555 MG ? K MG . ? B MG 103 ? 1_555 O ? O HOH . ? B HOH 264 ? 1_555 109.9 ? 93 O ? O HOH . ? B HOH 208 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 219 ? 1_555 91.8 ? 94 O ? O HOH . ? B HOH 208 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 251 ? 1_555 107.4 ? 95 O ? O HOH . ? B HOH 219 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 251 ? 1_555 75.2 ? 96 O ? O HOH . ? B HOH 208 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 263 ? 1_555 91.1 ? 97 O ? O HOH . ? B HOH 219 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 263 ? 1_555 176.5 ? 98 O ? O HOH . ? B HOH 251 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 263 ? 1_555 105.9 ? 99 O ? O HOH . ? B HOH 208 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 265 ? 1_555 90.2 ? 100 O ? O HOH . ? B HOH 219 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 265 ? 1_555 88.4 ? 101 O ? O HOH . ? B HOH 251 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 265 ? 1_555 156.0 ? 102 O ? O HOH . ? B HOH 263 ? 1_555 MG ? L MG . ? B MG 104 ? 1_555 O ? O HOH . ? B HOH 265 ? 1_555 89.6 ? # _pdbx_entry_details.entry_id 9YD3 _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 A HOH 232 ? ? O A HOH 264 ? ? 2.08 2 1 O A HOH 264 ? ? O B HOH 239 ? ? 2.19 # 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 "O3'" A C 6 ? ? P A U 7 ? ? OP2 A U 7 ? ? 118.16 110.50 7.66 1.10 Y 2 1 "O5'" A U 8 ? ? P A U 8 ? ? OP2 A U 8 ? ? 100.11 105.70 -5.59 0.90 N 3 1 "O5'" A G 14 ? ? P A G 14 ? ? OP2 A G 14 ? ? 97.62 105.70 -8.08 0.90 N 4 1 "O5'" A G 15 ? ? P A G 15 ? ? OP1 A G 15 ? ? 117.98 110.70 7.28 1.20 N 5 1 "O5'" A G 15 ? ? P A G 15 ? ? OP2 A G 15 ? ? 99.18 105.70 -6.52 0.90 N 6 1 "C3'" B LCC 1 ? ? "O3'" B LCC 1 ? ? P B LCC 2 ? ? 127.25 119.70 7.55 1.20 Y 7 1 "O3'" B C 6 ? ? P B U 7 ? ? OP2 B U 7 ? ? 118.13 110.50 7.63 1.10 Y 8 1 "O5'" B U 8 ? ? P B U 8 ? ? OP2 B U 8 ? ? 99.53 105.70 -6.17 0.90 N 9 1 "C3'" B G 14 ? ? "C2'" B G 14 ? ? "C1'" B G 14 ? ? 97.06 101.30 -4.24 0.70 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 MG 106 ? H MG . 2 1 B MG 105 ? M MG . 3 1 A HOH 258 ? N HOH . 4 1 A HOH 263 ? N HOH . 5 1 B HOH 253 ? O HOH . 6 1 B HOH 262 ? O 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 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 EQ4 P1 P N N 73 EQ4 O1 O N N 74 EQ4 O2 O N N 75 EQ4 C1 C N N 76 EQ4 O3 O N N 77 EQ4 C2 C N R 78 EQ4 O4 O N N 79 EQ4 C3 C N S 80 EQ4 O5 O N N 81 EQ4 C4 C N R 82 EQ4 O6 O N N 83 EQ4 C5 C N R 84 EQ4 N1 N N N 85 EQ4 C6 C N N 86 EQ4 N2 N N N 87 EQ4 N3 N N N 88 EQ4 C7 C Y N 89 EQ4 C8 C Y N 90 EQ4 C9 C N N 91 EQ4 O7 O N N 92 EQ4 N4 N Y N 93 EQ4 C10 C Y N 94 EQ4 N5 N Y N 95 EQ4 N6 N Y N 96 EQ4 C11 C Y N 97 EQ4 C12 C Y N 98 EQ4 N7 N Y N 99 EQ4 C13 C Y N 100 