data_6XUS # _entry.id 6XUS # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 6XUS pdb_00006xus 10.2210/pdb6xus/pdb WWPDB D_1292105554 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2021-02-03 2 'Structure model' 1 1 2021-08-18 3 'Structure model' 1 2 2024-01-24 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 2 'Structure model' database_2 4 3 'Structure model' chem_comp_atom 5 3 'Structure model' chem_comp_bond 6 3 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.journal_volume' 7 2 'Structure model' '_citation.page_first' 8 2 'Structure model' '_citation.page_last' 9 2 'Structure model' '_citation.pdbx_database_id_DOI' 10 2 'Structure model' '_citation.pdbx_database_id_PubMed' 11 2 'Structure model' '_citation.title' 12 2 'Structure model' '_citation.year' 13 2 'Structure model' '_database_2.pdbx_DOI' 14 2 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6XUS _pdbx_database_status.recvd_initial_deposition_date 2020-01-21 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _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 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Ennifar, E.' 1 ? 'Micura, R.' 2 ? 'Gasser, C.' 3 ? 'Brillet, K.' 4 ? # _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 GE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Angew.Chem.Int.Ed.Engl. _citation.journal_id_ASTM ACIEAY _citation.journal_id_CSD 0179 _citation.journal_id_ISSN 1521-3773 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 59 _citation.language ? _citation.page_first 6881 _citation.page_last 6886 _citation.title 'Thioguanosine Conversion Enables mRNA-Lifetime Evaluation by RNA Sequencing Using Double Metabolic Labeling (TUC-seq DUAL).' _citation.year 2020 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/anie.201916272 _citation.pdbx_database_id_PubMed 31999864 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Gasser, C.' 1 ? primary 'Delazer, I.' 2 ? primary 'Neuner, E.' 3 ? primary 'Pascher, K.' 4 ? primary 'Brillet, K.' 5 ? primary 'Klotz, S.' 6 ? primary 'Trixl, L.' 7 ? primary 'Himmelstoss, M.' 8 ? primary 'Ennifar, E.' 9 ? primary 'Rieder, D.' 10 0000-0003-1754-690X primary 'Lusser, A.' 11 0000-0002-2226-9081 primary 'Micura, R.' 12 0000-0003-2661-6105 # 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 dodecamer with a 6-hydrazino-2-aminopurine modified base' 3881.390 1 ? ? ? ? 2 non-polymer syn 'SODIUM ION' 22.990 2 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 4 water nat water 18.015 105 ? ? ? ? # _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 'CGCGA(O2Z)UUAGCG' _entity_poly.pdbx_seq_one_letter_code_can CGCGAAUUAGCG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SODIUM ION' NA 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 C n 1 2 G n 1 3 C n 1 4 G n 1 5 A n 1 6 O2Z n 1 7 U n 1 8 U n 1 9 A n 1 10 G n 1 11 C n 1 12 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 ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _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 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 O2Z 'RNA linking' n '[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-diazanyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxyphosphinic acid' ? 'C10 H16 N7 O7 P' 377.251 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 C 1 1001 1001 C C A . n A 1 2 G 2 1002 1002 G G A . n A 1 3 C 3 1003 1003 C C A . n A 1 4 G 4 1004 1004 G G A . n A 1 5 A 5 1005 1005 A A A . n A 1 6 O2Z 6 1006 1006 O2Z 6HA A . n A 1 7 U 7 1007 1007 U U A . n A 1 8 U 8 1008 1008 U U A . n A 1 9 A 9 1009 1009 A A A . n A 1 10 G 10 1010 1010 G G A . n A 1 11 C 11 1011 1011 C C A . n A 1 12 G 12 1012 1012 G G A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 NA 1 1101 6 NA NA1 A . C 3 MG 1 1102 77 MG MG2 A . D 2 NA 1 1103 104 NA NA1 A . E 4 HOH 1 1201 73 HOH HOH