data_9CSQ # _entry.id 9CSQ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.403 _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 9CSQ pdb_00009csq 10.2210/pdb9csq/pdb WWPDB D_1000285480 ? ? # 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 2025-05-14 ? 2 'Structure model' 1 1 2025-05-28 ? # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.journal_volume' 7 2 'Structure model' '_citation.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' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9CSQ _pdbx_database_status.recvd_initial_deposition_date 2024-07-24 _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 'Jia, X.' 2 0000-0001-9094-9882 'Szostak, J.W.' 3 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 US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_id_ASTM PNASA6 _citation.journal_id_CSD 0040 _citation.journal_id_ISSN 1091-6490 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 122 _citation.language ? _citation.page_first e2505720122 _citation.page_last e2505720122 _citation.title 'Nonenzymatic RNA copying with a potentially primordial genetic alphabet.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1073/pnas.2505720122 _citation.pdbx_database_id_PubMed 40397670 _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 'Jia, X.' 2 0000-0001-9094-9882 primary 'Xing, Y.' 3 0000-0002-4549-8370 primary 'Szostak, J.W.' 4 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 strand with s(2)C:I pair sequence 1' 5084.113 1 ? ? ? ? 2 water nat water 18.015 56 ? ? ? ? # _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 'AIAGAAGAUCUUCU(RSP)U' _entity_poly.pdbx_seq_one_letter_code_can AIAGAAGAUCUUCUCU _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A n 1 2 I n 1 3 A n 1 4 G n 1 5 A n 1 6 A n 1 7 G n 1 8 A n 1 9 U n 1 10 C n 1 11 U n 1 12 U n 1 13 C n 1 14 U n 1 15 RSP n 1 16 U 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 16 _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 I 'RNA linking' y 'INOSINIC ACID' ? 'C10 H13 N4 O8 P' 348.206 RSP 'RNA linking' n '4-amino-1-(5-O-phosphono-beta-D-ribofuranosyl)pyrimidine-2(1H)-thione' ? 'C9 H14 N3 O7 P S' 339.262 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 A 1 1 1 A A A . n A 1 2 I 2 2 2 I I A . n A 1 3 A 3 3 3 A A A . n A 1 4 G 4 4 4 G G A . n A 1 5 A 5 5 5 A A A . n A 1 6 A 6 6 6 A A A . n A 1 7 G 7 7 7 G G A . n A 1 8 A 8 8 8 A A A . n A 1 9 U 9 9 9 U U A . n A 1 10 C 10 10 10 C C A . n A 1 11 U 11 11 11 U U 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 U 14 14 14 U U A . n A 1 15 RSP 15 15 15 RSP RSP A . n A 1 16 U 16 16 16 U U A . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id RSP _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id RSP _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 B 2 HOH 1 101 25 HOH HOH A . B 2 HOH 2 102 39 HOH HOH A . B 2 HOH 3 103 14 HOH HOH A . B 2 HOH 4 104 12 HOH HOH A . B 2 HOH 5 105 44 HOH HOH A . B 2 HOH 6 106 32 HOH HOH A . B 2 HOH 7 107 6 HOH HOH A . B 2 HOH 8 108 48 HOH HOH A . B 2 HOH 9 109 3 HOH HOH A . B 2 HOH 10 110 9 HOH HOH A . B 2 HOH 11 111 1 HOH HOH A . B 2 HOH 12 112 19 HOH HOH A . B 2 HOH 13 113 37 HOH HOH A . B 2 HOH 14 114 21 HOH HOH A . B 2 HOH 15 115 45 HOH HOH A . B 2 HOH 16 116 41 HOH HOH A . B 2 HOH 17 117 24 HOH HOH A . B 2 HOH 18 118 30 HOH HOH A . B 2 HOH 19 119 28 HOH HOH A . B 2 HOH 20 120 46 HOH HOH A . B 2 HOH 21 121 7 HOH HOH A . B 2 HOH 22 122 43 HOH HOH A . B 2 HOH 23 123 51 HOH HOH A . B 2 HOH 24 124 36 HOH HOH A . B 2 HOH 25 125 40 HOH HOH A . B 2 HOH 