data_3B5F # _entry.id 3B5F # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.377 _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 3B5F pdb_00003b5f 10.2210/pdb3b5f/pdb NDB UR0131 ? ? RCSB RCSB045100 ? ? WWPDB D_1000045100 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2P7F ;The Novel Use of a 2',5'-Phosphodiester Linkage as a Reaction Intermediate at the Active Site of a Small Ribozyme ; unspecified PDB 3B58 . unspecified PDB 3B5A . unspecified PDB 3B5S . unspecified PDB 3B91 . unspecified # _pdbx_database_status.entry_id 3B5F _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-10-25 _pdbx_database_status.SG_entry N _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _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 'MacElrevey, C.' 1 'Krucinska, J.' 2 'Wedekind, J.E.' 3 # _citation.id primary _citation.title 'Structural effects of nucleobase variations at key active site residue Ade38 in the hairpin ribozyme.' _citation.journal_abbrev Rna _citation.journal_volume 14 _citation.page_first 1600 _citation.page_last 1616 _citation.year 2008 _citation.journal_id_ASTM RNARFU _citation.country UK _citation.journal_id_ISSN 1355-8382 _citation.journal_id_CSD 2122 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18596253 _citation.pdbx_database_id_DOI 10.1261/rna.1055308 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'MacElrevey, C.' 1 ? primary 'Salter, J.D.' 2 ? primary 'Krucinska, J.' 3 ? primary 'Wedekind, J.E.' 4 ? # _cell.entry_id 3B5F _cell.length_a 93.490 _cell.length_b 93.490 _cell.length_c 133.820 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3B5F _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.Int_Tables_number 178 _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # 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 'Loop A Substrate strand' 4052.470 1 ? ? ? ;2'5' phosphodiester linkage between A6 and G7 ; 2 polymer syn '29-mer Loop A and Loop B Ribozyme strand' 9762.989 1 ? ? ? 'Synthetic polyethylene glycol linker at hinge position 14' 3 polymer syn 'Loop B S-turn strand' 6006.583 1 ? 'A38(N6G), U39C' ? ? 4 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 2 ? ? ? ? 5 water nat water 18.015 3 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no UCCCAGUCCACCG UCCCAGUCCACCG A ? 2 polyribonucleotide no yes 'CGGUGAGAAGGG(S9L)GGCAGAGAAACACACGA' CGGUGAGAAGGGXGGCAGAGAAACACACGA B ? 3 polyribonucleotide no yes 'UCGUGGU(N6G)CAUUACCUGCC' UCGUGGUGCAUUACCUGCC C ? # 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 C n 1 3 C n 1 4 C n 1 5 A n 1 6 G n 1 7 U n 1 8 C n 1 9 C n 1 10 A n 1 11 C n 1 12 C n 1 13 G n 2 1 C n 2 2 G n 2 3 G n 2 4 U n 2 5 G n 2 6 A n 2 7 G n 2 8 A n 2 9 A n 2 10 G n 2 11 G n 2 12 G n 2 13 S9L n 2 14 G n 2 15 G n 2 16 C n 2 17 A n 2 18 G n 2 19 A n 2 20 G n 2 21 A n 2 22 A n 2 23 A n 2 24 C n 2 25 A n 2 26 C n 2 27 A n 2 28 C n 2 29 G n 2 30 A n 3 1 U n 3 2 C n 3 3 G n 3 4 U n 3 5 G n 3 6 G n 3 7 U n 3 8 N6G n 3 9 C n 3 10 A n 3 11 U n 3 12 U n 3 13 A n 3 14 C n 3 15 C n 3 16 U n 3 17 G n 3 18 C n 3 19 C n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? ? ? ? 'solid-phase synthesis at Keck Institute, Yale' 2 1 sample ? ? ? ? ? 'solid phase chemical synthesis at Dharmacon, Colorado' 3 1 sample ? ? ? ? ? 'solid phase chemical synthesis at Dharmacon, Colorado' # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 3B58 3B58 1 UCCCAGUCCACCG ? 2 2 PDB 3B58 3B58 1 'CGGUGAGAAGGG(S9L)GGCAGAGAAACACACGA' ? 3 3 PDB 3B58 3B58 1 'UCGUGGU(N6G)CAUUACCUGCC' ? # 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 3B5F A 1 ? 13 ? 3B58 1 ? 13 ? 1 13 2 2 3B5F B 1 ? 30 ? 3B58 1 ? 30 ? 2 31 3 3 3B5F C 1 ? 19 ? 3B58 1 ? 19 ? 31 49 # 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 N6G 'RNA linking' n '((2R,3S,4R,5S)-5-(2,6-DIAMINO-9H-PURIN-9-YL)-3,4-DIHYDROXY-TETRAHYDROFURAN-2-YL)METHYL DIHYDROGEN PHOSPHATE' ? 'C10 H15 N6 O7 P' 362.236 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 S9L non-polymer . '2-[2-(2-HYDROXYETHOXY)ETHOXY]ETHYL DIHYDROGEN PHOSPHATE' ? 