data_1RNA # _entry.id 1RNA # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _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 1RNA pdb_00001rna 10.2210/pdb1rna/pdb RCSB ARN035 ? ? WWPDB D_1000176131 ? ? # 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 1991-04-15 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-04-18 5 'Structure model' 1 4 2024-02-14 # _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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' '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 4 'Structure model' diffrn_detector 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 # 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 4 'Structure model' '_diffrn_detector.detector' 2 5 'Structure model' '_database_2.pdbx_DOI' 3 5 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1RNA _pdbx_database_status.recvd_initial_deposition_date 1990-02-01 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site BNL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Dock-Bregeon, A.C.' 1 'Chevrier, B.' 2 'Podjarny, A.' 3 'Johnson, J.' 4 'De Bear, J.S.' 5 'Gough, G.R.' 6 'Gilham, P.T.' 7 'Moras, D.' 8 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Crystallographic structure of an RNA helix: [U(UA)6A]2.' J.Mol.Biol. 209 459 474 1989 JMOBAK UK 0022-2836 0070 ? 2479753 '10.1016/0022-2836(89)90010-7' 1 'High Resolution Structure of the RNA Duplex [u(u-A)6a]2' Nature 335 375 378 1988 NATUAS UK 0028-0836 0006 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Dock-Bregeon, A.C.' 1 ? primary 'Chevrier, B.' 2 ? primary 'Podjarny, A.' 3 ? primary 'Johnson, J.' 4 ? primary 'de Bear, J.S.' 5 ? primary 'Gough, G.R.' 6 ? primary 'Gilham, P.T.' 7 ? primary 'Moras, D.' 8 ? 1 'Dock-Bregeon, A.C.' 9 ? 1 'Chevier, B.' 10 ? 1 'Podjarny, A.' 11 ? 1 'Moras, D.' 12 ? 1 'De Bear, J.S.' 13 ? 1 'Gough, G.R.' 14 ? 1 'Gilham, P.T.' 15 ? 1 'Johnson, J.E.' 16 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;RNA (5'-R(*UP*UP*AP*UP*AP*UP*AP*UP*AP*UP*AP*UP*AP*A)-3') ; 4402.644 2 ? ? ? ? 2 water nat water 18.015 91 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code UUAUAUAUAUAUAA _entity_poly.pdbx_seq_one_letter_code_can UUAUAUAUAUAUAA _entity_poly.pdbx_strand_id A,B _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 U n 1 2 U n 1 3 A n 1 4 U n 1 5 A n 1 6 U n 1 7 A n 1 8 U n 1 9 A n 1 10 U n 1 11 A n 1 12 U n 1 13 A n 1 14 A n # 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 HOH non-polymer . WATER ? 'H2 O' 18.015 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 U 1 1 1 U U A . n A 1 2 U 2 2 2 U U A . n A 1 3 A 3 3 3 A A A . n A 1 4 U 4 4 4 U U A . n A 1 5 A 5 5 5 A A A . n A 1 6 U 6 6 6 U U A . n A 1 7 A 7 7 7 A A A . n A 1 8 U 8 8 8 U U A . n A 1 9 A 9 9 9 A A A . n A 1 10 U 10 10 10 U U A . n A 1 11 A 11 11 11 A A A . n A 1 12 U 12 12 12 U U A . n A 1 13 A 13 13 13 A A A . n A 1 14 A 14 14 14 A A A . n B 1 1 U 1 15 15 U U B . n B 1 2 U 2 16 16 U U B . n B 1 3 A 3 17 17 A A B . n B 1 4 U 4 18 18 U U B . n B 1 5 A 5 19 19 A A B . n B 1 6 U 6 20 20 U U B . n B 1 7 A 7 21 21 A A B . n B 1 8 U 8 22 22 U U B . n B 1 9 A 9 23 23 A A B . n B 1 10 U 10 24 24 U U B . n B 1 11 A 11 25 25 A A B . n B 1 12 U 12 26 26 U U B . n B 1 13 A 13 27 27 A A B . n B 1 14 A 14 28 28 A A B . 