26 126 8 HOH HOH A . B 2 HOH 27 127 23 HOH HOH A . B 2 HOH 28 128 26 HOH HOH A . B 2 HOH 29 129 16 HOH HOH A . B 2 HOH 30 130 38 HOH HOH A . B 2 HOH 31 131 22 HOH HOH A . B 2 HOH 32 132 50 HOH HOH A . B 2 HOH 33 133 4 HOH HOH A . B 2 HOH 34 134 17 HOH HOH A . B 2 HOH 35 135 15 HOH HOH A . B 2 HOH 36 136 11 HOH HOH A . B 2 HOH 37 137 2 HOH HOH A . B 2 HOH 38 138 27 HOH HOH A . B 2 HOH 39 139 33 HOH HOH A . B 2 HOH 40 140 29 HOH HOH A . B 2 HOH 41 141 20 HOH HOH A . B 2 HOH 42 142 35 HOH HOH A . B 2 HOH 43 143 31 HOH HOH A . B 2 HOH 44 144 10 HOH HOH A . B 2 HOH 45 145 13 HOH HOH A . B 2 HOH 46 146 5 HOH HOH A . B 2 HOH 47 147 54 HOH HOH A . B 2 HOH 48 148 42 HOH HOH A . B 2 HOH 49 149 55 HOH HOH A . B 2 HOH 50 150 34 HOH HOH A . B 2 HOH 51 151 18 HOH HOH A . B 2 HOH 52 152 56 HOH HOH A . B 2 HOH 53 153 47 HOH HOH A . B 2 HOH 54 154 52 HOH HOH A . B 2 HOH 55 155 53 HOH HOH A . B 2 HOH 56 156 49 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 ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0425 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.18.2 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 5 # _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 9CSQ _cell.details ? _cell.formula_units_Z ? _cell.length_a 43.405 _cell.length_a_esd ? _cell.length_b 43.405 _cell.length_b_esd ? _cell.length_c 123.136 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 18 _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 9CSQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' _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 9CSQ _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 2.20 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 43.97 _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, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6.5 _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 '0.2 M Calcium acetate hydrate, 0.1 M Sodium cacodylate trihydrate pH 6.5, 18% w/v Polyethylene glycol 8,000' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 293 # _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 EIGER2 S 9M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2024-06-21 _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 1.000050 _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 'ALS BEAMLINE 8.2.1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.000050 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate 27.64 _reflns.entry_id 9CSQ _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.54 _reflns.d_resolution_low 41.05 _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 6923 _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 99.9 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 9.4 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 19.0 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.02 _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 0.058 _reflns.pdbx_Rpim_I_all 0.025 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.998 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.052 _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 1.54 _reflns_shell.d_res_low 1.57 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.5 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 339 _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 9.9 _reflns_shell.pdbx_chi_squared 0.61 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.805 _reflns_shell.pdbx_Rpim_I_all 0.346 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.952 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 