'C6 H15 O7 P' 230.153 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.entry_id 3B5F _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 4.34 _exptl_crystal.density_percent_sol 78. _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.pH 6.8 _exptl_crystal_grow.pdbx_details ;PEG 2K MME, lithium sulfate, sodium cacodylate, spermidine, cobalt hexaammine, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K ; _exptl_crystal_grow.temp_details ? _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.conc _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.details 1 1 1 'PEG 2K MME' ? ? ? 1 2 1 Li2SO4 ? ? ? 1 3 1 'sodium cacodylate' ? ? ? 1 4 1 spermidine ? ? ? 1 5 1 'cobalt hexaammine' ? ? ? 1 6 2 'PEG 2K MME' ? ? ? 1 7 2 Li2SO4 ? ? ? 1 8 2 spermidine ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 270' _diffrn_detector.pdbx_collection_date 2007-05-10 _diffrn_detector.details 'BENT TRIANGULAR ASYMMETRIC CUT SI(111) MONOCHROMATOR (PROVIDES HORIZONTAL FOCUSSING), RH-COATED SI MIRROR FOR VERTICAL FOCUSSING' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'horizontal bent Si(111) asymmetrically cut w/ water cooled Cu block' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.918 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'CHESS BEAMLINE F1' _diffrn_source.pdbx_synchrotron_site CHESS _diffrn_source.pdbx_synchrotron_beamline F1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.918 # _reflns.entry_id 3B5F _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 40.48 _reflns.d_resolution_high 2.70 _reflns.number_obs 9960 _reflns.number_all 10109 _reflns.percent_possible_obs 99.4 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.05 _reflns.pdbx_netI_over_sigmaI 23.8 _reflns.B_iso_Wilson_estimate 79.6 _reflns.pdbx_redundancy 7.8 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.70 _reflns_shell.d_res_low 2.80 _reflns_shell.percent_possible_all 99.9 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.459 _reflns_shell.meanI_over_sigI_obs 3.0 _reflns_shell.pdbx_redundancy 6.1 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 962 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3B5F _refine.ls_number_reflns_obs 9930 _refine.ls_number_reflns_all 10019 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F -3.0 _refine.pdbx_data_cutoff_high_absF 599805.33 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 38.32 _refine.ls_d_res_high 2.70 _refine.ls_percent_reflns_obs 99.1 _refine.ls_R_factor_obs 0.224 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.223 _refine.ls_R_factor_R_free 0.25 _refine.ls_R_factor_R_free_error 0.008 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.3 _refine.ls_number_reflns_R_free 921 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 81.2 _refine.aniso_B[1][1] -5.89 _refine.aniso_B[2][2] -5.89 _refine.aniso_B[3][3] 11.79 _refine.aniso_B[1][2] -10.09 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.32 _refine.solvent_model_param_bsol 60 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'Alternate conformation at U1 of chain A. S9L and N6G are covalently attached to ribozyme' _refine.pdbx_starting_model 2P7F _refine.pdbx_method_to_determine_struct 'FOURIER SYNTHESIS' _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 3B5F _refine_analyze.Luzzati_coordinate_error_obs 0.41 _refine_analyze.Luzzati_sigma_a_obs 0.53 _refine_analyze.Luzzati_d_res_low_obs 40.48 _refine_analyze.Luzzati_coordinate_error_free 0.46 _refine_analyze.Luzzati_sigma_a_free 0.54 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 1327 _refine_hist.pdbx_number_atoms_ligand 14 _refine_hist.number_atoms_solvent 3 _refine_hist.number_atoms_total 1344 _refine_hist.d_res_high 2.70 _refine_hist.d_res_low 38.32 # 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 c_bond_d 0.007 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.5 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 17.2 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 1.64 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 4 _refine_ls_shell.d_res_high 2.70 _refine_ls_shell.d_res_low 2.97 _refine_ls_shell.number_reflns_R_work 2178 _refine_ls_shell.R_factor_R_work 0.563 _refine_ls_shell.percent_reflns_obs 99.5 _refine_ls_shell.R_factor_R_free 0.585 _refine_ls_shell.R_factor_R_free_error 0.039 _refine_ls_shell.percent_reflns_R_free 9.6 _refine_ls_shell.number_reflns_R_free 230 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 