data_165D # _entry.id 165D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 165D pdb_0000165d 10.2210/pdb165d/pdb RCSB AHIB53 ? ? WWPDB D_1000170146 ? ? # 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 1994-08-31 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 2024-02-07 # _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' 6 5 'Structure model' 'Derived calculations' # 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 5 5 'Structure model' pdbx_struct_special_symmetry 6 5 'Structure model' struct_conn 7 5 'Structure model' struct_site # 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' 4 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 165D _pdbx_database_status.recvd_initial_deposition_date 1994-03-21 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _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 'Cruse, W.' 1 'Saludjian, P.' 2 'Biala, E.' 3 'Strazewski, P.' 4 'Prange, T.' 5 'Kennard, O.' 6 # _citation.id primary _citation.title 'Structure of a mispaired RNA double helix at 1.6-A resolution and implications for the prediction of RNA secondary structure.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 91 _citation.page_first 4160 _citation.page_last 4164 _citation.year 1994 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 7514296 _citation.pdbx_database_id_DOI 10.1073/pnas.91.10.4160 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Cruse, W.B.' 1 ? primary 'Saludjian, P.' 2 ? primary 'Biala, E.' 3 ? primary 'Strazewski, P.' 4 ? primary 'Prange, T.' 5 ? primary 'Kennard, O.' 6 ? # 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 ;DNA/RNA (5'-R(*GP*CP*UP*UP*CP*GP*GP*CP*)-D(*(BRU))-3') ; 2887.600 2 ? ? ? ? 2 non-polymer syn 'RHODIUM HEXAMINE ION' 205.089 4 ? ? ? ? 3 water nat water 18.015 54 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'GCUUCGGC(BRU)' _entity_poly.pdbx_seq_one_letter_code_can GCUUCGGCU _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'RHODIUM HEXAMINE ION' RHD 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 C n 1 3 U n 1 4 U n 1 5 C n 1 6 G n 1 7 G n 1 8 C n 1 9 BRU 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 BRU 'DNA linking' n "5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE" ? 'C9 H12 Br N2 O8 P' 387.078 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 RHD non-polymer . 'RHODIUM HEXAMINE ION' ? 'H18 N6 Rh 3' 205.089 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 G 1 1 1 G G A . n A 1 2 C 2 2 2 C C A . n A 1 3 U 3 3 3 U U A . n A 1 4 U 4 4 4 U U A . n A 1 5 C 5 5 5 C C A . n A 1 6 G 6 6 6 G G A . n A 1 7 G 7 7 7 G G A . n A 1 8 C 8 8 8 C C A . n A 1 9 BRU 9 9 9 BRU +U A . n B 1 1 G 1 10 10 G G B . n B 1 2 C 2 11 11 C C B . n B 1 3 U 3 12 12 U U B . n B 1 4 U 4 13 13 U U B . n B 1 5 C 5 14 14 C C B . n B 1 6 G 6 15 15 G G B . n B 1 7 G 7 16 16 G G B . n B 1 8 C 8 17 17 C C B . n B 1 9 BRU 9 18 18 BRU +U 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 RHD 1 19 19 RHD RHD A . D 2 RHD 1 20 20 RHD RHD A . E 2 RHD 1 22 22 RHD RHD A . F 2 RHD 1 21 21 RHD RHD B . G 3 HOH 1 23 23 HOH HOH A . G 3 HOH 2 25 25 HOH HOH A . G 3 HOH 3 26 26 HOH HOH A . G 3 HOH 4 27 27 HOH HOH A . G 3 HOH 5 28 28 HOH HOH A . G 3 HOH 6 29 29 HOH HOH A . G 3 HOH 7 30 30 HOH HOH