100.0 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.725 _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 29.087 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.972 _refine.correlation_coeff_Fo_to_Fc_free 0.972 _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 9CSQ _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 1.540 _refine.ls_d_res_low 35.952 _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 6881 _refine.ls_number_reflns_R_free 687 _refine.ls_number_reflns_R_work 6194 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.279 _refine.ls_percent_reflns_R_free 9.984 _refine.ls_R_factor_all 0.225 _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_free 0.2448 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2221 _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.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 'FREE R-VALUE' _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 0.103 _refine.pdbx_overall_ESU_R_Free 0.098 _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 2.854 _refine.overall_SU_ML 0.094 _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 1.540 _refine_hist.d_res_low 35.952 _refine_hist.number_atoms_solvent 56 _refine_hist.number_atoms_total 391 _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 335 _refine_hist.pdbx_number_atoms_ligand 0 _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' ? 0.013 0.011 374 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.002 0.019 154 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 2.481 1.972 580 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 0.832 1.814 378 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? 0.240 5.000 9 ? r_dihedral_angle_other_2_deg ? ? 'X-RAY DIFFRACTION' ? 0.105 0.200 79 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.018 0.020 180 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.001 0.020 58 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? 0.092 0.200 46 ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? 0.211 0.200 180 ? r_symmetry_nbd_other ? ? 'X-RAY DIFFRACTION' ? 0.240 0.200 149 ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? 0.086 0.200 92 ? r_symmetry_nbtor_other ? ? 'X-RAY DIFFRACTION' ? 0.269 0.200 41 ? r_xyhbond_nbd_refined ? ? 'X-RAY DIFFRACTION' ? 0.099 0.200 27 ? r_symmetry_nbd_refined ? ? 'X-RAY DIFFRACTION' ? 0.150 0.200 66 ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? 0.219 0.200 27 ? r_symmetry_xyhbond_nbd_refined ? ? 'X-RAY DIFFRACTION' ? 3.157 3.474 374 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 3.153 3.472 375 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? 4.230 6.341 580 ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 4.227 6.338 581 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 5.452 52.430 542 ? r_lrange_it ? ? 'X-RAY DIFFRACTION' ? 5.341 50.814 524 ? 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.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' 1.540 1.580 497 . 50 446 99.7988 . 0.341 . . 0.337 . . . . . 0.307 . 20 . 0.922 0.901 0.373 'X-RAY DIFFRACTION' 1.580 1.623 501 . 50 451 100.0000 . 0.312 . . 0.305 . . . . . 0.274 . 20 . 0.927 0.883 0.378 'X-RAY DIFFRACTION' 1.623 1.670 477 . 48 426 99.3711 . 0.336 . . 0.324 . . . . . 0.284 . 20 . 0.925 0.894 0.436 'X-RAY DIFFRACTION' 1.670 1.722 452 . 44 404 99.1150 . 0.299 . . 0.295 . . . . . 0.267 . 20 . 0.942 0.918 0.331 'X-RAY DIFFRACTION' 1.722 1.778 444 . 43 395 98.6487 . 0.314 . . 0.314 . . . . . 0.280 . 20 . 