EQ4 N8 N N N 101 EQ4 H1 H N N 102 EQ4 H2 H N N 103 EQ4 H3 H N N 104 EQ4 H4 H N N 105 EQ4 H5 H N N 106 EQ4 H6 H N N 107 EQ4 H7 H N N 108 EQ4 H8 H N N 109 EQ4 H9 H N N 110 EQ4 H10 H N N 111 EQ4 H11 H N N 112 EQ4 H12 H N N 113 EQ4 H13 H N N 114 EQ4 H14 H N N 115 EQ4 H15 H N N 116 EQ4 H16 H N N 117 EQ4 H17 H N N 118 G OP3 O N N 119 G P P N N 120 G OP1 O N N 121 G OP2 O N N 122 G "O5'" O N N 123 G "C5'" C N N 124 G "C4'" C N R 125 G "O4'" O N N 126 G "C3'" C N S 127 G "O3'" O N N 128 G "C2'" C N R 129 G "O2'" O N N 130 G "C1'" C N R 131 G N9 N Y N 132 G C8 C Y N 133 G N7 N Y N 134 G C5 C Y N 135 G C6 C N N 136 G O6 O N N 137 G N1 N N N 138 G C2 C N N 139 G N2 N N N 140 G N3 N N N 141 G C4 C Y N 142 G HOP3 H N N 143 G HOP2 H N N 144 G "H5'" H N N 145 G "H5''" H N N 146 G "H4'" H N N 147 G "H3'" H N N 148 G "HO3'" H N N 149 G "H2'" H N N 150 G "HO2'" H N N 151 G "H1'" H N N 152 G H8 H N N 153 G H1 H N N 154 G H21 H N N 155 G H22 H N N 156 HOH O O N N 157 HOH H1 H N N 158 HOH H2 H N N 159 LCC "O5'" O N N 160 LCC "C5'" C N N 161 LCC "C4'" C N R 162 LCC "O4'" O N N 163 LCC "C1'" C N R 164 LCC N1 N N N 165 LCC C6 C N N 166 LCC C5 C N N 167 LCC C5M C N N 168 LCC C4 C N N 169 LCC N4 N N N 170 LCC N3 N N N 171 LCC C2 C N N 172 LCC O2 O N N 173 LCC "C3'" C N S 174 LCC "C2'" C N R 175 LCC "O2'" O N N 176 LCC "O3'" O N N 177 LCC "C6'" C N N 178 LCC P P N N 179 LCC O1P O N N 180 LCC O2P O N N 181 LCC OXT O N N 182 LCC "H5'1" H N N 183 LCC "H5'2" H N N 184 LCC "H1'" H N N 185 LCC H6 H N N 186 LCC H5M1 H N N 187 LCC H5M2 H N N 188 LCC H5M3 H N N 189 LCC H41 H N N 190 LCC H42 H N N 191 LCC "H3'" H N N 192 LCC "H2'1" H N N 193 LCC H3T H N N 194 LCC "H6'1" H N N 195 LCC "H6'2" H N N 196 LCC H1P H N N 197 LCC HXT H N N 198 LCG P P N N 199 LCG OP1 O N N 200 LCG "O5'" O N N 201 LCG "C5'" C N N 202 LCG "C3'" C N S 203 LCG "C6'" C N N 204 LCG N9 N Y N 205 LCG C8 C Y N 206 LCG C4 C Y N 207 LCG N7 N Y N 208 LCG C5 C Y N 209 LCG C6 C N N 210 LCG "C2'" C N R 211 LCG O6 O N N 212 LCG "C4'" C N R 213 LCG "C1'" C N R 214 LCG C2 C N N 215 LCG N1 N N N 216 LCG "O4'" O N N 217 LCG OP2 O N N 218 LCG N2 N N N 219 LCG N3 N N N 220 LCG "O2'" O N N 221 LCG "O3'" O N N 222 LCG OP3 O N N 223 LCG "H5'" H N N 224 LCG "H5''" H N N 225 LCG "H3'" H N N 226 LCG "H6'1" H N N 227 LCG "H6'2" H N N 228 LCG H8 H N N 229 LCG "H2'" H N N 230 LCG "H1'" H N N 231 LCG H1 H N N 232 LCG HOP2 H N N 233 LCG H21 H N N 234 LCG H22 H N N 235 LCG "HO3'" H N N 236 LCG HOP3 H N N 237 MG MG MG N N 238 U OP3 O N N 239 U P P N N 240 U OP1 O N N 241 U OP2 O N N 242 U "O5'" O N N 243 U "C5'" C N N 244 U "C4'" C N R 245 U "O4'" O N N 246 U "C3'" C N S 247 U "O3'" O N N 248 U "C2'" C N R 249 U "O2'" O N N 250 U "C1'" C N R 251 U N1 N N N 252 U C2 