2178 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 water_rep.param dna-rna0107.top 'X-RAY DIFFRACTION' 2 dna-rna0107.par water.top 'X-RAY DIFFRACTION' 3 cobalt.par cobalt.top 'X-RAY DIFFRACTION' 4 ion.param ion.top 'X-RAY DIFFRACTION' # _struct.entry_id 3B5F _struct.title ;Crystal Structure of a Minimally Hinged Hairpin Ribozyme Incorporating the Ade38Dap Mutation and a 2',5' Phosphodiester Linkage at the Active Site ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3B5F _struct_keywords.pdbx_keywords RNA _struct_keywords.text ;hairpin ribozyme; 2, 6 diaminopurine; RNA; 2', 5' phosphodiester linkage, RNA ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 4 ? F N N 5 ? G N N 5 ? # _struct_biol.id 1 _struct_biol.details ? # 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 one ? A A 5 "O2'" ? ? ? 1_555 A G 6 P ? ? A A 5 A G 6 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale2 covale both ? B G 12 "O3'" ? ? ? 1_555 B S9L 13 P ? ? B G 13 B S9L 14 1_555 ? ? ? ? ? ? ? 1.611 ? ? covale3 covale both ? B S9L 13 "O3'" ? ? ? 1_555 B G 14 P ? ? B S9L 14 B G 15 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale4 covale both ? C U 7 "O3'" ? ? ? 1_555 C N6G 8 P ? ? C U 37 C N6G 38 1_555 ? ? ? ? ? ? ? 1.595 ? ? covale5 covale both ? C N6G 8 "O3'" ? ? ? 1_555 C C 9 P ? ? C N6G 38 C C 39 1_555 ? ? ? ? ? ? ? 1.619 ? ? hydrog1 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 2 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 2 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 2 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 3 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 3 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 3 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 10 N1 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 10 O6 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 10 N2 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A A 5 N3 ? ? ? 1_555 B A 8 N6 ? ? A A 5 B A 9 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog11 hydrog ? ? A A 5 N3 ? ? ? 1_555 B A 9 N6 ? ? A A 5 B A 10 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog12 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 24 N3 ? ? A G 6 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 24 O2 ? ? A G 6 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 24 N4 ? ? A G 6 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 7 O4 ? ? ? 1_555 B G 7 N2 ? ? A U 7 B G 8 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog16 hydrog ? ? A C 8 N4 ? ? ? 1_555 B A 6 N1 ? ? A C 8 B A 7 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog17 hydrog ? ? A C 9 N3 ? ? ? 1_555 B G 5 N1 ? ? A C 9 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 9 N4 ? ? ? 1_555 B G 5 O6 ? ? A C 9 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 9 O2 ? ? ? 1_555 B G 5 N2 ? ? A C 9 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 4 N3 ? ? A A 10 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 4 O4 ? ? A A 10 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 11 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 11 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 11 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 11 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 11 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 12 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 12 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 12 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 12 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 12 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 12 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 13 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 13 B C 2 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog29 hydrog ? ? B G 14 N1 ? ? ? 1_555 C C 19 N3 ? ? B G 15 C C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B G 14 N2 ? ? ? 1_555 C C 19 O2 ? ? B G 15 C C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B G 14 O6 ? ? ? 1_555 C C 19 N4 ? ? B G 15 C C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B G 15 N1 ? ? ? 1_555 C C 18 N3 ? ? B G 16 C C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B G 15 N2 ? ? ? 