0.931 0.921 0.316 'X-RAY DIFFRACTION' 1.778 1.840 431 . 43 387 99.7680 . 0.299 . . 0.292 . . . . . 0.260 . 20 . 0.944 0.914 0.376 'X-RAY DIFFRACTION' 1.840 1.909 433 . 43 386 99.0762 . 0.307 . . 0.298 . . . . . 0.272 . 20 . 0.940 0.900 0.387 'X-RAY DIFFRACTION' 1.909 1.987 400 . 40 360 100.0000 . 0.328 . . 0.323 . . . . . 0.294 . 20 . 0.918 0.905 0.371 'X-RAY DIFFRACTION' 1.987 2.075 388 . 38 350 100.0000 . 0.319 . . 0.306 . . . . . 0.296 . 20 . 0.940 0.880 0.443 'X-RAY DIFFRACTION' 2.075 2.176 377 . 37 339 99.7347 . 0.305 . . 0.303 . . . . . 0.291 . 20 . 0.943 0.944 0.323 'X-RAY DIFFRACTION' 2.176 2.293 359 . 36 323 100.0000 . 0.281 . . 0.281 . . . . . 0.279 . 20 . 0.949 0.966 0.285 'X-RAY DIFFRACTION' 2.293 2.432 335 . 34 301 100.0000 . 0.300 . . 0.287 . . . . . 0.294 . 20 . 0.948 0.907 0.417 'X-RAY DIFFRACTION' 2.432 2.599 321 . 32 288 99.6885 . 0.274 . . 0.269 . . . . . 0.292 . 20 . 0.958 0.945 0.323 'X-RAY DIFFRACTION' 2.599 2.806 293 . 29 264 100.0000 . 0.255 . . 0.248 . . . . . 0.279 . 20 . 0.961 0.955 0.321 'X-RAY DIFFRACTION' 2.806 3.072 281 . 27 247 97.5089 . 0.210 . . 0.208 . . . . . 0.248 . 20 . 0.976 0.966 0.224 'X-RAY DIFFRACTION' 3.072 3.431 259 . 25 220 94.5946 . 0.187 . . 0.183 . . . . . 0.217 . 20 . 0.981 0.977 0.214 'X-RAY DIFFRACTION' 3.431 3.956 225 . 23 195 96.8889 . 0.186 . . 0.182 . . . . . 0.226 . 20 . 0.982 0.979 0.214 'X-RAY DIFFRACTION' 3.956 4.831 197 . 19 178 100.0000 . 0.155 . . 0.154 . . . . . 0.244 . 20 . 0.986 0.987 0.156 'X-RAY DIFFRACTION' 4.831 6.771 156 . 16 140 100.0000 . 0.156 . . 0.156 . . . . . 0.269 . 20 . 0.984 0.986 0.156 'X-RAY DIFFRACTION' 6.771 35.952 103 . 10 93 100.0000 . 0.170 . . 0.175 . . . . . 0.251 . 20 . 0.979 0.980 0.125 # _struct.entry_id 9CSQ _struct.title '16mer self-complementary duplex RNA with s(2)C:I pair sequence 1' _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 9CSQ _struct_keywords.text '2-Thiocytidine, Inosine, Nucleobase Modification, Non-Canonical Base Pair, RNA, Origin of Life' _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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9CSQ _struct_ref.pdbx_db_accession 9CSQ _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 9CSQ _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 16 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 9CSQ _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 16 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 16 # _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)' 1430 ? 1 MORE -5 ? 1 'SSA (A^2)' 5810 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B # 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' 6_555 -x,-x+y,-z -0.5000000000 -0.8660254038 0.0000000000 0.0000000000 -0.8660254038 0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 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 U 14 "O3'" ? ? ? 1_555 A RSP 15 P ? ? A U 14 A RSP 15 1_555 ? ? ? ? ? ? ? 1.594 ? ? covale2 covale both ? A RSP 15 "O3'" ? ? ? 1_555 A U 16 P ? ? A RSP 15 A U 16 1_555 ? ? ? ? ? ? ? 1.598 ? ? hydrog1 hydrog ? ? A A 1 N1 ? ? ? 1_555 A U 16 N3 ? ? A A 1 A U 16 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A A 1 N6 ? ? ? 1_555 A U 16 O4 ? ? A A 1 A U 16 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A I 2 N1 ? ? ? 1_555 A RSP 15 N3 ? ? A I 2 A RSP 15 6_555 ? ? ? ? ? ? TYPE_29_PAIR ? ? ? hydrog4 hydrog ? ? A I 2 O6 ? ? ? 1_555 A RSP 15 N4 ? ? A I 2 A RSP 15 6_555 ? ? ? ? ? ? TYPE_29_PAIR ? ? ? hydrog5 hydrog ? ? A A 3 N1 ? ? ? 