A . E 4 HOH 2 1202 109 HOH HOH A . E 4 HOH 3 1203 92 HOH HOH A . E 4 HOH 4 1204 97 HOH HOH A . E 4 HOH 5 1205 96 HOH HOH A . E 4 HOH 6 1206 31 HOH HOH A . E 4 HOH 7 1207 46 HOH HOH A . E 4 HOH 8 1208 41 HOH HOH A . E 4 HOH 9 1209 110 HOH HOH A . E 4 HOH 10 1210 64 HOH HOH A . E 4 HOH 11 1211 88 HOH HOH A . E 4 HOH 12 1212 30 HOH HOH A . E 4 HOH 13 1213 36 HOH HOH A . E 4 HOH 14 1214 102 HOH HOH A . E 4 HOH 15 1215 11 HOH HOH A . E 4 HOH 16 1216 9 HOH HOH A . E 4 HOH 17 1217 42 HOH HOH A . E 4 HOH 18 1218 105 HOH HOH A . E 4 HOH 19 1219 4 HOH HOH A . E 4 HOH 20 1220 26 HOH HOH A . E 4 HOH 21 1221 28 HOH HOH A . E 4 HOH 22 1222 40 HOH HOH A . E 4 HOH 23 1223 2 HOH HOH A . E 4 HOH 24 1224 3 HOH HOH A . E 4 HOH 25 1225 25 HOH HOH A . E 4 HOH 26 1226 82 HOH HOH A . E 4 HOH 27 1227 29 HOH HOH A . E 4 HOH 28 1228 65 HOH HOH A . E 4 HOH 29 1229 19 HOH HOH A . E 4 HOH 30 1230 17 HOH HOH A . E 4 HOH 31 1231 24 HOH HOH A . E 4 HOH 32 1232 50 HOH HOH A . E 4 HOH 33 1233 34 HOH HOH A . E 4 HOH 34 1234 22 HOH HOH A . E 4 HOH 35 1235 7 HOH HOH A . E 4 HOH 36 1236 98 HOH HOH A . E 4 HOH 37 1237 76 HOH HOH A . E 4 HOH 38 1238 89 HOH HOH A . E 4 HOH 39 1239 35 HOH HOH A . E 4 HOH 40 1240 5 HOH HOH A . E 4 HOH 41 1241 1 HOH HOH A . E 4 HOH 42 1242 16 HOH HOH A . E 4 HOH 43 1243 56 HOH HOH A . E 4 HOH 44 1244 38 HOH HOH A . E 4 HOH 45 1245 58 HOH HOH A . E 4 HOH 46 1246 21 HOH HOH A . E 4 HOH 47 1247 18 HOH HOH A . E 4 HOH 48 1248 55 HOH HOH A . E 4 HOH 49 1249 51 HOH HOH A . E 4 HOH 50 1250 112 HOH HOH A . E 4 HOH 51 1251 39 HOH HOH A . E 4 HOH 52 1252 66 HOH HOH A . E 4 HOH 53 1253 10 HOH HOH A . E 4 HOH 54 1254 70 HOH HOH A . E 4 HOH 55 1255 100 HOH HOH A . E 4 HOH 56 1256 48 HOH HOH A . E 4 HOH 57 1257 14 HOH HOH A . E 4 HOH 58 1258 84 HOH HOH A . E 4 HOH 59 1259 13 HOH HOH A . E 4 HOH 60 1260 8 HOH HOH A . E 4 HOH 61 1261 43 HOH HOH A . E 4 HOH 62 1262 57 HOH HOH A . E 4 HOH 63 1263 62 HOH HOH A . E 4 HOH 64 1264 72 HOH HOH A . E 4 HOH 65 1265 15 HOH HOH A . E 4 HOH 66 1266 12 HOH HOH A . E 4 HOH 67 1267 47 HOH HOH A . E 4 HOH 68 1268 86 HOH HOH A . E 4 HOH 69 1269 27 HOH HOH A . E 4 HOH 70 1270 52 HOH HOH A . E 4 HOH 71 1271 95 HOH HOH A . E 4 HOH 72 1272 61 HOH HOH A . E 4 HOH 73 1273 33 HOH HOH A . E 4 HOH 74 1274 20 HOH HOH A . E 4 HOH 75 1275 108 HOH HOH A . E 4 HOH 76 1276 32 HOH HOH A . E 4 HOH 77 1277 94 HOH HOH A . E 4 HOH 78 1278 63 HOH HOH A . E 4 HOH 79 1279 37 HOH HOH A . E 4 HOH 80 1280 23 HOH HOH A . E 4 HOH 81 1281 67 HOH HOH A . E 4 HOH 82 1282 71 HOH HOH A . E 4 HOH 83 1283 45 HOH HOH A . E 4 HOH 84 1284 68 HOH HOH A . E 4 HOH 85 1285 54 HOH HOH A . E 4 HOH 86 1286 60 HOH HOH A . E 4 HOH 87 1287 78 HOH HOH A . E 4 HOH 88 1288 93 HOH HOH A . E 4 HOH 89 1289 114 HOH HOH A . E 4 HOH 90 1290 81 HOH HOH A . E 4 HOH 91 1291 79 HOH HOH A . E 4 HOH 92 1292 69 HOH HOH A . E 4 HOH 93 1293 99 HOH HOH A . E 4 HOH 94 1294 91 HOH HOH A . E 4 HOH 95 1295 53 HOH HOH A . E 4 HOH 96 1296 44 HOH HOH A . E 4 HOH 97 1297 106 HOH HOH A . E 4 HOH 98 1298 107 HOH HOH A . E 4 HOH 99 1299 101 HOH HOH A . E 4 HOH 100 1300 90 HOH HOH A . E 4 HOH 101 1301 113 HOH HOH A . E 4 HOH 102 1302 103 HOH HOH A . E 4 HOH 103 1303 59 HOH HOH A . E 4 HOH 104 1304 85 HOH HOH A . E 4 HOH 105 1305 111 HOH HOH A . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.15.2_3472 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.15.2_3472 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XSCALE ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? MOLREP ? ? ? . 