1_555 C C 18 O2 ? ? B G 16 C C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B G 15 O6 ? ? ? 1_555 C C 18 N4 ? ? B G 16 C C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B C 16 N3 ? ? ? 1_555 C G 17 N1 ? ? B C 17 C G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B C 16 N4 ? ? ? 1_555 C G 17 O6 ? ? B C 17 C G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B C 16 O2 ? ? ? 1_555 C G 17 N2 ? ? B C 17 C G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B A 17 N1 ? ? ? 1_555 C U 16 N3 ? ? B A 18 C U 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B A 17 N6 ? ? ? 1_555 C U 16 O4 ? ? B A 18 C U 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B G 18 N1 ? ? ? 1_555 C C 15 N3 ? ? B G 19 C C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? B G 18 N2 ? ? ? 1_555 C C 15 O2 ? ? B G 19 C C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? B G 18 O6 ? ? ? 1_555 C C 15 N4 ? ? B G 19 C C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? B A 19 N1 ? ? ? 1_555 C C 14 N4 ? ? B A 20 C C 44 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog44 hydrog ? ? B G 20 N2 ? ? ? 1_555 C A 13 N7 ? ? B G 21 C A 43 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog45 hydrog ? ? B G 20 N3 ? ? ? 1_555 C A 13 N6 ? ? B G 21 C A 43 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog46 hydrog ? ? B A 21 N6 ? ? ? 1_555 C U 11 O2 ? ? B A 22 C U 41 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog47 hydrog ? ? B A 21 N7 ? ? ? 1_555 C U 11 N3 ? ? B A 22 C U 41 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog48 hydrog ? ? B A 22 N6 ? ? ? 1_555 C A 10 N1 ? ? B A 23 C A 40 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog49 hydrog ? ? B A 25 N1 ? ? ? 1_555 C G 6 N1 ? ? B A 26 C G 36 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog50 hydrog ? ? B A 25 N6 ? ? ? 1_555 C G 6 O6 ? ? B A 26 C G 36 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog51 hydrog ? ? B C 26 N3 ? ? ? 1_555 C G 5 N1 ? ? B C 27 C G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? B C 26 N4 ? ? ? 1_555 C G 5 O6 ? ? B C 27 C G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? B C 26 O2 ? ? ? 1_555 C G 5 N2 ? ? B C 27 C G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? B A 27 N1 ? ? ? 1_555 C U 4 N3 ? ? B A 28 C U 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? B A 27 N6 ? ? ? 1_555 C U 4 O4 ? ? B A 28 C U 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? B C 28 N3 ? ? ? 1_555 C G 3 N1 ? ? B C 29 C G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? B C 28 N4 ? ? ? 1_555 C G 3 O6 ? ? B C 29 C G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? B C 28 O2 ? ? ? 1_555 C G 3 N2 ? ? B C 29 C G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? B G 29 N1 ? ? ? 1_555 C C 2 N3 ? ? B G 30 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? B G 29 N2 ? ? ? 1_555 C C 2 O2 ? ? B G 30 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? B G 29 O6 ? ? ? 1_555 C C 2 N4 ? ? B G 30 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? B A 30 N1 ? ? ? 1_555 C U 1 N3 ? ? B A 31 C U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? B A 30 N6 ? ? ? 1_555 C U 1 O4 ? ? B A 31 C U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 3B5F _atom_sites.fract_transf_matrix[1][1] 0.010696 _atom_sites.fract_transf_matrix[1][2] 0.006176 _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] 0.012351 _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] 0.007473 _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 CO N O P # 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 C 2 2 2 C C A . n A 1 3 C 3 3 3 C C A . n A 1 4 C 4 4 4 C C A . n A 1 5 A 5 5 5 A A A . n A 1 6 G 6 6 6 G G A . n A 1 7 U 7 7 7 U U A . n A 1 8 C 8 8 8 C C A . n A 1 9 C 9 9 9 C C A . n A 1 10 A 10 10 10 A A A . n A 1 11 C 11 11 11 C C A . n A 1 12 C 12 12 12 C C A . n A 1 13 G 13 13 13 G G A . n B 2 1 C 1 2 2 C C B . n B 2 2 G 2 3 3 G G B . n B 2 3 G 3 4 4 G G B . n B 2 4 U 4 5 5 U U B . n B 2 5 G 5 6 6 G G B . n B 2 6 A 6 7 7 A A B . n B 2 7 G 7 8 8 G G B . n B 2 8 A 8 9 9 A A B . n B 2 9 A 9 10 10 A A B . n B 2 10 G 10 11 11 G G B . n B 2 11 G 11 12 12 G G B . n B 2 12 G 12 13 13 G G B . n B 2 13 S9L 13 14 14 S9L S9L