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 C 2 HOH 1 29 29 HOH HOH A . C 2 HOH 2 30 30 HOH HOH A . C 2 HOH 3 31 31 HOH HOH A . C 2 HOH 4 33 33 HOH HOH A . C 2 HOH 5 34 34 HOH HOH A . C 2 HOH 6 35 35 HOH HOH A . C 2 HOH 7 36 36 HOH HOH A . C 2 HOH 8 38 38 HOH HOH A . C 2 HOH 9 40 40 HOH HOH A . C 2 HOH 10 41 41 HOH HOH A . C 2 HOH 11 42 42 HOH HOH A . C 2 HOH 12 43 43 HOH HOH A . C 2 HOH 13 45 45 HOH HOH A . C 2 HOH 14 46 46 HOH HOH A . C 2 HOH 15 47 47 HOH HOH A . C 2 HOH 16 54 54 HOH HOH A . C 2 HOH 17 56 56 HOH HOH A . C 2 HOH 18 61 61 HOH HOH A . C 2 HOH 19 62 62 HOH HOH A . C 2 HOH 20 63 63 HOH HOH A . C 2 HOH 21 64 64 HOH HOH A . C 2 HOH 22 65 65 HOH HOH A . C 2 HOH 23 66 66 HOH HOH A . C 2 HOH 24 69 69 HOH HOH A . C 2 HOH 25 70 70 HOH HOH A . C 2 HOH 26 71 71 HOH HOH A . C 2 HOH 27 72 72 HOH HOH A . C 2 HOH 28 74 74 HOH HOH A . C 2 HOH 29 78 78 HOH HOH A . C 2 HOH 30 80 80 HOH HOH A . C 2 HOH 31 86 86 HOH HOH A . C 2 HOH 32 90 90 HOH HOH A . C 2 HOH 33 93 93 HOH HOH A . C 2 HOH 34 95 95 HOH HOH A . C 2 HOH 35 96 96 HOH HOH A . C 2 HOH 36 98 98 HOH HOH A . C 2 HOH 37 101 101 HOH HOH A . C 2 HOH 38 102 102 HOH HOH A . C 2 HOH 39 104 104 HOH HOH A . C 2 HOH 40 105 105 HOH HOH A . C 2 HOH 41 109 109 HOH HOH A . C 2 HOH 42 110 110 HOH HOH A . C 2 HOH 43 112 112 HOH HOH A . C 2 HOH 44 114 114 HOH HOH A . C 2 HOH 45 115 115 HOH HOH A . C 2 HOH 46 118 118 HOH HOH A . C 2 HOH 47 119 119 HOH HOH A . D 2 HOH 1 32 32 HOH HOH B . D 2 HOH 2 37 37 HOH HOH B . D 2 HOH 3 39 39 HOH HOH B . D 2 HOH 4 44 44 HOH HOH B . D 2 HOH 5 48 48 HOH HOH B . D 2 HOH 6 49 49 HOH HOH B . D 2 HOH 7 50 50 HOH HOH B . D 2 HOH 8 51 51 HOH HOH B . D 2 HOH 9 52 52 HOH HOH B . D 2 HOH 10 53 53 HOH HOH B . D 2 HOH 11 55 55 HOH HOH B . D 2 HOH 12 57 57 HOH HOH B . D 2 HOH 13 58 58 HOH HOH B . D 2 HOH 14 59 59 HOH HOH B . D 2 HOH 15 60 60 HOH HOH B . D 2 HOH 16 67 67 HOH HOH B . D 2 HOH 17 68 68 HOH HOH B . D 2 HOH 18 73 73 HOH HOH B . D 2 HOH 19 75 75 HOH HOH B . D 2 HOH 20 76 76 HOH HOH B . D 2 HOH 21 77 77 HOH HOH B . D 2 HOH 22 79 79 HOH HOH B . D 2 HOH 23 81 81 HOH HOH B . D 2 HOH 24 82 82 HOH HOH B . D 2 HOH 25 83 83 HOH HOH B . D 2 HOH 26 84 84 HOH HOH B . D 2 HOH 27 85 85 HOH HOH B . D 2 HOH 28 87 87 HOH HOH B . D 2 HOH 29 88 88 HOH HOH B . D 2 HOH 30 89 89 HOH HOH B . D 2 HOH 31 91 91 HOH HOH B . D 2 HOH 32 92 92 HOH HOH B . D 2 HOH 33 94 94 HOH HOH B . D 2 HOH 34 97 97 HOH HOH B . D 2 HOH 35 99 99 HOH HOH B . D 2 HOH 36 100 100 HOH HOH B . D 2 HOH 37 103 103 HOH HOH B . D 2 HOH 38 106 106 HOH HOH B . D 2 HOH 39 107 107 HOH HOH B . D 2 HOH 40 108 108 HOH HOH B . D 2 HOH 41 111 111 HOH HOH B . D 2 HOH 42 113 113 HOH HOH B . D 2 HOH 43 116 116 HOH HOH B . D 2 HOH 44 117 117 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1RNA _cell.length_a 34.110 _cell.length_b 44.610 _cell.length_c 49.110 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RNA _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 # _exptl.entry_id 1RNA _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.12 _exptl_crystal.density_percent_sol 42.03 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 308.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.50 _exptl_crystal_grow.pdbx_details 'pH 6.50, VAPOR DIFFUSION, HANGING DROP, temperature 308.00K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 'NA CACODYLATE' ? ? ? 1 4 1 SPERMINE ? ? ? 