5 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 129.426 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 6XUS _cell.details ? _cell.formula_units_Z ? _cell.length_a 41.120 _cell.length_a_esd ? _cell.length_b 35.140 _cell.length_b_esd ? _cell.length_c 31.870 _cell.length_c_esd ? _cell.volume 35571.713 _cell.volume_esd ? _cell.Z_PDB 4 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XUS _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 6XUS _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 2.29 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 46.32 _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_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING 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 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'MPD, Na Cacodylate, spermine, NaCl, MgCl2' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-07-01 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.000 _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 'SLS BEAMLINE X10SA' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.000 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline X10SA _diffrn_source.pdbx_synchrotron_site SLS # _reflns.B_iso_Wilson_estimate 13.68 _reflns.entry_id 6XUS _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.04 _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 106381 _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 99.1 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 6.3 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 13.32 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.05 _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 1.0 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.04 _reflns_shell.d_res_low 1.07 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 0.29 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 1200 _reflns_shell.percent_possible_all 98.6 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 261.0 _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.148 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 19.24 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6XUS _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 1.10 _refine.ls_d_res_low 24.62 _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 14312 _refine.ls_number_reflns_R_free 716 _refine.ls_number_reflns_R_work 13596 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.86 _refine.ls_percent_reflns_R_free 5.00 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1542 _refine.ls_R_factor_R_free 0.1737 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1531 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.36 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 2Q1R _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 0.6000 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.5000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 23.5847 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.1782 _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 1.10 _refine_hist.d_res_low 24.62 _refine_hist.number_atoms_solvent 105 _refine_hist.number_atoms_total 365 _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 257 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.0080 ? 306 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.8083 ? 476 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0340 ? 62 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0336 ? 14 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 6.4941 ? 142 ? f_dihedral_angle_d ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 1.10 1.19 . . 143 2700 99.72 . . . 0.3578 . 0.3270 . . . . . . . . . . . 'X-RAY DIFFRACTION' 1.19 1.30 . . 142 2695 99.96 . . . 0.2378 . 0.1968 . . . . . . . . . . . 'X-RAY DIFFRACTION' 1.30 1.49 . . 143 2718 100.00 . . . 0.1878 . 0.1590 . . . . . . . . . . . 'X-RAY DIFFRACTION' 1.49 1.88 . . 142 2721 99.76 . . . 0.1752 . 0.1455 . . . . . . . . . . . 'X-RAY DIFFRACTION' 1.88 24.62 . . 146 2762 99.86 . . . 0.1535 . 