C N N 253 U O2 O N N 254 U N3 N N N 255 U C4 C N N 256 U O4 O N N 257 U C5 C N N 258 U C6 C N N 259 U HOP3 H N N 260 U HOP2 H N N 261 U "H5'" H N N 262 U "H5''" H N N 263 U "H4'" H N N 264 U "H3'" H N N 265 U "HO3'" H N N 266 U "H2'" H N N 267 U "HO2'" H N N 268 U "H1'" H N N 269 U H3 H N N 270 U H5 H N N 271 U H6 H N N 272 # 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 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 EQ4 C12 N7 sing Y N 76 EQ4 C12 C11 doub Y N 77 EQ4 N7 C13 doub Y N 78 EQ4 C11 N6 sing Y N 79 EQ4 C13 N8 sing N N 80 EQ4 C13 N6 sing Y N 81 EQ4 N6 P1 sing N N 82 EQ4 O2 P1 doub N N 83 EQ4 O5 C3 sing N N 84 EQ4 P1 O3 sing N N 85 EQ4 P1 O1 sing N N 86 EQ4 O3 C1 sing N N 87 EQ4 C3 C2 sing N N 88 EQ4 C3 C4 sing N N 89 EQ4 O6 C4 sing N N 90 EQ4 C2 C1 sing N N 91 EQ4 C2 O4 sing N N 92 EQ4 C4 C5 sing N N 93 EQ4 O4 C5 sing N N 94 EQ4 C5 N5 sing N N 95 EQ4 C10 N5 sing Y N 96 EQ4 C10 N4 doub Y N 97 EQ4 N5 C7 sing Y N 98 EQ4 N4 C8 sing Y N 99 EQ4 C7 C8 doub Y N 100 EQ4 C7 N3 sing N N 101 EQ4 C8 C9 sing N N 102 EQ4 N3 C6 doub N N 103 EQ4 C9 O7 doub N N 104 EQ4 C9 N1 sing N N 105 EQ4 C6 N1 sing N N 106 EQ4 C6 N2 sing N N 107 EQ4 O1 H1 sing N N 108 EQ4 C1 H2 sing N N 109 EQ4 C1 H3 sing N N 110 EQ4 C2 H4 sing N N 111 EQ4 C3 H5 sing N N 112 EQ4 O5 H6 sing N N 113 EQ4 C4 H7 sing N N 114 EQ4 O6 H8 sing N N 115 EQ4 C5 H9 sing N N 116 EQ4 N1 H10 sing N N 117 EQ4 N2 H11 sing N N 118 EQ4 N2 H12 sing N N 119 EQ4 C10 H13 sing N N 120 EQ4 C11 H14 sing N N 121 EQ4 C12 H15 sing N N 122 EQ4 N8 H16 sing N N 123 EQ4 N8 H17 sing N N 124 G OP3 P sing N N 125 G OP3 HOP3 sing N N 126 G P OP1 doub N N 127 G P OP2 sing N N 128 G P "O5'" sing N N 129 G OP2 HOP2 sing N N 130 G "O5'" "C5'" sing N N 131 G "C5'" "C4'" sing N N 132 G "C5'" "H5'" sing N N 133 G "C5'" "H5''" sing N N 134 G "C4'" "O4'" sing N N 135 G "C4'" "C3'" sing N N 136 G "C4'" "H4'" sing N N 137 G "O4'" "C1'" sing N N 138 G "C3'" "O3'" sing N N 139 G "C3'" "C2'" sing N N 140 G "C3'" "H3'" sing N N 141 G "O3'" "HO3'" sing N N 142 G "C2'" "O2'" sing N N 143 G "C2'" "C1'" sing N N 144 G "C2'" "H2'" sing N N 145 G "O2'" "HO2'" sing N N 146 G "C1'" N9 sing N N 147 G "C1'" "H1'" sing N N 148 G N9 C8 sing Y N 149 G N9 C4 sing Y N 150 G C8 N7 doub Y N 151 G C8 H8 sing N N 152 G N7 C5 sing Y N 153 G C5 C6 sing N N 154 G C5 C4 doub Y N 155 G C6 O6 doub N N 156 G C6 N1 sing N N 157 G N1 C2 sing N N 158 G N1 H1 sing N N 159 G C2 N2 sing N N 160 G C2 N3 doub N N 161 G N2 H21 sing N N 162 G N2 H22 sing N N 163 G N3 C4 sing N N 164 HOH O H1 sing N N 165 HOH O H2 sing N N 166 LCC "O5'" "C5'" sing N N 167 LCC "O5'" P sing N N 168 LCC "C5'" "C4'" sing N N 169 LCC "C5'" "H5'1" sing N N 170 LCC "C5'" "H5'2" sing N N 171 LCC "C4'" "O4'" sing