1 5 1 MG2+ ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 291.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'ENRAF-NONIUS CAD4' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1RNA _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low 25.000 _reflns.d_resolution_high 2.250 _reflns.number_obs 2492 _reflns.number_all 4924 _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1RNA _refine.ls_number_reflns_obs 2437 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 10.000 _refine.ls_d_res_high 2.250 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1310000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min 0.51 _refine.occupancy_max 1.00 _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 582 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 91 _refine_hist.number_atoms_total 673 _refine_hist.d_res_high 2.250 _refine_hist.d_res_low 10.000 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function n_bond_d 0.004 0.010 ? ? 'X-RAY DIFFRACTION' ? n_angle_d 0.035 0.050 ? ? 'X-RAY DIFFRACTION' ? n_planar_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_hb_or_metal_coord ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_it 3.490 7.500 ? ? 'X-RAY DIFFRACTION' ? n_sugar_angle_it 4.300 7.500 ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_it 5.020 7.500 ? ? 'X-RAY DIFFRACTION' ? n_phos_angle_it 4.550 7.500 ? ? 'X-RAY DIFFRACTION' ? n_bond_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_dihedral_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_impr_tor ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_plane_restr 0.017 0.030 ? ? 'X-RAY DIFFRACTION' ? n_chiral_restr 0.077 0.100 ? ? 'X-RAY DIFFRACTION' ? n_singtor_nbd 0.139 0.250 ? ? 'X-RAY DIFFRACTION' ? n_multtor_nbd 0.168 0.250 ? ? 'X-RAY DIFFRACTION' ? n_xhyhbond_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1RNA _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1RNA _struct.title 'CRYSTALLOGRAPHIC STRUCTURE OF AN RNA HELIX: [U(U-A)6A]2' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1RNA _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'A-RNA, DOUBLE HELIX, RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1RNA _struct_ref.pdbx_db_accession 1RNA _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1RNA A 1 ? 14 ? 1RNA 1 ? 14 ? 1 14 2 1 1RNA B 1 ? 14 ? 1RNA 15 ? 28 ? 15 28 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # 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 hydrog1 hydrog ? ? A U 1 N3 ? ? ? 1_555 B A 14 N1 ? ? A U 1 B A 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A U 1 O4 ? ? ? 1_555 B A 14 N6 ? ? A U 1 B A 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A U 2 N3 ? ? ? 1_555 B A 13 N1 ? ? A U 2 B A 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 2 O4 ? ? ? 1_555 B A 13 N6 ? ? A U 2 B A 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 3 N1 ? ? ? 1_555 B U 12 N3 ? ? A A 3 B U 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 3 N6 ? ? ? 1_555 B U 12 O4 ? ? A A 3 B U 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 4 N3 ? ? ? 1_555 B A 11 N1 ? ? A U 4 B A 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A U 4 O4 ? ? ? 1_555 B A 11 N6 ? ? A U 4 B A 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 10 N3 ? ? A A 5 B U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 10 O4 ? ? A A 5 B U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 6 N3 ? ? ? 