1_555 A U 14 N3 ? ? A A 3 A U 14 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 3 N6 ? ? ? 1_555 A U 14 O4 ? ? A A 3 A U 14 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 13 N3 ? ? A G 4 A C 13 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 13 O2 ? ? A G 4 A C 13 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 13 N4 ? ? A G 4 A C 13 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 12 N3 ? ? A A 5 A U 12 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 12 O4 ? ? A A 5 A U 12 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A A 6 N1 ? ? ? 1_555 A U 11 N3 ? ? A A 6 A U 11 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 6 N6 ? ? ? 1_555 A U 11 O4 ? ? A A 6 A U 11 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 10 N3 ? ? A G 7 A C 10 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 10 O2 ? ? A G 7 A C 10 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 10 N4 ? ? A G 7 A C 10 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 8 N1 ? ? ? 1_555 A U 9 N3 ? ? A A 8 A U 9 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 8 N6 ? ? ? 1_555 A U 9 O4 ? ? A A 8 A U 9 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A U 9 N3 ? ? ? 1_555 A A 8 N1 ? ? A U 9 A A 8 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 9 O4 ? ? ? 1_555 A A 8 N6 ? ? A U 9 A A 8 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 10 N3 ? ? ? 1_555 A G 7 N1 ? ? A C 10 A G 7 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 10 N4 ? ? ? 1_555 A G 7 O6 ? ? A C 10 A G 7 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 10 O2 ? ? ? 1_555 A G 7 N2 ? ? A C 10 A G 7 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A U 11 N3 ? ? ? 1_555 A A 6 N1 ? ? A U 11 A A 6 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A U 11 O4 ? ? ? 1_555 A A 6 N6 ? ? A U 11 A A 6 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A U 12 N3 ? ? ? 1_555 A A 5 N1 ? ? A U 12 A A 5 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A U 12 O4 ? ? ? 1_555 A A 5 N6 ? ? A U 12 A A 5 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 13 N3 ? ? ? 1_555 A G 4 N1 ? ? A C 13 A G 4 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 13 N4 ? ? ? 1_555 A G 4 O6 ? ? A C 13 A G 4 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 13 O2 ? ? ? 1_555 A G 4 N2 ? ? A C 13 A G 4 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A U 14 N3 ? ? ? 1_555 A A 3 N1 ? ? A U 14 A A 3 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 14 O4 ? ? ? 1_555 A A 3 N6 ? ? A U 14 A A 3 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A RSP 15 N3 ? ? ? 1_555 A I 2 N1 ? ? A RSP 15 A I 2 6_555 ? ? ? ? ? ? TYPE_29_PAIR ? ? ? hydrog34 hydrog ? ? A RSP 15 N4 ? ? ? 1_555 A I 2 O6 ? ? A RSP 15 A I 2 6_555 ? ? ? ? ? ? TYPE_29_PAIR ? ? ? hydrog35 hydrog ? ? A U 16 N3 ? ? ? 1_555 A A 1 N1 ? ? A U 16 A A 1 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A U 16 O4 ? ? ? 1_555 A A 1 N6 ? ? A U 16 A A 1 6_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _pdbx_entry_details.entry_id 9CSQ _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_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 144 ? ? O A HOH 155 ? ? 2.00 2 1 O A HOH 105 ? ? O A HOH 155 ? ? 2.18 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 O A HOH 106 ? ? 1_555 O A HOH 113 ? ? 12_455 2.12 2 1 O A HOH 133 ? ? 1_555 O A HOH 147 ? ? 3_655 2.15 # 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 "O5'" A G 7 ? ? P A G 7 ? ? OP2 A G 7 ? ? 91.76 105.70 -13.94 0.90 N 2 1 "O3'" A U 9 ? ? P A C 10 ? ? OP2 A C 10 ? ? 