0.1385 . . . . . . . . . . . # _struct.entry_id 6XUS _struct.title 'RNA dodecamer with a 6-hydrazino-2-aminopurine modified base' _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 6XUS _struct_keywords.text '6-hydrazino-2-aminopurine modified base, 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 2 ? C N N 3 ? D N N 2 ? E N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 6XUS _struct_ref.pdbx_db_accession 6XUS _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6XUS _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 12 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 6XUS _struct_ref_seq.db_align_beg 1001 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 1012 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1001 _struct_ref_seq.pdbx_auth_seq_align_end 1012 # _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)' 1830 ? 1 MORE -42 ? 1 'SSA (A^2)' 4540 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _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 'the duplex was checked by UV melting' # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_656 -x+1,y,-z+1 -1.0000000000 0.0000000000 0.0000000000 20.8799652407 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 24.6178368859 # 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 A 5 "O3'" ? ? ? 1_555 A O2Z 6 P ? ? A A 1005 A O2Z 1006 1_555 ? ? ? ? ? ? ? 1.616 ? ? covale2 covale one ? A O2Z 6 "O3'" ? ? ? 1_555 A U 7 P ? ? A O2Z 1006 A U 1007 1_555 ? ? ? ? ? ? ? 1.603 ? ? metalc1 metalc ? ? A U 8 OP1 ? ? ? 1_555 D NA . NA ? ? A U 1008 A NA 1103 1_555 ? ? ? ? ? ? ? 2.388 ? ? metalc2 metalc ? ? B NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1101 A HOH 1213 2_656 ? ? ? ? ? ? ? 2.309 ? ? metalc3 metalc ? ? B NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1101 A HOH 1247 2_656 ? ? ? ? ? ? ? 2.545 ? ? metalc4 metalc ? ? B NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1101 A HOH 1253 1_555 ? ? ? ? ? ? ? 2.323 ? ? metalc5 metalc ? ? B NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1101 A HOH 1274 1_555 ? ? ? ? ? ? ? 2.223 ? ? metalc6 metalc ? ? B NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1101 A HOH 1296 2_656 ? ? ? ? ? ? ? 2.221 ? ? metalc7 metalc ? ? B NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1101 A HOH 1300 1_555 ? ? ? ? ? ? ? 2.256 ? ? metalc8 metalc ? ? C MG . MG A ? ? 1_555 E HOH . O ? ? A MG 1102 A HOH 1237 1_555 ? ? ? ? ? ? ? 2.506 ? ? metalc9 metalc ? ? C MG . MG A ? ? 1_555 E HOH . O A ? A MG 1102 A HOH 1238 1_555 ? ? ? ? ? ? ? 2.116 ? ? metalc10 metalc ? ? C MG . MG A ? ? 1_555 E HOH . O ? ? A MG 1102 A HOH 1273 1_555 ? ? ? ? ? ? ? 2.084 ? ? metalc11 metalc ? ? C MG . MG A ? ? 1_555 E HOH . O A ? A MG 1102 A HOH 1287 2_656 ? ? ? ? ? ? ? 2.084 ? ? metalc12 metalc ? ? C MG . MG A ? ? 1_555 E HOH . O A ? A MG 1102 A HOH 1294 2_656 ? ? ? ? ? ? ? 2.251 ? ? metalc13 metalc ? ? D NA . NA ? ? ? 1_555 E HOH . O ? ? A NA 1103 A HOH 1292 3_545 ? ? ? ? ? ? ? 2.919 ? ? hydrog1 hydrog ? ? A C 1 N3 A ? ? 1_555 A G 12 N1 ? ? A C 1001 A G 1012 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N3 B ? ? 1_555 A G 12 N1 ? ? A C 1001 A G 1012 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 N4 A ? ? 1_555 A G 12 O6 ? ? A C 1001 A G 1012 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 1 N4 B ? ? 1_555 A G 12 O6 ? ? A C 1001 A G 1012 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 1 O2 A ? ? 1_555 A G 12 N2 ? ? A C 1001 A G 1012 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 1 O2 B ? ? 1_555 A G 12 N2 ? ? A C 1001 A G 1012 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 11 N3 ? ? A G 1002 A C 1011 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 11 O2 ? ? A G 1002 A C 1011 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 11 N4 ? ? A G 1002 A C 1011 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 10 N1 ? ? A C 1003 A G 1010 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 10 O6 ? ? A C 1003 A G 1010 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 10 N2 ? ? A C 1003 A G 1010 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 4 N1 ? ? ? 