1_555 B A 9 N1 ? ? A U 6 B A 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 6 O4 ? ? ? 1_555 B A 9 N6 ? ? A U 6 B A 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 7 N1 ? ? ? 1_555 B U 8 N3 ? ? A A 7 B U 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 7 N6 ? ? ? 1_555 B U 8 O4 ? ? A A 7 B U 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 7 N1 ? ? A U 8 B A 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 7 N6 ? ? A U 8 B A 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 9 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 9 B U 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 9 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 9 B U 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A U 10 N3 ? ? ? 1_555 B A 5 N1 ? ? A U 10 B A 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 10 O4 ? ? ? 1_555 B A 5 N6 ? ? A U 10 B A 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A A 11 N1 ? ? ? 1_555 B U 4 N3 ? ? A A 11 B U 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A A 11 N6 ? ? ? 1_555 B U 4 O4 ? ? A A 11 B U 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 3 N1 ? ? A U 12 B A 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 3 N6 ? ? A U 12 B A 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A A 13 N1 ? ? ? 1_555 B U 2 N3 ? ? A A 13 B U 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A A 13 N6 ? ? ? 1_555 B U 2 O4 ? ? A A 13 B U 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A A 14 N1 ? ? ? 1_555 B U 1 N3 ? ? A A 14 B U 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A A 14 N6 ? ? ? 1_555 B U 1 O4 ? ? A A 14 B U 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 P A U 4 ? ? "O5'" A U 4 ? ? 1.505 1.593 -0.088 0.010 N 2 1 P A A 5 ? ? "O5'" A A 5 ? ? 1.523 1.593 -0.070 0.010 N 3 1 "O3'" A A 7 ? ? P A U 8 ? ? 1.533 1.607 -0.074 0.012 Y 4 1 "O3'" A A 9 ? ? P A U 10 ? ? 1.487 1.607 -0.120 0.012 Y 5 1 P B U 20 ? ? "O5'" B U 20 ? ? 1.518 1.593 -0.075 0.010 N 6 1 P B A 27 ? ? "O5'" B A 27 ? ? 1.658 1.593 0.065 0.010 N # 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 "O4'" A U 1 ? ? "C1'" A U 1 ? ? N1 A U 1 ? ? 100.68 108.20 -7.52 0.80 N 2 1 C2 A U 1 ? ? N3 A U 1 ? ? C4 A U 1 ? ? 123.24 127.00 -3.76 0.60 N 3 1 N3 A U 1 ? ? C4 A U 1 ? ? C5 A U 1 ? ? 118.43 114.60 3.83 0.60 N 4 1 "O5'" A U 2 ? ? "C5'" A U 2 ? ? "C4'" A U 2 ? ? 104.44 109.40 -4.96 0.80 N 5 1 N3 A U 2 ? ? C4 A U 2 ? ? C5 A U 2 ? ? 119.68 114.60 5.08 0.60 N 6 1 N3 A U 2 ? ? C4 A U 2 ? ? O4 A U 2 ? ? 113.12 119.40 -6.28 0.70 N 7 1 "O5'" A A 3 ? ? P A A 3 ? ? OP1 A A 3 ? ? 121.60 110.70 10.90 1.20 N 8 1 N1 A A 3 ? ? C2 A A 3 ? ? N3 A A 3 ? ? 125.19 129.30 -4.11 0.50 N 9 1 P A U 4 ? ? "O5'" A U 4 ? ? "C5'" A U 4 ? ? 131.34 120.90 10.44 1.60 N 10 1 C2 A U 4 ? ? N3 A U 4 ? ? C4 A U 4 ? ? 123.20 127.00 -3.80 0.60 N 11 1 N3 A U 4 ? ? C4 A U 4 ? ? C5 A U 4 ? ? 118.49 114.60 3.89 0.60 N 12 1 P A A 5 ? ? "O5'" A A 5 ? ? "C5'" A A 5 ? ? 131.20 120.90 10.30 1.60 N 13 1 C5 A A 5 ? ? C6 A A 5 ? ? N1 A A 5 ? ? 114.45 117.70 -3.25 0.50 N 14 1 N1 A A 5 ? ? C6 A A 5 ? ? N6 A A 5 ? ? 123.90 118.60 5.30 0.60 N 15 1 C2 A U 6 ? ? N3 A U 6 ? ? C4 A U 6 ? ? 122.63 127.00 -4.37 0.60 N 16 1 N3 A U 6 ? ? C4 A U 6 ? ? C5 A U 6 ? ? 119.52 114.60 4.92 0.60 N 17 1 N3 A U 6 ? ? C4 A U 6 ? ? O4 A U 6 ? ? 