117.89 110.50 7.39 1.10 Y 3 1 "O5'" A C 10 ? ? P A C 10 ? ? OP2 A C 10 ? ? 98.42 105.70 -7.27 0.90 N 4 1 "O3'" A U 11 ? ? P A U 12 ? ? OP2 A U 12 ? ? 118.02 110.50 7.52 1.10 Y # 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 128 ? B HOH . 2 1 A HOH 138 ? B HOH . 3 1 A HOH 146 ? B HOH . 4 1 A HOH 154 ? B HOH . # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -y,x-y,z 3 -x+y,-x,z 4 x-y,-y,-z 5 -x,-x+y,-z 6 y,x,-z 7 x+1/3,y+2/3,z+2/3 8 -y+1/3,x-y+2/3,z+2/3 9 -x+y+1/3,-x+2/3,z+2/3 10 x-y+1/3,-y+2/3,-z+2/3 11 -x+1/3,-x+y+2/3,-z+2/3 12 y+1/3,x+2/3,-z+2/3 13 x+2/3,y+1/3,z+1/3 14 -y+2/3,x-y+1/3,z+1/3 15 -x+y+2/3,-x+1/3,z+1/3 16 x-y+2/3,-y+1/3,-z+1/3 17 -x+2/3,-x+y+1/3,-z+1/3 18 y+2/3,x+1/3,-z+1/3 # 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 I OP3 O N N 114 I P P N N 115 I OP1 O N N 116 I OP2 O N N 117 I "O5'" O N N 118 I "C5'" C N N 119 I "C4'" C N R 120 I "O4'" O N N 121 I "C3'" C N S 122 I "O3'" O N N 123 I "C2'" C N R 124 I "O2'" O N N 125 I "C1'" C N R 126 I N9 N Y N 127 I C8 C Y N 128 I N7 N Y N 129 I C5 C Y N 130 I C6 C N N 131 I O6 O N N 132 I N1 N N N 133 I C2 C N N 134 I N3 N N N 135 I C4 C Y N 136 I HOP3 H N N 137 I HOP2 H N N 138 I "H5'" H N N 139 I "H5''" H N N 140 I "H4'" H N N 141 I "H3'" H N N 142 I "HO3'" H N N 143 I "H2'" H N N 144 I "HO2'" H N N 145 I "H1'" H N N 146 I H8 H N N 147 I H1 H N N 148 I H2 H N N 149 RSP P P N N 150 RSP N1 N N N 151 RSP C2 C N N 152 RSP S2 S N N 153 RSP N3 N N N 154 RSP C4 C N N 155 RSP N4 N N N 156 RSP C5 C N N 157 RSP C6 C N N 158 RSP "C1'" C N R 159 RSP "C2'" C N R 160 RSP "O2'" O N N 161 RSP "C3'" C N S 162 RSP "O3'" O N N 163 RSP "C4'" C N R 164 RSP "O4'" O N N 165 RSP "C5'" C N N 166 RSP "O5'" O N N 167 RSP OP1 O N N 168 RSP OP2 O N N 169 RSP OP3 O N N 170 RSP H5 H N N 171 RSP H6 H N N 172 RSP "H5'" H N N 173 RSP "H1'" H N N 174 RSP "H2'" H N N 175 RSP "HO2'" H N N 176 RSP "H3'" H N N 177 RSP "H4'" H N N 178 RSP HN4 H N N 179 RSP HN4A H N N 180 RSP "H5'A" H N N 181 RSP "HO3'" H N N 182 RSP HOP2 H N N 183 RSP HOP3 H N N 184 U OP3 O N N 185 U P P N N 186 U OP1 O N N 187 U OP2 O N N 188 U "O5'" O N N 189 U "C5'" C N N 190 U "C4'" C N R 191 U "O4'" O N N 192 U "C3'" C N S 193 U "O3'" O N N 194 U "C2'" C N R 195 U "O2'" O N N 196 U "C1'" C N R 197 U N1 N N N 198 U C2 C N N 199 U O2 O N N 200 U N3 N N N 201 U C4 C N N 202 U O4 O N N 203 U C5 C N N 204 U C6 C N N 205 U HOP3 H N N 206 U HOP2 H N N 207 U "H5'" H N N 208 U "H5''" H N N 209 U "H4'" H N N 210 U "H3'" H N N 211 U "HO3'" H N N 212 U "H2'" H N N 213 U "HO2'" H N N 214 U "H1'" H N N 215 U H3 H N N 216 U H5 H N N 217 U H6 H N N 218 # 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 I OP3 P sing N N 118 I OP3 HOP3 sing N N 119 I P OP1 doub N N 120 I P OP2 sing N N 121 I P "O5'" sing N N 122 I OP2 HOP2 sing N N 123 I "O5'" "C5'" sing N N 124 I "C5'" "C4'" sing N N 125 I "C5'" "H5'" sing N N 126 I "C5'" "H5''" sing N N 127 I "C4'" "O4'" sing N N 128 I "C4'" "C3'" sing N N 129 I "C4'" "H4'" sing N N 130 I "O4'" "C1'" sing N N 131 I "C3'" "O3'" sing N N 132 I "C3'" "C2'" sing N N 133 I "C3'" "H3'" sing N N 134 I "O3'" "HO3'" sing N N 135 I "C2'" "O2'" sing N N 136 I "C2'" "C1'" sing N N 137 I "C2'" "H2'" sing N N 138 I "O2'" "HO2'" sing N N 139 I "C1'" N9 sing N N 140 I "C1'" "H1'" sing N N 141 I N9 C8 sing Y N 142 I N9 C4 sing Y N 143 I C8 N7 doub Y N 144 I C8 H8 sing N N 145 I N7 C5 sing Y N 146 I C5 C6 sing N N 147 I C5 C4 doub Y N 148 I C6 O6 doub N N 149 I C6 N1 sing N N 150 I N1 C2 sing N N 151 I N1 H1 sing N N 152 I C2 N3 doub N N 153 I C2 H2 sing