1_555 A A 9 N1 ? ? A G 1004 A A 1009 2_656 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog14 hydrog ? ? A G 4 O6 ? ? ? 1_555 A A 9 N6 ? ? A G 1004 A A 1009 2_656 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog15 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 8 N3 ? ? A A 1005 A U 1008 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 8 O4 ? ? A A 1005 A U 1008 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A O2Z 6 N1 ? ? ? 1_555 A U 7 N3 ? ? A O2Z 1006 A U 1007 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A O2Z 6 N6 ? ? ? 1_555 A U 7 O4 ? ? A O2Z 1006 A U 1007 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A U 7 N3 ? ? ? 1_555 A O2Z 6 N1 ? ? A U 1007 A O2Z 1006 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 7 O4 ? ? ? 1_555 A O2Z 6 N6 ? ? A U 1007 A O2Z 1006 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 8 N3 ? ? ? 1_555 A A 5 N1 ? ? A U 1008 A A 1005 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 8 O4 ? ? ? 1_555 A A 5 N6 ? ? A U 1008 A A 1005 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A A 9 N1 ? ? ? 1_555 A G 4 N1 ? ? A A 1009 A G 1004 2_656 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog24 hydrog ? ? A A 9 N6 ? ? ? 1_555 A G 4 O6 ? ? A A 1009 A G 1004 2_656 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog25 hydrog ? ? A G 10 N1 ? ? ? 1_555 A C 3 N3 ? ? A G 1010 A C 1003 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 10 N2 ? ? ? 1_555 A C 3 O2 ? ? A G 1010 A C 1003 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 10 O6 ? ? ? 1_555 A C 3 N4 ? ? A G 1010 A C 1003 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 11 N3 ? ? ? 1_555 A G 2 N1 ? ? A C 1011 A G 1002 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 11 N4 ? ? ? 1_555 A G 2 O6 ? ? A C 1011 A G 1002 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 11 O2 ? ? ? 1_555 A G 2 N2 ? ? A C 1011 A G 1002 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 12 N1 ? ? ? 1_555 A C 1 N3 A ? A G 1012 A C 1001 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 12 N1 ? ? ? 1_555 A C 1 N3 B ? A G 1012 A C 1001 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 12 N2 ? ? ? 1_555 A C 1 O2 A ? A G 1012 A C 1001 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 12 N2 ? ? ? 1_555 A C 1 O2 B ? A G 1012 A C 1001 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 12 O6 ? ? ? 1_555 A C 1 N4 A ? A G 1012 A C 1001 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 12 O6 ? ? ? 1_555 A C 1 N4 B ? A G 1012 A C 1001 2_656 ? ? ? ? ? ? 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 OP1 ? A U 8 ? A U 1008 ? 1_555 NA ? D NA . ? A NA 1103 ? 1_555 O ? E HOH . ? A HOH 1292 ? 3_545 101.8 ? 2 O ? E HOH . ? A HOH 1213 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1247 ? 2_656 88.1 ? 3 O ? E HOH . ? A HOH 1213 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1253 ? 1_555 87.4 ? 4 O ? E HOH . ? A HOH 1247 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1253 ? 1_555 86.4 ? 5 O ? E HOH . ? A HOH 1213 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1274 ? 1_555 98.3 ? 6 O ? E HOH . ? A HOH 1247 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1274 ? 1_555 172.7 ? 7 O ? E HOH . ? A HOH 1253 ? 1_555 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1274 ? 1_555 90.6 ? 8 O ? E HOH . ? A HOH 1213 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1296 ? 2_656 89.6 ? 9 O ? E HOH . ? A HOH 1247 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1296 ? 2_656 96.6 ? 10 O ? E HOH . ? A HOH 1253 ? 1_555 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1296 ? 2_656 175.7 ? 11 O ? E HOH . ? A HOH 1274 ? 