114.27 119.40 -5.13 0.70 N 18 1 "O5'" A A 7 ? ? P A A 7 ? ? OP2 A A 7 ? ? 122.00 110.70 11.30 1.20 N 19 1 "O5'" A A 7 ? ? "C5'" A A 7 ? ? "C4'" A A 7 ? ? 103.68 109.40 -5.72 0.80 N 20 1 P A A 7 ? ? "O5'" A A 7 ? ? "C5'" A A 7 ? ? 105.55 120.90 -15.35 1.60 N 21 1 N1 A A 7 ? ? C2 A A 7 ? ? N3 A A 7 ? ? 125.85 129.30 -3.45 0.50 N 22 1 "O5'" A U 8 ? ? "C5'" A U 8 ? ? "C4'" A U 8 ? ? 101.32 109.40 -8.08 0.80 N 23 1 C2 A U 8 ? ? N3 A U 8 ? ? C4 A U 8 ? ? 123.28 127.00 -3.72 0.60 N 24 1 N3 A U 8 ? ? C4 A U 8 ? ? C5 A U 8 ? ? 118.23 114.60 3.63 0.60 N 25 1 C5 A U 8 ? ? C4 A U 8 ? ? O4 A U 8 ? ? 122.06 125.90 -3.84 0.60 N 26 1 "C3'" A U 8 ? ? "O3'" A U 8 ? ? P A A 9 ? ? 107.90 119.70 -11.80 1.20 Y 27 1 "O5'" A A 9 ? ? "C5'" A A 9 ? ? "C4'" A A 9 ? ? 101.43 109.40 -7.97 0.80 N 28 1 "O4'" A A 9 ? ? "C1'" A A 9 ? ? N9 A A 9 ? ? 113.61 108.50 5.11 0.70 N 29 1 C6 A A 9 ? ? N1 A A 9 ? ? C2 A A 9 ? ? 122.38 118.60 3.78 0.60 N 30 1 N1 A A 9 ? ? C2 A A 9 ? ? N3 A A 9 ? ? 125.48 129.30 -3.82 0.50 N 31 1 C5 A A 9 ? ? C6 A A 9 ? ? N1 A A 9 ? ? 114.37 117.70 -3.33 0.50 N 32 1 "C3'" A A 9 ? ? "O3'" A A 9 ? ? P A U 10 ? ? 129.40 119.70 9.70 1.20 Y 33 1 "O3'" A A 9 ? ? P A U 10 ? ? OP1 A U 10 ? ? 121.24 110.50 10.74 1.10 Y 34 1 OP1 A U 10 ? ? P A U 10 ? ? OP2 A U 10 ? ? 106.58 119.60 -13.02 1.50 N 35 1 N3 A U 10 ? ? C4 A U 10 ? ? C5 A U 10 ? ? 119.72 114.60 5.12 0.60 N 36 1 C4 A U 10 ? ? C5 A U 10 ? ? C6 A U 10 ? ? 115.59 119.70 -4.11 0.60 N 37 1 C5 A U 10 ? ? C4 A U 10 ? ? O4 A U 10 ? ? 121.16 125.90 -4.74 0.60 N 38 1 "O5'" A A 11 ? ? "C5'" A A 11 ? ? "C4'" A A 11 ? ? 96.97 109.40 -12.43 0.80 N 39 1 P A A 11 ? ? "O5'" A A 11 ? ? "C5'" A A 11 ? ? 130.98 120.90 10.08 1.60 N 40 1 "C5'" A A 11 ? ? "C4'" A A 11 ? ? "O4'" A A 11 ? ? 100.75 109.10 -8.35 1.20 N 41 1 C5 A A 11 ? ? C6 A A 11 ? ? N1 A A 11 ? ? 114.43 117.70 -3.27 0.50 N 42 1 C8 A A 11 ? ? N9 A A 11 ? ? C4 A A 11 ? ? 108.35 105.80 2.55 0.40 N 43 1 N1 A A 11 ? ? C6 A A 11 ? ? N6 A A 11 ? ? 122.93 118.60 4.33 0.60 N 44 1 "O5'" A U 12 ? ? "C5'" A U 12 ? ? "C4'" A U 12 ? ? 103.93 109.40 -5.47 0.80 N 45 1 "O4'" A U 12 ? ? "C1'" A U 12 ? ? N1 A U 12 ? ? 112.72 108.50 4.22 0.70 N 46 1 N3 A U 12 ? ? C4 A U 12 ? ? C5 A U 12 ? ? 118.68 114.60 4.08 0.60 N 47 1 N1 A U 12 ? ? C2 A U 12 ? ? O2 A U 12 ? ? 117.17 122.80 -5.63 0.70 N 48 1 C5 A U 12 ? ? C4 A U 12 ? ? O4 A U 12 ? ? 121.64 125.90 -4.26 0.60 N 49 1 C6 A A 13 ? ? N1 A A 13 ? ? C2 A A 13 ? ? 123.15 118.60 4.55 0.60 N 50 1 N1 A A 13 ? ? C2 A A 13 ? ? N3 A A 13 ? ? 125.12 129.30 -4.18 0.50 N 51 1 C5 A A 13 ? ? C6 A A 13 ? ? N1 A A 13 ? ? 114.14 117.70 -3.56 0.50 N 52 1 N1 A A 14 ? ? C2 A A 14 ? ? N3 A A 14 ? ? 125.16 129.30 -4.14 0.50 N 53 1 C2 A A 14 ? ? N3 A A 14 ? ? C4 A A 14 ? ? 114.17 110.60 3.57 0.50 N 54 1 C2 B U 15 ? ? N3 B U 15 ? ? C4 B U 15 ? ? 123.12 127.00 -3.88 0.60 N 55 1 N3 B U 15 ? ? C4 B U 15 ? ? C5 B U 15 ? ? 119.24 114.60 4.64 0.60 N 56 1 C5 B U 15 ? ? C4 B U 15 ? ? O4 B U 15 ? ? 121.73 125.90 -4.17 0.60 N 57 1 "O5'" B U 16 ? ? P B U 16 ? ? OP1 B U 16 ? ? 121.93 110.70 11.23 1.20 N 58 1 N3 B U 16 ? ? C4 B U 16 ? ? C5 B U 16 ? ? 118.94 114.60 4.34 0.60 N 59 1 N3 B U 16 ? ? C4 B U 16 ? ? O4 B U 16 ? ? 114.20 119.40 -5.20 0.70 N 60 1 "C3'" B U 16 ? ? "O3'" B U 16 ? ? P B A 17 ? ? 107.88 119.70 -11.82 1.20 Y 61 1 "O5'" B A 17 ? ? "C5'" B A 17 ? ? "C4'" B A 17 ? ? 