N N 172 LCC "C4'" "C3'" sing N N 173 LCC "C4'" "C6'" sing N N 174 LCC "O4'" "C1'" sing N N 175 LCC "C1'" N1 sing N N 176 LCC "C1'" "C2'" sing N N 177 LCC "C1'" "H1'" sing N N 178 LCC N1 C6 sing N N 179 LCC N1 C2 sing N N 180 LCC C6 C5 doub N N 181 LCC C6 H6 sing N N 182 LCC C5 C5M sing N N 183 LCC C5 C4 sing N N 184 LCC C5M H5M1 sing N N 185 LCC C5M H5M2 sing N N 186 LCC C5M H5M3 sing N N 187 LCC C4 N4 sing N N 188 LCC C4 N3 doub N N 189 LCC N4 H41 sing N N 190 LCC N4 H42 sing N N 191 LCC N3 C2 sing N N 192 LCC C2 O2 doub N N 193 LCC "C3'" "C2'" sing N N 194 LCC "C3'" "O3'" sing N N 195 LCC "C3'" "H3'" sing N N 196 LCC "C2'" "O2'" sing N N 197 LCC "C2'" "H2'1" sing N N 198 LCC "O2'" "C6'" sing N N 199 LCC "O3'" H3T sing N N 200 LCC "C6'" "H6'1" sing N N 201 LCC "C6'" "H6'2" sing N N 202 LCC P O1P sing N N 203 LCC P O2P doub N N 204 LCC P OXT sing N N 205 LCC O1P H1P sing N N 206 LCC OXT HXT sing N N 207 LCG P OP1 doub N N 208 LCG P "O5'" sing N N 209 LCG P OP2 sing N N 210 LCG P OP3 sing N N 211 LCG "O5'" "C5'" sing N N 212 LCG "C5'" "C4'" sing N N 213 LCG "C5'" "H5'" sing N N 214 LCG "C5'" "H5''" sing N N 215 LCG "C3'" "C2'" sing N N 216 LCG "C3'" "C4'" sing N N 217 LCG "C3'" "O3'" sing N N 218 LCG "C3'" "H3'" sing N N 219 LCG "C6'" "C4'" sing N N 220 LCG "C6'" "O2'" sing N N 221 LCG "C6'" "H6'1" sing N N 222 LCG "C6'" "H6'2" sing N N 223 LCG N9 C8 sing Y N 224 LCG N9 C4 sing Y N 225 LCG N9 "C1'" sing N N 226 LCG C8 N7 doub Y N 227 LCG C8 H8 sing N N 228 LCG C4 C5 doub Y N 229 LCG C4 N3 sing N N 230 LCG N7 C5 sing Y N 231 LCG C5 C6 sing N N 232 LCG C6 O6 doub N N 233 LCG C6 N1 sing N N 234 LCG "C2'" "C1'" sing N N 235 LCG "C2'" "O2'" sing N N 236 LCG "C2'" "H2'" sing N N 237 LCG "C4'" "O4'" sing N N 238 LCG "C1'" "O4'" sing N N 239 LCG "C1'" "H1'" sing N N 240 LCG C2 N1 sing N N 241 LCG C2 N2 sing N N 242 LCG C2 N3 doub N N 243 LCG N1 H1 sing N N 244 LCG OP2 HOP2 sing N N 245 LCG N2 H21 sing N N 246 LCG N2 H22 sing N N 247 LCG "O3'" "HO3'" sing N N 248 LCG OP3 HOP3 sing N N 249 U OP3 P sing N N 250 U OP3 HOP3 sing N N 251 U P OP1 doub N N 252 U P OP2 sing N N 253 U P "O5'" sing N N 254 U OP2 HOP2 sing N N 255 U "O5'" "C5'" sing N N 256 U "C5'" "C4'" sing N N 257 U "C5'" "H5'" sing N N 258 U "C5'" "H5''" sing N N 259 U "C4'" "O4'" sing N N 260 U "C4'" "C3'" sing N N 261 U "C4'" "H4'" sing N N 262 U "O4'" "C1'" sing N N 263 U "C3'" "O3'" sing N N 264 U "C3'" "C2'" sing N N 265 U "C3'" "H3'" sing N N 266 U "O3'" "HO3'" sing N N 267 U "C2'" "O2'" sing N N 268 U "C2'" "C1'" sing N N 269 U "C2'" "H2'" sing N N 270 U "O2'" "HO2'" sing N N 271 U "C1'" N1 sing N N 272 U "C1'" "H1'" sing N N 273 U N1 C2 sing N N 274 U N1 C6 sing N N 275 U C2 O2 doub N N 276 U C2 N3 sing N N 277 U N3 C4 sing N N 278 U N3 H3 sing N N 279 U C4 O4 doub N N 280 U C4 C5 sing N N 281 U C5 C6 doub N N 282 U C5 H5 sing N N 283 U C6 H6 sing N N 284 # _ndb_struct_conf_na.entry_id 9YD3 _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 -0.253 -0.175 0.158 -2.031 -13.215 -0.616 1 A_LCG4:C13_B A 4 ? B 13 ? 