N N 154 I N3 C4 sing N N 155 RSP OP1 P doub N N 156 RSP OP3 P sing N N 157 RSP P OP2 sing N N 158 RSP P "O5'" sing N N 159 RSP C6 N1 sing N N 160 RSP N1 C2 sing N N 161 RSP N1 "C1'" sing N N 162 RSP N3 C2 sing N N 163 RSP C2 S2 doub N N 164 RSP C4 N3 doub N N 165 RSP N4 C4 sing N N 166 RSP C5 C4 sing N N 167 RSP HN4 N4 sing N N 168 RSP N4 HN4A sing N N 169 RSP H5 C5 sing N N 170 RSP C5 C6 doub N N 171 RSP H6 C6 sing N N 172 RSP "O4'" "C1'" sing N N 173 RSP "C1'" "H1'" sing N N 174 RSP "C1'" "C2'" sing N N 175 RSP "C3'" "C2'" sing N N 176 RSP "C2'" "H2'" sing N N 177 RSP "C2'" "O2'" sing N N 178 RSP "O2'" "HO2'" sing N N 179 RSP "C4'" "C3'" sing N N 180 RSP "H3'" "C3'" sing N N 181 RSP "C3'" "O3'" sing N N 182 RSP "O3'" "HO3'" sing N N 183 RSP "C5'" "C4'" sing N N 184 RSP "O4'" "C4'" sing N N 185 RSP "C4'" "H4'" sing N N 186 RSP "O5'" "C5'" sing N N 187 RSP "H5'A" "C5'" sing N N 188 RSP "C5'" "H5'" sing N N 189 RSP OP2 HOP2 sing N N 190 RSP OP3 HOP3 sing N N 191 U OP3 P sing N N 192 U OP3 HOP3 sing N N 193 U P OP1 doub N N 194 U P OP2 sing N N 195 U P "O5'" sing N N 196 U OP2 HOP2 sing N N 197 U "O5'" "C5'" sing N N 198 U "C5'" "C4'" sing N N 199 U "C5'" "H5'" sing N N 200 U "C5'" "H5''" sing N N 201 U "C4'" "O4'" sing N N 202 U "C4'" "C3'" sing N N 203 U "C4'" "H4'" sing N N 204 U "O4'" "C1'" sing N N 205 U "C3'" "O3'" sing N N 206 U "C3'" "C2'" sing N N 207 U "C3'" "H3'" sing N N 208 U "O3'" "HO3'" sing N N 209 U "C2'" "O2'" sing N N 210 U "C2'" "C1'" sing N N 211 U "C2'" "H2'" sing N N 212 U "O2'" "HO2'" sing N N 213 U "C1'" N1 sing N N 214 U "C1'" "H1'" sing N N 215 U N1 C2 sing N N 216 U N1 C6 sing N N 217 U C2 O2 doub N N 218 U C2 N3 sing N N 219 U N3 C4 sing N N 220 U N3 H3 sing N N 221 U C4 O4 doub N N 222 U C4 C5 sing N N 223 U C5 C6 doub N N 224 U C5 H5 sing N N 225 U C6 H6 sing N N 226 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 9CSQ 'a-form double helix' 9CSQ '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 A 1 1_555 A U 16 6_555 0.016 0.036 -0.032 -4.752 -9.419 -2.599 1 A_A1:U16_A A 1 ? A 16 ? 20 1 1 A I 2 1_555 A RSP 15 6_555 -0.306 -0.226 0.035 2.828 -11.951 -3.309 2 A_I2:RSP15_A A 2 ? A 15 ? 29 1 1 A A 3 1_555 A U 14 6_555 0.056 -0.173 0.026 2.506 -13.321 3.055 3 A_A3:U14_A A 3 ? A 14 ? 20 1 1 A G 4 1_555 A C 13 6_555 -0.548 -0.197 -0.136 -3.671 -10.911 0.667 4 A_G4:C13_A A 4 ? A 13 ? 19 1 1 A A 5 1_555 A U 12 6_555 -0.038 -0.152 -0.088 -9.071 -5.731 1.254 5 A_A5:U12_A A 5 ? A 12 ? 20 1 1 A A 6 1_555 A U 11 6_555 0.244 -0.217 -0.104 -6.034 -9.626 -0.948 6 A_A6:U11_A A 6 ? A 11 ? 20 1 1 A G 7 1_555 A C 10 6_555 -0.118 -0.123 0.084 -6.415 -14.784 0.562 7 A_G7:C10_A A 7 ? A 10 ? 19 1 1 A A 8 1_555 A U 9 6_555 -0.084 -0.276 0.081 -0.940 -12.261 3.209 8 A_A8:U9_A A 8 ? A 9 ? 20 1 1 A U 9 1_555 A A 8 6_555 0.084 -0.276 0.081 0.940 -12.261 3.209 9 A_U9:A8_A A 9 ? A 8 ? 20 1 1 A C 10 1_555 A G 7 6_555 0.118 -0.123 0.084 6.415 -14.784 0.562 10 A_C10:G7_A A 10 ? A 7 ? 19 1 1 A U 11 1_555 A A 6 6_555 -0.244 -0.217 -0.104 6.034 -9.626 -0.948 11 A_U11:A6_A A 11 ? A 6 ? 20 1 1 A U 12 1_555 A A 5 6_555 0.038 -0.152 -0.088 9.071 -5.731 1.254 12 A_U12:A5_A A 12 ? A 5 ? 20 1 1 A C 13 1_555 A G 4 6_555 0.548 -0.197 -0.136 3.671 -10.911 0.667 13 A_C13:G4_A A 13 ? A 4 ? 19 1 1 A U 14 1_555 A A 3 6_555 -0.056 -0.173 0.026 -2.506 -13.321 3.055 14 A_U14:A3_A A 14 ? A 3 ? 20 1 1 A RSP 15 1_555 A I 2 6_555 0.306 -0.226 0.035 -2.828 -11.951 -3.309 15 A_RSP15:I2_A A 15 ? A 2 ? 