104.41 109.40 -4.99 0.80 N 62 1 N3 B U 18 ? ? C4 B U 18 ? ? C5 B U 18 ? ? 118.74 114.60 4.14 0.60 N 63 1 N3 B U 18 ? ? C4 B U 18 ? ? O4 B U 18 ? ? 113.98 119.40 -5.42 0.70 N 64 1 "O5'" B A 19 ? ? "C5'" B A 19 ? ? "C4'" B A 19 ? ? 104.49 109.40 -4.91 0.80 N 65 1 "O4'" B A 19 ? ? "C1'" B A 19 ? ? N9 B A 19 ? ? 114.73 108.50 6.23 0.70 N 66 1 C6 B A 19 ? ? N1 B A 19 ? ? C2 B A 19 ? ? 124.33 118.60 5.73 0.60 N 67 1 N1 B A 19 ? ? C2 B A 19 ? ? N3 B A 19 ? ? 124.22 129.30 -5.08 0.50 N 68 1 C5 B A 19 ? ? C6 B A 19 ? ? N1 B A 19 ? ? 113.55 117.70 -4.15 0.50 N 69 1 "C3'" B A 19 ? ? "O3'" B A 19 ? ? P B U 20 ? ? 130.45 119.70 10.75 1.20 Y 70 1 "O5'" B U 20 ? ? P B U 20 ? ? OP1 B U 20 ? ? 118.18 110.70 7.48 1.20 N 71 1 P B U 20 ? ? "O5'" B U 20 ? ? "C5'" B U 20 ? ? 137.98 120.90 17.08 1.60 N 72 1 N3 B U 20 ? ? C4 B U 20 ? ? C5 B U 20 ? ? 118.32 114.60 3.72 0.60 N 73 1 N3 B U 20 ? ? C4 B U 20 ? ? O4 B U 20 ? ? 113.56 119.40 -5.84 0.70 N 74 1 "O5'" B A 21 ? ? P B A 21 ? ? OP1 B A 21 ? ? 122.59 110.70 11.89 1.20 N 75 1 N1 B A 21 ? ? C2 B A 21 ? ? N3 B A 21 ? ? 124.93 129.30 -4.37 0.50 N 76 1 "O3'" B A 21 ? ? P B U 22 ? ? OP2 B U 22 ? ? 121.25 110.50 10.75 1.10 Y 77 1 "O5'" B U 22 ? ? "C5'" B U 22 ? ? "C4'" B U 22 ? ? 99.65 109.40 -9.75 0.80 N 78 1 P B U 22 ? ? "O5'" B U 22 ? ? "C5'" B U 22 ? ? 103.74 120.90 -17.16 1.60 N 79 1 N1 B U 22 ? ? C2 B U 22 ? ? N3 B U 22 ? ? 119.69 114.90 4.79 0.60 N 80 1 C2 B U 22 ? ? N3 B U 22 ? ? C4 B U 22 ? ? 122.70 127.00 -4.30 0.60 N 81 1 N1 B U 22 ? ? C2 B U 22 ? ? O2 B U 22 ? ? 116.77 122.80 -6.03 0.70 N 82 1 "C3'" B U 22 ? ? "O3'" B U 22 ? ? P B A 23 ? ? 108.38 119.70 -11.32 1.20 Y 83 1 "O5'" B A 23 ? ? "C5'" B A 23 ? ? "C4'" B A 23 ? ? 103.21 109.40 -6.19 0.80 N 84 1 N9 B A 23 ? ? "C1'" B A 23 ? ? "C2'" B A 23 ? ? 105.37 112.00 -6.63 1.10 N 85 1 "O4'" B A 23 ? ? "C1'" B A 23 ? ? N9 B A 23 ? ? 114.78 108.50 6.28 0.70 N 86 1 C6 B A 23 ? ? N1 B A 23 ? ? C2 B A 23 ? ? 124.06 118.60 5.46 0.60 N 87 1 N1 B A 23 ? ? C2 B A 23 ? ? N3 B A 23 ? ? 125.66 129.30 -3.64 0.50 N 88 1 C5 B A 23 ? ? C6 B A 23 ? ? N1 B A 23 ? ? 112.41 117.70 -5.29 0.50 N 89 1 N1 B A 23 ? ? C6 B A 23 ? ? N6 B A 23 ? ? 123.43 118.60 4.83 0.60 N 90 1 "C3'" B A 23 ? ? "O3'" B A 23 ? ? P B U 24 ? ? 129.12 119.70 9.42 1.20 Y 91 1 "O5'" B U 24 ? ? P B U 24 ? ? OP1 B U 24 ? ? 118.38 110.70 7.68 1.20 N 92 1 C4 B U 24 ? ? C5 B U 24 ? ? C6 B U 24 ? ? 115.24 119.70 -4.46 0.60 N 93 1 C5 B U 24 ? ? C6 B U 24 ? ? N1 B U 24 ? ? 127.00 122.70 4.30 0.50 N 94 1 N3 B U 24 ? ? C4 B U 24 ? ? O4 B U 24 ? ? 114.62 119.40 -4.78 0.70 N 95 1 OP1 B A 25 ? ? P B A 25 ? ? OP2 B A 25 ? ? 110.36 119.60 -9.24 1.50 N 96 1 "O5'" B A 25 ? ? P B A 25 ? ? OP2 B A 25 ? ? 123.00 110.70 12.30 1.20 N 97 1 "O5'" B A 25 ? ? "C5'" B A 25 ? ? "C4'" B A 25 ? ? 102.60 109.40 -6.80 0.80 N 98 1 "O4'" B A 25 ? ? "C1'" B A 25 ? ? N9 B A 25 ? ? 112.80 108.50 4.30 0.70 N 99 1 C6 B A 25 ? ? N1 B A 25 ? ? C2 B A 25 ? ? 122.46 118.60 3.86 0.60 N 100 1 N1 B A 25 ? ? C2 B A 25 ? ? N3 B A 25 ? ? 125.63 129.30 -3.67 0.50 N 101 1 C5 B A 25 ? ? C6 B A 25 ? ? N1 B A 25 ? ? 114.21 117.70 -3.49 0.50 N 102 1 OP1 B U 26 ? ? P B U 26 ? ? OP2 B U 26 ? ? 106.42 119.60 -13.18 1.50 N 103 1 "O5'" B U 26 ? ? P B U 26 ? ? OP1 B U 26 ? ? 118.95 110.70 8.25 1.20 N 104 1 N1 B U 26 ? ? C2 B U 26 ? ? O2 B U 26 ? ? 118.20 122.80 -4.60 0.70 N 105 1 C5 B U 26 ? ? C4 B U 26 ? ? O4 B U 26 ? ? 