B . n B 2 14 G 14 15 15 G G B . n B 2 15 G 15 16 16 G G B . n B 2 16 C 16 17 17 C C B . n B 2 17 A 17 18 18 A A B . n B 2 18 G 18 19 19 G G B . n B 2 19 A 19 20 20 A A B . n B 2 20 G 20 21 21 G G B . n B 2 21 A 21 22 22 A A B . n B 2 22 A 22 23 23 A A B . n B 2 23 A 23 24 24 A A B . n B 2 24 C 24 25 25 C C B . n B 2 25 A 25 26 26 A A B . n B 2 26 C 26 27 27 C C B . n B 2 27 A 27 28 28 A A B . n B 2 28 C 28 29 29 C C B . n B 2 29 G 29 30 30 G G B . n B 2 30 A 30 31 31 A A B . n C 3 1 U 1 31 31 U U C . n C 3 2 C 2 32 32 C C C . n C 3 3 G 3 33 33 G G C . n C 3 4 U 4 34 34 U U C . n C 3 5 G 5 35 35 G G C . n C 3 6 G 6 36 36 G G C . n C 3 7 U 7 37 37 U U C . n C 3 8 N6G 8 38 38 N6G N6G C . n C 3 9 C 9 39 39 C C C . n C 3 10 A 10 40 40 A A C . n C 3 11 U 11 41 41 U U C . n C 3 12 U 12 42 42 U U C . n C 3 13 A 13 43 43 A A C . n C 3 14 C 14 44 44 C C C . n C 3 15 C 15 45 45 C C C . n C 3 16 U 16 46 46 U U C . n C 3 17 G 17 47 47 G G C . n C 3 18 C 18 48 48 C C C . n C 3 19 C 19 49 49 C C C . 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 D 4 NCO 1 101 101 NCO NCO B . E 4 NCO 1 102 102 NCO NCO B . F 5 HOH 1 14 2 HOH HOH A . G 5 HOH 1 50 3 HOH HOH C . G 5 HOH 2 51 4 HOH HOH C . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id C _pdbx_struct_mod_residue.label_comp_id N6G _pdbx_struct_mod_residue.label_seq_id 8 _pdbx_struct_mod_residue.auth_asym_id C _pdbx_struct_mod_residue.auth_comp_id N6G _pdbx_struct_mod_residue.auth_seq_id 38 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id G _pdbx_struct_mod_residue.details ? # _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # 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)' 5840 ? 1 MORE -11 ? 1 'SSA (A^2)' 9340 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _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 2008-08-12 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-10-25 4 'Structure model' 1 3 2023-08-30 # _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' 'Refinement description' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' software 2 4 'Structure model' chem_comp_atom 3 4 'Structure model' chem_comp_bond 4 4 'Structure model' database_2 5 4 'Structure model' pdbx_initial_refinement_model 6 4 'Structure model' struct_conn # 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 3 'Structure model' '_software.classification' 2 3 'Structure model' '_software.name' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 4 'Structure model' '_database_2.pdbx_database_accession' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal Adxv 'data processing' . ? 1 CNS refinement . ? 2 CrystalClear 'data reduction' . ? 3 CrystalClear 'data scaling' . ? 4 CNS phasing . ? 5 # 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'" B G 8 ? ? "C1'" B G 8 ? ? N9 B G 8 ? ? 113.70 108.50 5.20 0.70 N 2 1 "O3'" B G 8 ? ? P B A 9 ? ? OP2 B A 9 ? ? 122.11 110.50 11.61 1.10 Y 3 1 "O4'" C C 39 ? ? "C1'" C C 39 ? ? N1 C C 39 ? ? 112.71 108.50 4.21 0.70 N # _pdbx_unobs_or_zero_occ_atoms.id 1 _pdbx_unobs_or_zero_occ_atoms.PDB_model_num 1 _pdbx_unobs_or_zero_occ_atoms.polymer_flag Y _pdbx_unobs_or_zero_occ_atoms.occupancy_flag 1 _pdbx_unobs_or_zero_occ_atoms.auth_asym_id A _pdbx_unobs_or_zero_occ_atoms.auth_comp_id A _pdbx_unobs_or_zero_occ_atoms.auth_seq_id 5 _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code ? _pdbx_unobs_or_zero_occ_atoms.auth_atom_id "O3'" _pdbx_unobs_or_zero_occ_atoms.label_alt_id ? _pdbx_unobs_or_zero_occ_atoms.label_asym_id A _pdbx_unobs_or_zero_occ_atoms.label_comp_id A _pdbx_unobs_or_zero_occ_atoms.label_seq_id 5 _pdbx_unobs_or_zero_occ_atoms.label_atom_id "O3'" # 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 N6G P P N N 114 N6G OP1 O N N 115 N6G OP2 O N N 116 N6G "O5'" O N N 117 N6G "C5'" C N N 118 N6G "C4'" C N R 119 N6G "O4'" O N N 120 N6G "C1'" C N R 121 N6G N9 N Y N 122 N6G C4 C Y N 123 N6G N3 N Y N 124 N6G C2 C Y N 125 N6G N2 N N N 126 N6G N1 N Y N 127 N6G C6 C Y N 128 N6G N6 N N N 129 N6G C5 C Y N 130 N6G N7 N Y N 131 N6G C8 C Y N 132 N6G "C2'" C N R 133 N6G "O2'" O N N 134 N6G "C3'" C N S 135 N6G "O3'" O N N 136 N6G OP3 O N N 137 N6G HOP2 H N N 138 N6G "H5'" H N N 139 N6G "H5''" H N N 140 N6G "H4'" H N N 141 N6G "H1'" H N N 142 