1_555 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1296 ? 2_656 86.7 ? 12 O ? E HOH . ? A HOH 1213 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1300 ? 1_555 174.1 ? 13 O ? E HOH . ? A HOH 1247 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1300 ? 1_555 86.1 ? 14 O ? E HOH . ? A HOH 1253 ? 1_555 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1300 ? 1_555 91.2 ? 15 O ? E HOH . ? A HOH 1274 ? 1_555 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1300 ? 1_555 87.4 ? 16 O ? E HOH . ? A HOH 1296 ? 2_656 NA ? B NA . ? A NA 1101 ? 1_555 O ? E HOH . ? A HOH 1300 ? 1_555 92.1 ? 17 O ? E HOH . ? A HOH 1237 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1238 ? 1_555 103.4 ? 18 O ? E HOH . ? A HOH 1237 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O ? E HOH . ? A HOH 1273 ? 1_555 92.1 ? 19 O A E HOH . ? A HOH 1238 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O ? E HOH . ? A HOH 1273 ? 1_555 81.9 ? 20 O ? E HOH . ? A HOH 1237 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1287 ? 2_656 89.7 ? 21 O A E HOH . ? A HOH 1238 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1287 ? 2_656 98.7 ? 22 O ? E HOH . ? A HOH 1273 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1287 ? 2_656 177.9 ? 23 O ? E HOH . ? A HOH 1237 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1294 ? 2_656 77.1 ? 24 O A E HOH . ? A HOH 1238 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1294 ? 2_656 173.9 ? 25 O ? E HOH . ? A HOH 1273 ? 1_555 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1294 ? 2_656 92.0 ? 26 O A E HOH . ? A HOH 1287 ? 2_656 MG A C MG . ? A MG 1102 ? 1_555 O A E HOH . ? A HOH 1294 ? 2_656 87.4 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A NA 1101 ? 6 'binding site for residue NA A 1101' AC2 Software A MG 1102 ? 5 'binding site for residue MG A 1102' AC3 Software A NA 1103 ? 2 'binding site for residue NA A 1103' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 HOH E . ? HOH A 1213 . ? 2_656 ? 2 AC1 6 HOH E . ? HOH A 1247 . ? 2_656 ? 3 AC1 6 HOH E . ? HOH A 1253 . ? 1_555 ? 4 AC1 6 HOH E . ? HOH A 1274 . ? 1_555 ? 5 AC1 6 HOH E . ? HOH A 1296 . ? 2_656 ? 6 AC1 6 HOH E . ? HOH A 1300 . ? 1_555 ? 7 AC2 5 HOH E . ? HOH A 1237 . ? 1_555 ? 8 AC2 5 HOH E . ? HOH A 1238 . ? 1_555 ? 9 AC2 5 HOH E . ? HOH A 1273 . ? 1_555 ? 10 AC2 5 HOH E . ? HOH A 1287 . ? 2_656 ? 11 AC2 5 HOH E . ? HOH A 1294 . ? 2_656 ? 12 AC3 2 U A 8 ? U A 1008 . ? 1_555 ? 13 AC3 2 HOH E . ? HOH A 1292 . ? 3_545 ? # 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 1270 ? E HOH . 2 1 A HOH 1290 ? E HOH . # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -x,y,-z 3 x+1/2,y+1/2,z 4 -x+1/2,y+1/2,-z # _pdbx_entry_details.entry_id 6XUS _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_distant_solvent_atoms.id 1 _pdbx_distant_solvent_atoms.PDB_model_num 1 _pdbx_distant_solvent_atoms.auth_atom_id O _pdbx_distant_solvent_atoms.label_alt_id ? _pdbx_distant_solvent_atoms.auth_asym_id A _pdbx_distant_solvent_atoms.auth_comp_id HOH _pdbx_distant_solvent_atoms.auth_seq_id 1305 _pdbx_distant_solvent_atoms.PDB_ins_code ? _pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 6.37 _pdbx_distant_solvent_atoms.neighbor_ligand_distance . # 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 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 MG MG MG N N 114 NA NA NA N N 115 O2Z P P N N 116 O2Z OP1 O N N 117 O2Z OP2 O N N 118 O2Z "O5'" O N N 119 O2Z "C5'" C N N 120 O2Z "C4'" C N R 121 O2Z "O4'" O N N 122 O2Z "C3'" C N S 123 O2Z "O3'" O N N 124 O2Z "C2'" C N R 125 O2Z "C1'" C N R 126 O2Z N9 N Y N 127 O2Z C8 C Y N 128 O2Z N7 N Y N 129 O2Z C5 C Y N 130 O2Z C6 C Y N 131 O2Z N6 N N N 132 O2Z N1 N Y N 133 O2Z C2 C Y N 134 O2Z N3 N Y N 135 O2Z C4 C Y N 136 O2Z "O2'" O N N 137 O2Z N26 N N N 138 O2Z N25 N N N 139 O2Z H2 H N N 140 O2Z "H5'1" H N N 141 O2Z "H5'2" H