120.83 125.90 -5.07 0.60 N 106 1 "O3'" B U 26 ? ? P B A 27 ? ? "O5'" B A 27 ? ? 92.03 104.00 -11.97 1.90 Y 107 1 "O3'" B U 26 ? ? P B A 27 ? ? OP2 B A 27 ? ? 122.73 110.50 12.23 1.10 Y 108 1 "O3'" B A 27 ? ? P B A 28 ? ? OP1 B A 28 ? ? 91.52 105.20 -13.68 2.20 Y 109 1 "O5'" B A 28 ? ? P B A 28 ? ? OP2 B A 28 ? ? 120.02 110.70 9.32 1.20 N 110 1 P B A 28 ? ? "O5'" B A 28 ? ? "C5'" B A 28 ? ? 130.97 120.90 10.07 1.60 N 111 1 C6 B A 28 ? ? N1 B A 28 ? ? C2 B A 28 ? ? 122.91 118.60 4.31 0.60 N 112 1 N1 B A 28 ? ? C2 B A 28 ? ? N3 B A 28 ? ? 125.35 129.30 -3.95 0.50 N 113 1 C5 B A 28 ? ? C6 B A 28 ? ? N1 B A 28 ? ? 114.12 117.70 -3.58 0.50 N # loop_ _refine_B_iso.class _refine_B_iso.details _refine_B_iso.treatment _refine_B_iso.pdbx_refine_id 'ALL ATOMS' TR isotropic 'X-RAY DIFFRACTION' 'ALL WATERS' TR isotropic 'X-RAY DIFFRACTION' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL WATERS' ref 'X-RAY DIFFRACTION' # 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 HOH O O N N 38 HOH H1 H N N 39 HOH H2 H N N 40 U OP3 O N N 41 U P P N N 42 U OP1 O N N 43 U OP2 O N N 44 U "O5'" O N N 45 U "C5'" C N N 46 U "C4'" C N R 47 U "O4'" O N N 48 U "C3'" C N S 49 U "O3'" O N N 50 U "C2'" C N R 51 U "O2'" O N N 52 U "C1'" C N R 53 U N1 N N N 54 U C2 C N N 55 U O2 O N N 56 U N3 N N N 57 U C4 C N N 58 U O4 O N N 59 U C5 C N N 60 U C6 C N N 61 U HOP3 H N N 62 U HOP2 H N N 63 U "H5'" H N N 64 U "H5''" H N N 65 U "H4'" H N N 66 U "H3'" H N N 67 U "HO3'" H N N 68 U "H2'" H N N 69 U "HO2'" H N N 70 U "H1'" H N N 71 U H3 H N N 72 U H5 H N N 73 U H6 H N N 74 # 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 HOH O H1 sing N N 40 HOH O H2 sing N N 41 U OP3 P sing N N 42 U OP3 HOP3 sing N N 43 U P OP1 doub N N 44 U P OP2 sing N N 45 U P "O5'" sing N N 46 U OP2 HOP2 sing N N 47 U "O5'" "C5'" sing N N 48 U "C5'" "C4'" sing N N 49 U "C5'" "H5'" sing N N 50 U "C5'" "H5''" sing N N 51 U "C4'" "O4'" sing N N 52 U "C4'" "C3'" sing N N 53 U "C4'" "H4'" sing N N 54 U "O4'" "C1'" sing N N 55 U "C3'" "O3'" sing N N 56 U "C3'" "C2'" sing N N 57 U "C3'" "H3'" sing N N 58 U "O3'" "HO3'" sing N N 59 U "C2'" "O2'" sing N N 60 U "C2'" "C1'" sing N N 61 U "C2'" "H2'" sing N N 62 U "O2'" "HO2'" sing N N 63 U "C1'" N1 sing N N 64 U "C1'" "H1'" sing N N 65 U N1 C2 sing N N 66 U N1 C6 sing N N 67 U C2 O2 doub N N 68 U C2 N3 sing N N 69 U N3 C4 sing N N 70 U N3 H3 sing N N 71 U C4 O4 doub N N 72 U C4 C5 sing N N 73 U C5 C6 doub N N 74 U C5 H5 sing N N 75 U C6 H6 sing N N 76 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1RNA 'double helix' 1RNA 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A U 1 1_555 B A 14 1_555 -0.049 -0.122 0.012 -4.896 -28.802 -0.602 1 A_U1:A28_B A 1 ? B 28 ? 20 1 1 A U 2 1_555 B A 13 1_555 0.388 -0.183 0.126 7.500 -15.965 0.653 2 A_U2:A27_B A 2 ? B 27 ? 20 1 1 A A 3 1_555 B U 12 1_555 0.134 -0.111 0.149 -3.378 -17.650 -3.062 3 A_A3:U26_B A 3 ? B 26 ? 20 1 1 A U 4 1_555 B A 11 1_555 0.265 -0.169 -0.333 10.739 -20.033 3.454 4 A_U4:A25_B A 4 ? B 25 ? 20 1 1 A A 5 1_555 B U 10 1_555 -0.719 -0.343 0.349 -1.517 -16.449 0.801 5 A_A5:U24_B A 5 ? B 24 ? 20 1 1 A U 6 1_555 B A 9 1_555 0.437 -0.242 -0.025 -0.198 -18.752 2.017 6 A_U6:A23_B A 6 ? B 23 ? 20 1 1 A A 7 1_555 B U 8 1_555 0.075 -0.108 0.137 0.213 -18.580 -1.161 7 A_A7:U22_B A 7 ? B 22 ? 20 1 1 A U 8 1_555 B A 7 1_555 -0.278 -0.002 -0.289 5.123 -18.947 -3.059 8 A_U8:A21_B A 8 ? B 21 ? 