19 1 1 A A 5 1_555 B U 12 1_555 -0.124 -0.104 -0.006 3.359 -5.938 -5.832 2 A_A5:U12_B A 5 ? B 12 ? 20 1 1 A C 6 1_555 B G 11 1_555 0.159 -0.110 -0.009 10.485 -14.375 -0.226 3 A_C6:G11_B A 6 ? B 11 ? 19 1 1 A U 7 1_555 B A 10 1_555 0.001 -0.086 -0.002 3.485 -12.528 4.152 4 A_U7:A10_B A 7 ? B 10 ? 20 1 1 A U 8 1_555 B A 9 1_555 -0.239 -0.062 0.074 1.473 -6.973 2.732 5 A_U8:A9_B A 8 ? B 9 ? 20 1 1 A A 9 1_555 B U 8 1_555 0.274 -0.053 -0.103 -4.408 -7.053 3.236 6 A_A9:U8_B A 9 ? B 8 ? 20 1 1 A A 10 1_555 B U 7 1_555 0.053 -0.073 0.037 -3.280 -11.959 4.783 7 A_A10:U7_B A 10 ? B 7 ? 20 1 1 A G 11 1_555 B C 6 1_555 -0.135 -0.140 -0.057 -9.350 -14.789 -0.645 8 A_G11:C6_B A 11 ? B 6 ? 19 1 1 A U 12 1_555 B A 5 1_555 0.066 -0.078 -0.015 -2.370 -7.482 -4.630 9 A_U12:A5_B A 12 ? B 5 ? 20 1 1 A C 13 1_555 B LCG 4 1_555 0.252 -0.157 0.149 2.032 -12.949 -0.613 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 -0.481 -1.308 3.144 -0.204 3.777 31.729 -3.018 0.840 2.976 6.878 0.372 31.948 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 0.736 -1.444 3.079 1.474 2.994 33.864 -2.911 -1.039 2.973 5.124 -2.522 34.023 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 -0.035 -1.751 3.384 -0.794 11.398 29.714 -5.161 -0.073 2.555 21.263 1.480 31.789 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 -0.195 -1.272 3.283 -1.786 9.074 30.354 -3.918 0.043 2.802 16.845 3.315 31.700 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 -0.066 -1.279 3.281 0.930 20.767 35.337 -3.910 0.188 2.224 31.116 -1.394 40.829 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 0.204 -1.250 3.203 0.002 7.933 30.038 -3.756 -0.381 2.790 14.980 -0.004 31.044 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 -0.002 -1.727 3.358 1.635 11.266 29.543 -5.119 0.287 2.541 21.130 -3.067 31.615 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 -0.678 -1.445 3.106 -1.321 3.147 33.717 -2.952 0.965 2.987 5.408 2.269 33.884 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 0.465 -1.283 3.162 -0.094 4.440 31.700 -3.082 -0.858 2.958 8.078 0.171 32.001 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 9YD3 _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] 0.021125 _atom_sites.fract_transf_matrix[1][2] 0.012196 _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] 0.024393 _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] 0.012028 _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_ #