A . G 3 HOH 8 31 31 HOH HOH A . G 3 HOH 9 33 33 HOH HOH A . G 3 HOH 10 35 35 HOH HOH A . G 3 HOH 11 36 36 HOH HOH A . G 3 HOH 12 37 37 HOH HOH A . G 3 HOH 13 38 38 HOH HOH A . G 3 HOH 14 41 41 HOH HOH A . G 3 HOH 15 43 43 HOH HOH A . G 3 HOH 16 47 47 HOH HOH A . G 3 HOH 17 48 48 HOH HOH A . G 3 HOH 18 51 51 HOH HOH A . G 3 HOH 19 53 53 HOH HOH A . G 3 HOH 20 54 54 HOH HOH A . G 3 HOH 21 56 56 HOH HOH A . G 3 HOH 22 57 57 HOH HOH A . G 3 HOH 23 59 59 HOH HOH A . G 3 HOH 24 60 60 HOH HOH A . G 3 HOH 25 61 61 HOH HOH A . G 3 HOH 26 63 63 HOH HOH A . G 3 HOH 27 64 64 HOH HOH A . G 3 HOH 28 65 65 HOH HOH A . G 3 HOH 29 66 66 HOH HOH A . G 3 HOH 30 73 73 HOH HOH A . G 3 HOH 31 74 74 HOH HOH A . H 3 HOH 1 24 24 HOH HOH B . H 3 HOH 2 32 32 HOH HOH B . H 3 HOH 3 34 34 HOH HOH B . H 3 HOH 4 39 39 HOH HOH B . H 3 HOH 5 40 40 HOH HOH B . H 3 HOH 6 42 42 HOH HOH B . H 3 HOH 7 44 44 HOH HOH B . H 3 HOH 8 45 45 HOH HOH B . H 3 HOH 9 46 46 HOH HOH B . H 3 HOH 10 49 49 HOH HOH B . H 3 HOH 11 50 50 HOH HOH B . H 3 HOH 12 52 52 HOH HOH B . H 3 HOH 13 55 55 HOH HOH B . H 3 HOH 14 58 58 HOH HOH B . H 3 HOH 15 62 62 HOH HOH B . H 3 HOH 16 67 67 HOH HOH B . H 3 HOH 17 68 68 HOH HOH B . H 3 HOH 18 69 69 HOH HOH B . H 3 HOH 19 70 70 HOH HOH B . H 3 HOH 20 71 71 HOH HOH B . H 3 HOH 21 72 72 HOH HOH B . H 3 HOH 22 75 75 HOH HOH B . H 3 HOH 23 76 76 HOH HOH B . # _software.name X-PLOR _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 165D _cell.length_a 53.800 _cell.length_b 19.400 _cell.length_c 50.140 _cell.angle_alpha 90.00 _cell.angle_beta 109.90 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 165D _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 # _exptl.entry_id 165D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.13 _exptl_crystal.density_percent_sol 42.26 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 277.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.30 _exptl_crystal_grow.pdbx_details 'pH 6.30, VAPOR DIFFUSION, SITTING DROP, temperature 277.00K' _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 'LI CACODYLATE' ? ? ? 1 3 1 '[RH(NH3)6]CL3' ? ? ? # loop_ _diffrn.id _diffrn.crystal_id _diffrn.ambient_temp _diffrn.ambient_temp_details 1 1 ? ? 2 1 ? ? # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 'IMAGE PLATE' MARRESEARCH ? ? 2 DIFFRACTOMETER 'ENRAF-NONIUS FAST' ? ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M ? ? x-ray 2 2 M ? ? x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 . 1.0 2 . 1.0 # loop_ _diffrn_source.diffrn_id _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 1 SYNCHROTRON LURE LURE ? ? ? 2 ? ? ? ? ? ? # _reflns.entry_id 165D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 1.600 _reflns.number_obs 6093 _reflns.number_all ? _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 1,2 _reflns.pdbx_ordinal 1 # _refine.entry_id 165D _refine.ls_number_reflns_obs 6098 _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 1.550 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.18 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.18 _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 ? _refine.occupancy_max ? _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 389 _refine_hist.pdbx_number_atoms_ligand 31 _refine_hist.number_atoms_solvent 54 _refine_hist.number_atoms_total 474 _refine_hist.d_res_high 1.550 _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 x_bond_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d 0.030 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 2.10 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 165D _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 165D _struct.title ;THE STRUCTURE OF A MISPAIRED RNA DOUBLE HELIX AT 1.6 ANGSTROMS RESOLUTION AND IMPLICATIONS FOR THE PREDICTION OF RNA SECONDARY STRUCTURE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 165D _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' _struct_keywords.text 'A-DNA/RNA, DOUBLE HELIX, OVERHANGING BASES, MODIFIED, MISMATCHED, DNA-RNA HYBRID' # 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 ? E N N 2 ? F N N 2 ? G N N 3 ? H N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 165D _struct_ref.pdbx_db_accession 165D _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 165D A 1 ? 9 ? 165D 1 ? 9 ? 1 9 2 1 165D B 1 ? 9 ? 165D 10 ? 18 ? 10 18 # _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,E,F,G,H # _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 covale1 covale both ? A C 8 "O3'" ? ? ? 1_555 A BRU 9 P ? ? A C 8 A BRU 9 1_555 ? ? ? ? ? ? ? 1.584 ? ? covale2 covale both ? B C 8 "O3'" ? ? ? 1_555 B BRU 9 P A ? B C 17 B BRU 18 1_555 ? ? ? ? ? ? ? 1.617 ? ? covale3 covale both ? B C 8 "O3'" ? ? ? 1_555 B BRU 9 P B ? B C 17 B BRU 18 1_555 ? ? ? ? ? ? ? 1.632 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 1 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 1 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 1 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 2 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 2 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 2 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 3 N3 ? ? ? 1_555 B G 6 O6 ? ? A U 3 B G 15 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog8 hydrog ? ? A U 3 O2 ? ? ? 1_555 B G 6 N1 ? ? A U 3 B G 15 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog9 hydrog ? ? A U 4 O4 ? ? ? 1_555 B C 5 N4 ? ? A U 4 B C 14 1_555 ? ? ? ? ? ? 'U-C MISPAIR' ? ? ? hydrog10 hydrog ? ? A C 5 N4 ? ? ? 1_555 B U 4 O4 ? ? A C 5 B U 13 1_555 ? ? ? ? ? ? 'C-U MISPAIR' ? ? ? hydrog11 hydrog ? ? A G 6 N1 ? ? ? 1_555 B U 3 O2 ? ? A G 6 B U 12 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog12 hydrog ? ? A G 6 O6 ? ? ? 1_555 B U 3 N3 ? ? A G 6 B U 12 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog13 hydrog ? ? A G 7 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 7 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 7 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 7 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 7 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 7 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 8 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 8 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 8 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A RHD 19 ? 5 'BINDING SITE FOR RESIDUE RHD A 19' AC2 Software A RHD 20 ? 5 'BINDING SITE FOR RESIDUE RHD A 20' AC3 Software B RHD 21 ? 