20 1 1 A A 9 1_555 B U 6 1_555 -0.489 -0.210 0.141 1.280 -23.694 1.358 9 A_A9:U20_B A 9 ? B 20 ? 20 1 1 A U 10 1_555 B A 5 1_555 0.047 -0.156 -0.006 0.859 -17.326 -0.261 10 A_U10:A19_B A 10 ? B 19 ? 20 1 1 A A 11 1_555 B U 4 1_555 -0.780 -0.309 -0.048 -3.703 -15.985 0.298 11 A_A11:U18_B A 11 ? B 18 ? 20 1 1 A U 12 1_555 B A 3 1_555 0.033 -0.094 0.070 3.776 -20.801 -4.071 12 A_U12:A17_B A 12 ? B 17 ? 20 1 1 A A 13 1_555 B U 2 1_555 -0.368 -0.180 -0.402 -8.713 -21.687 4.344 13 A_A13:U16_B A 13 ? B 16 ? 20 1 1 A A 14 1_555 B U 1 1_555 0.264 -0.107 0.777 10.566 -15.067 -5.718 14 A_A14:U15_B A 14 ? B 15 ? 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 U 1 1_555 B A 14 1_555 A U 2 1_555 B A 13 1_555 -0.328 -0.569 3.092 -5.485 4.824 34.386 -1.622 -0.229 3.003 8.047 9.149 35.131 1 AA_U1U2:A27A28_BB A 1 ? B 28 ? A 2 ? B 27 ? 1 A U 2 1_555 B A 13 1_555 A A 3 1_555 B U 12 1_555 -0.339 -1.320 3.517 -2.566 12.709 31.406 -4.317 0.167 2.807 22.324 4.507 33.915 2 AA_U2A3:U26A27_BB A 2 ? B 27 ? A 3 ? B 26 ? 1 A A 3 1_555 B U 12 1_555 A U 4 1_555 B A 11 1_555 0.561 -1.172 2.914 5.339 1.655 28.943 -2.620 -0.081 2.898 3.274 -10.558 29.466 3 AA_A3U4:A25U26_BB A 3 ? B 26 ? A 4 ? B 25 ? 1 A U 4 1_555 B A 11 1_555 A A 5 1_555 B U 10 1_555 -0.039 -1.362 3.500 -5.623 13.083 29.999 -4.571 -0.870 2.657 23.671 10.173 33.137 4 AA_U4A5:U24A25_BB A 4 ? B 25 ? A 5 ? B 24 ? 1 A A 5 1_555 B U 10 1_555 A U 6 1_555 B A 9 1_555 -0.232 -1.201 3.267 1.463 6.296 37.676 -2.603 0.532 3.024 9.662 -2.244 38.207 5 AA_A5U6:A23U24_BB A 5 ? B 24 ? A 6 ? B 23 ? 1 A U 6 1_555 B A 9 1_555 A A 7 1_555 B U 8 1_555 -0.203 -1.466 3.168 0.056 10.393 28.505 -4.677 0.398 2.491 20.274 -0.110 30.304 6 AA_U6A7:U22A23_BB A 6 ? B 23 ? A 7 ? B 22 ? 1 A A 7 1_555 B U 8 1_555 A U 8 1_555 B A 7 1_555 -0.243 -1.272 3.206 1.542 13.715 29.393 -4.447 0.680 2.378 25.343 -2.849 32.407 7 AA_A7U8:A21U22_BB A 7 ? B 22 ? A 8 ? B 21 ? 1 A U 8 1_555 B A 7 1_555 A A 9 1_555 B U 6 1_555 0.251 -1.328 3.411 -3.519 16.438 28.909 -4.881 -0.988 2.301 29.945 6.410 33.350 8 AA_U8A9:U20A21_BB A 8 ? B 21 ? A 9 ? B 20 ? 1 A A 9 1_555 B U 6 1_555 A U 10 1_555 B A 5 1_555 -0.044 -1.067 3.337 -0.540 10.533 36.121 -2.998 -0.001 2.923 16.558 0.849 37.580 9 AA_A9U10:A19U20_BB A 9 ? B 20 ? A 10 ? B 19 ? 1 A U 10 1_555 B A 5 1_555 A A 11 1_555 B U 4 1_555 0.899 -1.407 3.377 3.020 14.066 20.748 -7.032 -1.243 2.118 34.245 -7.352 25.203 10 AA_U10A11:U18A19_BB A 10 ? B 19 ? A 11 ? B 18 ? 1 A A 11 1_555 B U 4 1_555 A U 12 1_555 B A 3 1_555 -0.472 -1.356 3.109 -1.013 3.472 34.636 -2.759 0.645 2.975 5.812 1.695 34.819 11 AA_A11U12:A17U18_BB A 11 ? B 18 ? A 12 ? B 17 ? 1 A U 12 1_555 B A 3 1_555 A A 13 1_555 B U 2 1_555 0.146 -1.503 3.476 0.168 14.771 35.182 -4.137 -0.202 2.657 23.213 -0.264 38.067 12 AA_U12A13:U16A17_BB A 12 ? B 17 ? A 13 ? B 16 ? 1 A A 13 1_555 B U 2 1_555 A A 14 1_555 B U 1 1_555 -0.063 -1.188 2.662 -6.607 3.949 35.936 -2.315 -0.620 2.494 6.312 10.559 36.725 13 AA_A13A14:U15U16_BB A 13 ? B 16 ? A 14 ? B 15 ? # _atom_sites.entry_id 1RNA _atom_sites.fract_transf_matrix[1][1] 0.029317 _atom_sites.fract_transf_matrix[1][2] 0.000000 _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] 0.022416 _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] 0.020362 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_