N N 142 O2Z "H4'" H N N 143 O2Z "H3'" H N N 144 O2Z H3 H N N 145 O2Z "H2'" H N N 146 O2Z H4 H N N 147 O2Z H5 H N N 148 O2Z H6 H N N 149 O2Z H7 H N N 150 O2Z H8 H N N 151 O2Z H9 H N N 152 O2Z H10 H N N 153 O2Z H11 H N N 154 O2Z OP3 O N N 155 O2Z H1 H N N 156 U OP3 O N N 157 U P P N N 158 U OP1 O N N 159 U OP2 O N N 160 U "O5'" O N N 161 U "C5'" C N N 162 U "C4'" C N R 163 U "O4'" O N N 164 U "C3'" C N S 165 U "O3'" O N N 166 U "C2'" C N R 167 U "O2'" O N N 168 U "C1'" C N R 169 U N1 N N N 170 U C2 C N N 171 U O2 O N N 172 U N3 N N N 173 U C4 C N N 174 U O4 O N N 175 U C5 C N N 176 U C6 C N N 177 U HOP3 H N N 178 U HOP2 H N N 179 U "H5'" H N N 180 U "H5''" H N N 181 U "H4'" H N N 182 U "H3'" H N N 183 U "HO3'" H N N 184 U "H2'" H N N 185 U "HO2'" H N N 186 U "H1'" H N N 187 U H3 H N N 188 U H5 H N N 189 U H6 H N N 190 # 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 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 O2Z "O3'" "C3'" sing N N 118 O2Z OP1 P sing N N 119 O2Z "O2'" "C2'" sing N N 120 O2Z "C3'" "C4'" sing N N 121 O2Z "C3'" "C2'" sing N N 122 O2Z "C5'" "C4'" sing N N 123 O2Z "C5'" "O5'" sing N N 124 O2Z "C4'" "O4'" sing N N 125 O2Z "C2'" "C1'" sing N N 126 O2Z "O5'" P sing N N 127 O2Z P OP2 doub N N 128 O2Z "O4'" "C1'" sing N N 129 O2Z "C1'" N9 sing N N 130 O2Z N9 C8 sing Y N 131 O2Z N9 C4 sing Y N 132 O2Z C8 N7 doub Y N 133 O2Z N3 C4 doub Y N 134 O2Z N3 C2 sing Y N 135 O2Z C4 C5 sing Y N 136 O2Z N26 C2 sing N N 137 O2Z C2 N1 doub Y N 138 O2Z N7 C5 sing Y N 139 O2Z C5 C6 doub Y N 140 O2Z N1 C6 sing Y N 141 O2Z C6 N6 sing N N 142 O2Z N6 N25 sing N N 143 O2Z OP1 H2 sing N N 144 O2Z "C5'" "H5'1" sing N N 145 O2Z "C5'" "H5'2" sing N N 146 O2Z "C4'" "H4'" sing N N 147 O2Z "C3'" "H3'" sing N N 148 O2Z "O3'" H3 sing N N 149 O2Z "C2'" "H2'" sing N N 150 O2Z "C1'" H4 sing N N 151 O2Z C8 H5 sing N N 152 O2Z N6 H6 sing N N 153 O2Z "O2'" H7 sing N N 154 O2Z N26 H8 sing N N 155 O2Z N26 H9 sing N N 156 O2Z N25 H10 sing N N 157 O2Z N25 H11 sing N N 158 O2Z P OP3 sing N N 159 O2Z OP3 H1 sing N N 160 U OP3 P sing N N 161 U OP3 HOP3 sing N N 162 U P OP1 doub N N 163 U P OP2 sing N N 164 U P "O5'" sing N N 165 U OP2 HOP2 sing N N 166 U "O5'" "C5'" sing N N 167 U "C5'" "C4'" sing N N 168 U "C5'" "H5'" sing N N 169 U "C5'" "H5''" sing N N 170 U "C4'" "O4'" sing N N 171 U "C4'" "C3'" sing N N 172 U "C4'" "H4'" sing N N 173 U "O4'" "C1'" sing N N 174 U "C3'" "O3'" sing N N 175 U "C3'" "C2'" sing N N 176 U "C3'" "H3'" sing N N 177 U "O3'" "HO3'" sing N N 178 U "C2'" "O2'" sing N N 179 U "C2'" "C1'" sing N N 180 U "C2'" "H2'" sing N N 181 U "O2'" "HO2'" sing N N 182 U "C1'" N1 sing N N 183 U "C1'" "H1'" sing N N 184 U N1 C2 sing N N 185 U N1 C6 sing N N 186 U C2 O2 doub N N 187 U C2 N3 sing N N 188 U N3 C4 sing N N 189 U N3 H3 sing N N 190 U C4 O4 doub N N 191 U C4 C5 sing N N 192 U C5 C6 doub N N 193 U C5 H5 sing N N 194 U C6 H6 sing N N 195 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6XUS 'double helix' 6XUS 'a-form double helix' 6XUS 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A C 1 1_555 A G 12 2_656 0.127 -0.105 -0.044 8.965 -17.508 -0.405 1 A_C1001:G1012_A A 1001 ? A 1012 ? 19 1 1 A G 2 1_555 A C 11 2_656 -0.296 -0.177 0.022 -5.652 -18.547 1.222 2 A_G1002:C1011_A A 1002 ? A 1011 ? 19 1 1 A C 3 1_555 A G 10 2_656 0.076 -0.163 0.307 -5.101 -13.836 -3.252 3 A_C1003:G1010_A A 1003 ? A 1010 ? 19 1 1 A G 4 1_555 A A 9 2_656 0.007 1.521 -0.294 1.890 -8.392 -19.252 4 A_G1004:A1009_A A 1004 ? A 1009 ? 8 1 1 A A 5 1_555 A U 8 2_656 0.043 -0.033 0.254 5.248 -11.740 -5.227 5 A_A1005:U1008_A A 1005 ? A 1008 ? 20 1 1 A O2Z 6 1_555 A U 7 2_656 -0.090 -0.028 0.007 0.594 -19.665 -3.463 6 A_O2Z1006:U1007_A A 1006 ? A 1007 ? 20 1 1 A U 7 1_555 A O2Z 6 2_656 0.090 -0.028 0.007 -0.594 -19.665 -3.463 7 A_U1007:O2Z1006_A A 1007 ? A 1006 ? 