N6G HN21 H N N 143 N6G HN22 H N N 144 N6G HN61 H N N 145 N6G HN62 H N N 146 N6G H8 H N N 147 N6G "H2'" H N N 148 N6G "HO2'" H N N 149 N6G "H3'" H N N 150 N6G "HO3'" H N N 151 N6G HOP3 H N N 152 NCO CO CO N N 153 NCO N1 N N N 154 NCO N2 N N N 155 NCO N3 N N N 156 NCO N4 N N N 157 NCO N5 N N N 158 NCO N6 N N N 159 NCO HN11 H N N 160 NCO HN12 H N N 161 NCO HN13 H N N 162 NCO HN21 H N N 163 NCO HN22 H N N 164 NCO HN23 H N N 165 NCO HN31 H N N 166 NCO HN32 H N N 167 NCO HN33 H N N 168 NCO HN41 H N N 169 NCO HN42 H N N 170 NCO HN43 H N N 171 NCO HN51 H N N 172 NCO HN52 H N N 173 NCO HN53 H N N 174 NCO HN61 H N N 175 NCO HN62 H N N 176 NCO HN63 H N N 177 S9L O3P O N N 178 S9L P P N N 179 S9L O1P O N N 180 S9L O2P O N N 181 S9L "O5'" O N N 182 S9L C12 C N N 183 S9L C22 C N N 184 S9L OH3 O N N 185 S9L C13 C N N 186 S9L C23 C N N 187 S9L OH4 O N N 188 S9L C14 C N N 189 S9L C24 C N N 190 S9L "O3'" O N N 191 S9L HO3P H N N 192 S9L HO1P H N N 193 S9L H121 H N N 194 S9L H122 H N N 195 S9L H221 H N N 196 S9L H222 H N N 197 S9L H131 H N N 198 S9L H132 H N N 199 S9L H231 H N N 200 S9L H232 H N N 201 S9L H141 H N N 202 S9L H142 H N N 203 S9L H241 H N N 204 S9L H242 H N N 205 S9L "HO3'" H N N 206 U OP3 O N N 207 U P P N N 208 U OP1 O N N 209 U OP2 O N N 210 U "O5'" O N N 211 U "C5'" C N N 212 U "C4'" C N R 213 U "O4'" O N N 214 U "C3'" C N S 215 U "O3'" O N N 216 U "C2'" C N R 217 U "O2'" O N N 218 U "C1'" C N R 219 U N1 N N N 220 U C2 C N N 221 U O2 O N N 222 U N3 N N N 223 U C4 C N N 224 U O4 O N N 225 U C5 C N N 226 U C6 C N N 227 U HOP3 H N N 228 U HOP2 H N N 229 U "H5'" H N N 230 U "H5''" H N N 231 U "H4'" H N N 232 U "H3'" H N N 233 U "HO3'" H N N 234 U "H2'" H N N 235 U "HO2'" H N N 236 U "H1'" H N N 237 U H3 H N N 238 U H5 H N N 239 U H6 H N N 240 # 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 N6G P OP1 doub N N 118 N6G P OP2 sing N N 119 N6G P "O5'" sing N N 120 N6G P OP3 sing N N 121 N6G OP2 HOP2 sing N N 122 N6G "O5'" "C5'" sing N N 123 N6G "C5'" "C4'" sing N N 124 N6G "C5'" "H5'" sing N N 125 N6G "C5'" "H5''" sing N N 126 N6G "C4'" "O4'" sing N N 127 N6G "C4'" "C3'" sing N N 128 N6G "C4'" "H4'" sing N N 129 N6G "O4'" "C1'" sing N N 130 N6G "C1'" N9 sing N N 131 N6G "C1'" "C2'" sing N N 132 N6G "C1'" "H1'" sing N N 133 N6G N9 C4 sing Y N 134 N6G N9 C8 sing Y N 135 N6G C4 N3 sing Y N 136 N6G C4 C5 doub Y N 137 N6G N3 C2 doub Y N 138 N6G C2 N2 sing N N 139 N6G C2 N1 sing Y N 140 N6G N2 HN21 sing N N 141 N6G N2 HN22 sing N N 142 N6G N1 C6 doub Y N 143 N6G C6 N6 sing N N 144 N6G C6 C5 sing Y N 145 N6G N6 HN61 sing N N 146 N6G N6 HN62 sing N N 147 N6G C5 N7 sing Y N 148 N6G N7 C8 doub Y N 149 N6G C8 H8 sing N N 150 N6G "C2'" "O2'" sing N N 151 N6G "C2'" "C3'" sing N N 152 N6G "C2'" "H2'" sing N N 153 N6G "O2'" "HO2'" sing N N 154 N6G "C3'" "O3'" sing N N 155 N6G "C3'" "H3'" sing N N 156 N6G "O3'" "HO3'" sing N N 157 N6G OP3 HOP3 sing N N 158 NCO CO N1 sing N N 159 NCO CO N2 sing N N 160 NCO CO N3 sing N N 161 NCO CO N4 sing N N 162 NCO CO N5 sing N N 163 NCO CO N6 sing N N 164 NCO N1 HN11 sing N N 165 NCO N1 HN12 sing N N 166 NCO N1 HN13 sing N N 167 NCO N2 HN21 sing N N 168 NCO N2 HN22 sing N N 169 NCO N2 HN23 sing N N 170 NCO N3 HN31 sing N N 171 NCO N3 HN32 sing N N 172 NCO N3 HN33 sing N N 173 NCO N4 HN41 sing N N 174 NCO N4 HN42 sing N N 175 NCO N4 HN43 sing N N 176 NCO N5 HN51 sing N N 177 NCO N5 HN52 sing N N 178 NCO N5 HN53 sing N N 179 NCO N6 HN61 sing N N 180 NCO N6 HN62 sing N N 181 NCO N6 HN63 sing N N 182 S9L O3P P sing N N 183 S9L O3P HO3P sing N N 184 S9L P O2P doub N N 185 S9L P O1P sing N N 186 S9L P "O5'" sing N N 187 S9L O1P HO1P sing N N 188 S9L "O5'" C12 sing N N 189 S9L C12 C22 sing N N 190 S9L C12 H121 sing N N 191 S9L C12 H122 sing N N 192 S9L C22 OH3 sing N N 193 S9L C22 H221 sing N N 194 S9L C22 H222 sing N N 195 S9L OH3 C23 sing N N 196 S9L C13 C23 sing N N 197 S9L C13 OH4 sing N N 198 S9L C13 H131 sing N N 199 S9L C13 H132 sing N N 200 S9L C23 H231 sing N N 201 S9L C23 H232 sing N N 202 S9L OH4 C24 sing N N 203 S9L C14 C24 sing N N 204 S9L C14 "O3'" sing N N 205 S9L C14 H141 sing N N 206 S9L C14 H142 sing N N 207 S9L C24 H241 sing N N 208 S9L C24 H242 sing N N 209 S9L "O3'" "HO3'" sing N N 210 U OP3 P sing N N 211 U