29 1 1 A U 16 1_555 A A 1 6_555 -0.016 0.036 -0.032 4.752 -9.419 -2.599 16 A_U16:A1_A A 16 ? A 1 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A A 1 1_555 A U 16 6_555 A I 2 1_555 A RSP 15 6_555 -0.423 -1.156 3.015 -0.725 1.998 30.804 -2.525 0.667 2.945 3.756 1.363 30.875 1 AA_A1I2:RSP15U16_AA A 1 ? A 16 ? A 2 ? A 15 ? 1 A I 2 1_555 A RSP 15 6_555 A A 3 1_555 A U 14 6_555 0.619 -1.116 3.234 -0.678 7.788 34.780 -2.901 -1.105 2.912 12.829 1.117 35.621 2 AA_I2A3:U14RSP15_AA A 2 ? A 15 ? A 3 ? A 14 ? 1 A A 3 1_555 A U 14 6_555 A G 4 1_555 A C 13 6_555 -0.328 -1.690 3.252 -0.968 12.251 30.820 -4.826 0.428 2.431 21.987 1.737 33.125 3 AA_A3G4:C13U14_AA A 3 ? A 14 ? A 4 ? A 13 ? 1 A G 4 1_555 A C 13 6_555 A A 5 1_555 A U 12 6_555 -0.004 -1.739 3.303 -1.693 13.957 32.144 -4.795 -0.224 2.366 23.834 2.890 35.010 4 AA_G4A5:U12C13_AA A 4 ? A 13 ? A 5 ? A 12 ? 1 A A 5 1_555 A U 12 6_555 A A 6 1_555 A U 11 6_555 0.155 -1.529 3.190 2.234 8.896 32.767 -3.920 0.062 2.699 15.397 -3.867 33.992 5 AA_A5A6:U11U12_AA A 5 ? A 12 ? A 6 ? A 11 ? 1 A A 6 1_555 A U 11 6_555 A G 7 1_555 A C 10 6_555 0.468 -2.010 3.135 1.565 9.074 28.283 -5.575 -0.626 2.410 17.976 -3.101 29.715 6 AA_A6G7:C10U11_AA A 6 ? A 11 ? A 7 ? A 10 ? 1 A G 7 1_555 A C 10 6_555 A A 8 1_555 A U 9 6_555 -0.279 -1.604 3.088 -0.779 5.600 30.882 -3.915 0.383 2.768 10.408 1.447 31.383 7 AA_G7A8:U9C10_AA A 7 ? A 10 ? A 8 ? A 9 ? 1 A A 8 1_555 A U 9 6_555 A U 9 1_555 A A 8 6_555 0.000 -1.069 3.105 0.000 8.089 31.773 -3.164 0.000 2.756 14.484 0.000 32.761 8 AA_A8U9:A8U9_AA A 8 ? A 9 ? A 9 ? A 8 ? 1 A U 9 1_555 A A 8 6_555 A C 10 1_555 A G 7 6_555 0.279 -1.604 3.088 0.779 5.600 30.882 -3.915 -0.383 2.768 10.408 -1.447 31.383 9 AA_U9C10:G7A8_AA A 9 ? A 8 ? A 10 ? A 7 ? 1 A C 10 1_555 A G 7 6_555 A U 11 1_555 A A 6 6_555 -0.468 -2.010 3.135 -1.565 9.074 28.283 -5.575 0.626 2.410 17.976 3.101 29.715 10 AA_C10U11:A6G7_AA A 10 ? A 7 ? A 11 ? A 6 ? 1 A U 11 1_555 A A 6 6_555 A U 12 1_555 A A 5 6_555 -0.155 -1.529 3.190 -2.234 8.896 32.767 -3.920 -0.062 2.699 15.397 3.867 33.992 11 AA_U11U12:A5A6_AA A 11 ? A 6 ? A 12 ? A 5 ? 1 A U 12 1_555 A A 5 6_555 A C 13 1_555 A G 4 6_555 0.004 -1.739 3.303 1.693 13.957 32.144 -4.795 0.224 2.366 23.834 -2.890 35.010 12 AA_U12C13:G4A5_AA A 12 ? A 5 ? A 13 ? A 4 ? 1 A C 13 1_555 A G 4 6_555 A U 14 1_555 A A 3 6_555 0.328 -1.690 3.252 0.968 12.251 30.820 -4.826 -0.428 2.431 21.987 -1.737 33.125 13 AA_C13U14:A3G4_AA A 13 ? A 4 ? A 14 ? A 3 ? 1 A U 14 1_555 A A 3 6_555 A RSP 15 1_555 A I 2 6_555 -0.619 -1.116 3.234 0.678 7.788 34.780 -2.901 1.105 2.912 12.829 -1.117 35.621 14 AA_U14RSP15:I2A3_AA A 14 ? A 3 ? A 15 ? A 2 ? 1 A RSP 15 1_555 A I 2 6_555 A U 16 1_555 A A 1 6_555 0.423 -1.156 3.015 0.725 1.998 30.804 -2.525 -0.667 2.945 3.756 -1.363 30.875 15 AA_RSP15U16:A1I2_AA A 15 ? A 2 ? A 16 ? A 1 ? # 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 3ND4 _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'R 3 2 :H' _space_group.name_Hall ;R 3 2" ; _space_group.IT_number 155 _space_group.crystal_system trigonal _space_group.id 1 # _atom_sites.entry_id 9CSQ _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] 0.023039 _atom_sites.fract_transf_matrix[1][2] 0.013301 _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] 0.026603 _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] 0.008121 _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. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 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. ; ? S ? ? 9.55732 6.39887 ? ? 1.23737 29.19336 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_ #