20 1 1 A U 8 1_555 A A 5 2_656 -0.043 -0.033 0.254 -5.248 -11.740 -5.227 8 A_U1008:A1005_A A 1008 ? A 1005 ? 20 1 1 A A 9 1_555 A G 4 2_656 -0.007 1.521 -0.294 -1.890 -8.392 -19.252 9 A_A1009:G1004_A A 1009 ? A 1004 ? 8 1 1 A G 10 1_555 A C 3 2_656 -0.076 -0.163 0.307 5.101 -13.836 -3.252 10 A_G1010:C1003_A A 1010 ? A 1003 ? 19 1 1 A C 11 1_555 A G 2 2_656 0.296 -0.177 0.022 5.652 -18.547 1.222 11 A_C1011:G1002_A A 1011 ? A 1002 ? 19 1 1 A G 12 1_555 A C 1 2_656 -0.127 -0.105 -0.044 -8.965 -17.508 -0.405 12 A_G1012:C1001_A A 1012 ? A 1001 ? 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 C 1 1_555 A G 12 2_656 A G 2 1_555 A C 11 2_656 -0.379 -1.664 3.455 -3.291 14.019 32.164 -4.769 0.155 2.557 23.866 5.602 35.162 1 AA_C1001G1002:C1011G1012_AA A 1001 ? A 1012 ? A 1002 ? A 1011 ? 1 A G 2 1_555 A C 11 2_656 A C 3 1_555 A G 10 2_656 -0.565 -1.268 3.203 -2.871 4.083 35.198 -2.653 0.521 3.076 6.709 4.718 35.539 2 AA_G1002C1003:G1010C1011_AA A 1002 ? A 1011 ? A 1003 ? A 1010 ? 1 A C 3 1_555 A G 10 2_656 A G 4 1_555 A A 9 2_656 -0.893 -1.260 3.069 3.384 8.884 28.362 -4.041 2.340 2.450 17.521 -6.674 29.882 3 AA_C1003G1004:A1009G1010_AA A 1003 ? A 1010 ? A 1004 ? A 1009 ? 1 A G 4 1_555 A A 9 2_656 A A 5 1_555 A U 8 2_656 0.656 -1.505 3.102 -3.925 10.169 28.919 -4.530 -1.889 2.344 19.509 7.530 30.864 4 AA_G1004A1005:U1008A1009_AA A 1004 ? A 1009 ? A 1005 ? A 1008 ? 1 A A 5 1_555 A U 8 2_656 A O2Z 6 1_555 A U 7 2_656 -0.041 -1.249 3.337 1.099 10.435 34.763 -3.421 0.216 2.854 16.992 -1.789 36.265 5 AA_A1005O2Z1006:U1007U1008_AA A 1005 ? A 1008 ? A 1006 ? A 1007 ? 1 A O2Z 6 1_555 A U 7 2_656 A U 7 1_555 A O2Z 6 2_656 0.000 -1.316 3.219 0.000 8.158 33.377 -3.428 0.000 2.829 13.946 0.000 34.332 6 AA_O2Z1006U1007:O2Z1006U1007_AA A 1006 ? A 1007 ? A 1007 ? A 1006 ? 1 A U 7 1_555 A O2Z 6 2_656 A U 8 1_555 A A 5 2_656 0.041 -1.249 3.337 -1.099 10.435 34.763 -3.421 -0.216 2.854 16.992 1.789 36.265 7 AA_U1007U1008:A1005O2Z1006_AA A 1007 ? A 1006 ? A 1008 ? A 1005 ? 1 A U 8 1_555 A A 5 2_656 A A 9 1_555 A G 4 2_656 -0.656 -1.505 3.102 3.925 10.169 28.919 -4.530 1.889 2.344 19.509 -7.530 30.864 8 AA_U1008A1009:G1004A1005_AA A 1008 ? A 1005 ? A 1009 ? A 1004 ? 1 A A 9 1_555 A G 4 2_656 A G 10 1_555 A C 3 2_656 0.893 -1.260 3.069 -3.384 8.884 28.362 -4.041 -2.340 2.450 17.521 6.674 29.882 9 AA_A1009G1010:C1003G1004_AA A 1009 ? A 1004 ? A 1010 ? A 1003 ? 1 A G 10 1_555 A C 3 2_656 A C 11 1_555 A G 2 2_656 0.565 -1.268 3.203 2.871 4.083 35.198 -2.653 -0.521 3.076 6.709 -4.718 35.539 10 AA_G1010C1011:G1002C1003_AA A 1010 ? A 1003 ? A 1011 ? A 1002 ? 1 A C 11 1_555 A G 2 2_656 A G 12 1_555 A C 1 2_656 0.379 -1.664 3.455 3.291 14.019 32.164 -4.769 -0.155 2.557 23.866 -5.602 35.162 11 AA_C1011G1012:C1001G1002_AA A 1011 ? A 1002 ? A 1012 ? A 1001 ? # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id O2Z _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id O2Z _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 ? # _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 2Q1R _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'C 1 2 1' _space_group.name_Hall 'C 2y' _space_group.IT_number 5 _space_group.crystal_system monoclinic _space_group.id 1 # _atom_sites.entry_id 6XUS _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.024319 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.019994 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.028458 _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] 0.040621 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? H ? ? 0.51345 0.48472 ? ? 24.73122 6.32584 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? MG ? ? 9.41153 2.53737 ? ? 2.59044 63.03566 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? NA ? ? 6.63511 3.01293 1.30238 ? 5.54423 0.54580 90.85902 ? 0.0 ;3-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_