OP3 HOP3 sing N N 212 U P OP1 doub N N 213 U P OP2 sing N N 214 U P "O5'" sing N N 215 U OP2 HOP2 sing N N 216 U "O5'" "C5'" sing N N 217 U "C5'" "C4'" sing N N 218 U "C5'" "H5'" sing N N 219 U "C5'" "H5''" sing N N 220 U "C4'" "O4'" sing N N 221 U "C4'" "C3'" sing N N 222 U "C4'" "H4'" sing N N 223 U "O4'" "C1'" sing N N 224 U "C3'" "O3'" sing N N 225 U "C3'" "C2'" sing N N 226 U "C3'" "H3'" sing N N 227 U "O3'" "HO3'" sing N N 228 U "C2'" "O2'" sing N N 229 U "C2'" "C1'" sing N N 230 U "C2'" "H2'" sing N N 231 U "O2'" "HO2'" sing N N 232 U "C1'" N1 sing N N 233 U "C1'" "H1'" sing N N 234 U N1 C2 sing N N 235 U N1 C6 sing N N 236 U C2 O2 doub N N 237 U C2 N3 sing N N 238 U N3 C4 sing N N 239 U N3 H3 sing N N 240 U C4 O4 doub N N 241 U C4 C5 sing N N 242 U C5 C6 doub N N 243 U C5 H5 sing N N 244 U C6 H6 sing N N 245 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3B5F 'double helix' 3B5F 'a-form double helix' 3B5F 'bulge loop' 3B5F 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A C 2 1_555 B G 12 1_555 0.236 -0.303 -0.257 6.088 -22.892 2.880 1 A_C2:G13_B A 2 ? B 13 ? 19 1 1 A C 3 1_555 B G 11 1_555 0.209 -0.325 -0.055 -2.911 -8.155 0.804 2 A_C3:G12_B A 3 ? B 12 ? 19 1 1 A C 4 1_555 B G 10 1_555 0.428 -0.244 0.257 0.524 4.736 3.948 3 A_C4:G11_B A 4 ? B 11 ? 19 1 1 A A 5 1_555 B A 8 1_555 6.751 -3.444 -0.208 6.390 0.700 -26.778 4 A_A5:A9_B A 5 ? B 9 ? ? ? 1 A U 7 1_555 B G 7 1_555 -8.172 -2.952 -0.294 5.947 23.445 -14.903 5 A_U7:G8_B A 7 ? B 8 ? ? ? 1 A C 8 1_555 B A 6 1_555 -2.437 0.614 -1.122 27.665 -11.247 3.865 6 A_C8:A7_B A 8 ? B 7 ? ? ? 1 A C 9 1_555 B G 5 1_555 0.436 0.144 -0.595 22.059 -15.774 1.975 7 A_C9:G6_B A 9 ? B 6 ? 19 1 1 A A 10 1_555 B U 4 1_555 0.581 -0.063 0.074 0.968 -11.750 -8.251 8 A_A10:U5_B A 10 ? B 5 ? 20 1 1 A C 11 1_555 B G 3 1_555 -0.021 -0.339 0.119 6.193 -11.225 -0.311 9 A_C11:G4_B A 11 ? B 4 ? 19 1 1 A C 12 1_555 B G 2 1_555 0.647 -0.590 0.301 -2.645 -11.997 -5.943 10 A_C12:G3_B A 12 ? B 3 ? 19 1 1 A G 13 1_555 B C 1 1_555 -0.972 0.711 -0.146 -2.387 -13.559 21.372 11 A_G13:C2_B A 13 ? B 2 ? ? ? 1 B G 14 1_555 C C 19 1_555 -0.334 -0.113 0.528 1.839 -10.201 0.921 12 B_G15:C49_C B 15 ? C 49 ? 19 1 1 B G 15 1_555 C C 18 1_555 -0.445 -0.238 0.548 12.391 -6.634 0.247 13 B_G16:C48_C B 16 ? C 48 ? 19 1 1 B C 16 1_555 C G 17 1_555 -0.152 0.041 -0.004 6.597 -11.942 4.679 14 B_C17:G47_C B 17 ? C 47 ? 19 1 1 B A 17 1_555 C U 16 1_555 0.003 -0.166 0.123 -0.908 -8.814 7.619 15 B_A18:U46_C B 18 ? C 46 ? 20 1 1 B G 18 1_555 C C 15 1_555 -0.277 -0.290 -0.650 -10.099 -5.664 1.645 16 B_G19:C45_C B 19 ? C 45 ? 19 1 1 B A 19 1_555 C C 14 1_555 1.997 0.258 -0.372 -13.831 -5.827 15.927 17 B_A20:C44_C B 20 ? C 44 ? ? 1 1 B G 20 1_555 C A 13 1_555 7.046 -4.687 0.080 -7.045 2.744 -5.602 18 B_G21:A43_C B 21 ? C 43 ? 11 10 1 B A 21 1_555 C U 11 1_555 -4.179 -1.952 -0.068 -2.726 -11.247 -98.697 19 B_A22:U41_C B 22 ? C 41 ? 24 4 1 B A 22 1_555 C A 10 1_555 -4.545 0.973 -0.465 1.204 -21.998 -94.417 20 B_A23:A40_C B 23 ? C 40 ? ? ? 1 B C 24 1_555 A G 6 1_555 0.382 -0.290 0.142 11.356 -8.890 1.727 21 B_C25:G6_A B 25 ? A 6 ? 19 1 1 B A 25 1_555 C G 6 1_555 0.105 1.282 -0.485 -12.014 -16.110 -18.483 22 B_A26:G36_C B 26 ? C 36 ? 8 ? 1 B C 26 1_555 C G 5 1_555 0.155 -0.304 0.071 6.151 -20.124 0.386 23 B_C27:G35_C B 27 ? C 35 ? 19 1 1 B A 27 1_555 C U 4 1_555 -0.050 -0.329 0.339 5.723 -19.519 -0.754 24 B_A28:U34_C B 28 ? C 34 ? 20 1 1 B C 28 1_555 C G 3 1_555 0.063 -0.147 0.094 4.852 -11.703 1.179 25 B_C29:G33_C B 29 ? C 33 ? 19 1 1 B G 29 1_555 C C 2 1_555 -0.258 -0.137 0.183 -5.947 -12.673 -2.616 26 B_G30:C32_C B 30 ? C 32 ? 19 1 1 B A 30 1_555 C U 1 1_555 0.419 -0.067 0.282 -1.487 -4.832 3.537 27 B_A31:U31_C B 31 ? C 31 ? 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 C 2 1_555 B G 12 1_555 A C 3 1_555 B G 11 1_555 -0.561 -1.556 3.512 -1.962 9.876 34.600 -3.945 0.624 2.996 16.185 3.215 35.992 1 AA_C2C3:G12G13_BB A 2 ? B 13 ? A 3 ? B 12 ? 1 A C 3 1_555 B G 11 1_555 A C 4 1_555 B G 10 1_555 0.585 -1.541 3.344 0.283 8.955 28.028 -4.868 -1.095 2.737 17.919 -0.566 29.397 2 AA_C3C4:G11G12_BB A 3 ? B 12 ? A 4 ? B 11 ? 1 A C 4 1_555 B G 10 1_555 A A 5 1_555 B A 8 1_555 -0.318 -0.998 5.299 -4.313 23.383 75.209 -1.832 0.060 4.881 18.719 3.453 78.345 3 AA_C4A5:A9G11_BB A 4 ? B 11 ? A 5 ? B 9 ? 1 A A 5 1_555 B A 8 1_555 A U 7 1_555 B G 7 1_555 -1.888 -0.517 3.530 4.627 6.874 11.707 -7.931 11.510 2.031 29.354 -19.761 14.334 4 AA_A5U7:G8A9_BB A 5 ? B 9 ? A 7 ? B 8 ? 1 A U 7 1_555 B G 7 1_555 A C 8 1_555 B A 6 1_555 0.604 -1.184 2.764 -0.273 5.064 49.727 -1.706 -0.731 2.636 6.004 0.323 49.968 5 AA_U7C8:A7G8_BB A 7 ? B 8 ? A 8 ? B 7 ? 1 A C 8 1_555 B A 6 1_555 A C 9 1_555 B G 5 1_555 -0.081 -1.448 3.657 -3.723 4.426 38.214 -2.785 -0.379 3.466 6.713 5.647 38.633 6 AA_C8C9:G6A7_BB A 8 ? B 7 ? A 9 ? B 6 ? 1 A C 9 1_555 B G 5 1_555 A A 10 1_555 B U 4 1_555 -0.957 -1.875 3.548 -5.225 18.315 37.649 -4.484 0.800 2.520 26.415 7.536 42.036 7 AA_C9A10:U5G6_BB A 9 ? B 6 ? A 10 ? B 5 ? 1 A A 10 1_555 B U 4 1_555 A C 11 1_555 B G 3 1_555 -0.180 -2.529 3.070 -2.621 2.123 24.180 -6.582 -0.317 2.844 5.036 6.217 24.411 8 AA_A10C11:G4U5_BB A 10 ? B 5 ? A 11 ? B 4 ? 1 A C 11 1_555 B G 3 1_555 A C 12 1_555 B G 2 1_555 -0.289 -1.736 3.441 -0.927 4.991 36.998 -3.383 0.326 3.194 7.819 1.453 37.332 9 AA_C11C12:G3G4_BB A 11 ? B 4 ? A 12 ? B 3 ? 1 A C 12 1_555 B G 2 1_555 A G 13 1_555 B C 1 1_555 1.122 -2.179 3.055 4.987 9.562 21.221 -7.914 -1.353 2.097 24.064 -12.551 23.776 10 AA_C12G13:C2G3_BB A 12 ? B 3 ? A 13 ? B 2 ? 1 B G 14 1_555 C C 19 1_555 B G 15 1_555 C C 18 1_555 -0.585 -1.226 2.911 -4.079 3.017 33.596 -2.526 0.424 2.842 5.183 7.007 33.966 11 BB_G15G16:C48C49_CC B 15 ? C 49 ? B 16 ? C 48 ? 1 B G 15 1_555 C C 18 1_555 B C 16 1_555 C G 17 1_555 0.474 -1.356 3.378 3.949 7.781 34.151 -3.395 -0.198 3.040 12.988 -6.592 35.215 12 BB_G16C17:G47C48_CC B 16 ? C 48 ? B 17 ? C 47 ? 1 B C 16 1_555 C G 17 1_555 B A 17 1_555 C U 16 1_555 0.374 -1.717 3.232 -2.221 11.829 32.634 -4.502 -0.933 2.450 20.214 3.796 34.726 13 BB_C17A18:U46G47_CC B 17 ? C 47 ? B 18 ? C 46 ? 1 B A 17 1_555 C U 16 1_555 B G 18 1_555 C C 15 1_555 -0.161 -1.950 3.612 3.830 6.782 29.232 -5.164 1.112 3.048 13.146 -7.424 30.230 14 BB_A18G19:C45U46_CC B 18 ? C 46 ? B 19 ? C 45 ? 1 B G 18 1_555 C C 15 1_555 B A 19 1_555 C C 14 1_555 1.160 -1.420 3.337 0.708 6.963 38.236 -2.971 -1.659 3.062 10.522 -1.070 38.847 15 BB_G19A20:C44C45_CC B 19 ? C 45 ? B 20 ? C 44 ? 1 B A 19 1_555 C C 14 1_555 B G 20 1_555 C A 13 1_555 -0.632 -0.995 3.146 6.588 7.532 60.124 -1.320 0.920 2.937 7.462 -6.526 60.874 16 BB_A20G21:A43C44_CC B 20 ? C 44 ? B 21 ? C 43 ? 1 B G 20 1_555 C A 13 1_555 B A 21 1_555 C U 11 1_555 -2.171 -0.448 3.335 1.049 -2.587 10.798 1.605 12.756 3.130 -13.454 -5.456 11.152 17 BB_G21A22:U41A43_CC B 21 ? C 43 ? B 22 ? C 41 ? 1 B A 21 1_555 C U 11 1_555 B A 22 1_555 C A 10 1_555 -0.267 -2.408 3.442 -10.298 5.407 44.849 -3.536 -0.556 3.132 6.950 13.236 46.258 18 BB_A22A23:A40U41_CC B 22 ? C 41 ? B 23 ? C 40 ? 1 B A 22 1_555 C A 10 1_555 B C 24 1_555 A G 6 1_555 -0.817 -2.105 6.496 -6.992 1.359 43.522 -3.061 -0.224 6.480 1.819 9.355 44.073 19 BB_A23C25:G6A40_AC B 23 ? C 40 ? B 25 ? A 6 ? 1 B C 24 1_555 A G 6 1_555 B A 25 1_555 C G 6 1_555 0.481 -2.176 3.761 6.038 3.279 48.212 -2.927 -0.057 3.646 3.991 -7.349 48.670 20 BB_C25A26:G36G6_CA B 25 ? A 6 ? B 26 ? C 36 ? 1 B A 25 1_555 C G 6 1_555 B C 26 1_555 C G 5 1_555 1.142 -0.615 2.844 -4.400 3.702 29.632 -1.810 -2.940 2.558 7.153 8.501 30.173 21 BB_A26C27:G35G36_CC B 26 ? C 36 ? B 27 ? C 35 ? 1 B C 26 1_555 C G 5 1_555 B A 27 1_555 C U 4 1_555 0.216 -1.096 3.133 -0.294 8.437 34.420 -2.943 -0.396 2.793 13.998 0.488 35.410 22 BB_C27A28:U34G35_CC B 27 ? C 35 ? B 28 ? C 34 ? 1 B A 27 1_555 C U 4 1_555 B C 28 1_555 C G 3 1_555 0.346 -1.128 3.269 3.648 1.325 33.444 -2.163 -0.003 3.242 2.292 -6.313 33.662 23 BB_A28C29:G33U34_CC B 28 ? C 34 ? B 29 ? C 33 ? 1 B C 28 1_555 C G 3 1_555 B G 29 1_555 C C 2 1_555 0.175 -1.692 3.341 1.133 10.401 32.984 -4.370 -0.129 2.704 17.770 -1.936 34.560 24 BB_C29G30:C32G33_CC B 29 ? C 33 ? B 30 ? C 32 ? 1 B G 29 1_555 C C 2 1_555 B A 30 1_555 C U 1 1_555 0.955 -1.721 3.065 3.367 4.165 33.819 -3.528 -1.135 2.917 7.103 -5.743 34.228 25 BB_G30A31:U31C32_CC B 30 ? C 32 ? B 31 ? C 31 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 4 'COBALT HEXAMMINE(III)' NCO 5 water HOH # _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 2P7F _pdbx_initial_refinement_model.details ? #