5 'BINDING SITE FOR RESIDUE RHD B 21' AC4 Software A RHD 22 ? 6 'BINDING SITE FOR RESIDUE RHD A 22' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 5 C A 5 ? C A 5 . ? 1_555 ? 2 AC1 5 G A 6 ? G A 6 . ? 1_555 ? 3 AC1 5 G A 7 ? G A 7 . ? 1_555 ? 4 AC1 5 HOH G . ? HOH A 26 . ? 1_555 ? 5 AC1 5 HOH H . ? HOH B 72 . ? 1_555 ? 6 AC2 5 C A 5 ? C A 5 . ? 4_546 ? 7 AC2 5 G A 7 ? G A 7 . ? 1_545 ? 8 AC2 5 C A 8 ? C A 8 . ? 1_545 ? 9 AC2 5 C B 5 ? C B 14 . ? 4_546 ? 10 AC2 5 HOH H . ? HOH B 45 . ? 4_546 ? 11 AC3 5 U A 3 ? U A 3 . ? 1_555 ? 12 AC3 5 G B 6 ? G B 15 . ? 1_555 ? 13 AC3 5 G B 7 ? G B 16 . ? 1_555 ? 14 AC3 5 HOH H . ? HOH B 34 . ? 1_555 ? 15 AC3 5 HOH H . ? HOH B 46 . ? 1_555 ? 16 AC4 6 C A 2 ? C A 2 . ? 2_566 ? 17 AC4 6 U A 3 ? U A 3 . ? 2_566 ? 18 AC4 6 BRU A 9 ? BRU A 9 . ? 1_555 ? 19 AC4 6 C B 2 ? C B 11 . ? 2_556 ? 20 AC4 6 U B 3 ? U B 12 . ? 2_556 ? 21 AC4 6 HOH H . ? HOH B 32 . ? 2_556 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 51 ? ? O A HOH 61 ? ? 1.43 2 1 O B HOH 50 ? ? O B HOH 71 ? ? 2.05 # 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 N3 A U 3 ? ? C2 A U 3 ? ? O2 A U 3 ? ? 117.83 122.20 -4.37 0.70 N 2 1 "O3'" A U 3 ? ? P A U 4 ? ? OP2 A U 4 ? ? 117.53 110.50 7.03 1.10 Y 3 1 "O4'" B U 13 ? ? "C1'" B U 13 ? ? N1 B U 13 ? ? 113.52 108.50 5.02 0.70 N 4 1 "O3'" B C 14 ? ? P B G 15 ? ? "O5'" B G 15 ? ? 92.37 104.00 -11.63 1.90 Y 5 1 "O3'" B C 14 ? ? P B G 15 ? ? OP2 B G 15 ? ? 128.59 110.50 18.09 1.10 Y 6 1 "O3'" B G 15 ? ? P B G 16 ? ? OP2 B G 16 ? ? 117.24 110.50 6.74 1.10 Y 7 1 "O3'" B C 17 ? ? P B BRU 18 ? A OP2 B BRU 18 ? A 123.90 110.50 13.40 1.10 Y 8 1 "O3'" B C 17 ? ? P B BRU 18 ? B OP2 B BRU 18 ? B 76.48 105.20 -28.72 2.20 Y 9 1 "O3'" B C 17 ? ? P B BRU 18 ? B OP1 B BRU 18 ? B 127.17 110.50 16.67 1.10 Y # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 G A 1 ? ? 0.075 'SIDE CHAIN' 2 1 G A 7 ? ? 0.073 'SIDE CHAIN' 3 1 C B 11 ? ? 0.072 'SIDE CHAIN' # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A BRU 9 A BRU 9 ? DU ? 2 B BRU 9 B BRU 18 ? DU ? # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id BRU _pdbx_struct_special_symmetry.auth_seq_id 18 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id B _pdbx_struct_special_symmetry.label_comp_id BRU _pdbx_struct_special_symmetry.label_seq_id 9 # 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 BRU N1 N N N 1 BRU C2 C N N 2 BRU N3 N N N 3 BRU C4 C N N 4 BRU C5 C N N 5 BRU C6 C N N 6 BRU O2 O N N 7 BRU O4 O N N 8 BRU BR BR N N 9 BRU "C1'" C N R 10 BRU "C2'" C N N 11 BRU "C3'" C N S 12 BRU "C4'" C N R 13 BRU "O3'" O N N 14 BRU "O4'" O N N 15 BRU "C5'" C N N 16 BRU "O5'" O N N 17 BRU P P N N 18 BRU OP1 O N N 19 BRU OP2 O N N 20 BRU OP3 O N N 21 BRU HN3 H N N 22 BRU H6 H N N 23 BRU "H1'" H N N 24 BRU "H2'" H N N 25 BRU "H2''" H N N 26 BRU "H3'" H N N 27 BRU "H4'" H N N 28 BRU "HO3'" H N N 29 BRU "H5'" H N N 30 BRU "H5''" H N N 31 BRU HOP2 H N N 32 BRU HOP3 H N N 33 C OP3 O N N 34 C P P N N 35 C OP1 O N N 36 C OP2 O N N 37 C "O5'" O N N 38 C "C5'" C N N 39 C "C4'" C N R 40 C "O4'" O N N 41 C "C3'" C N S 42 C "O3'" O N N 43 C "C2'" C N R 44 C "O2'" O N N 45 C "C1'" C N R 46 C N1 N N N 47 C C2 C N N 48 C O2 O N N 49 C N3 N N N 50 C C4 C N N 51 C N4 N N N 52 C C5 C N N 53 C C6 C N N 54 C HOP3 H N N 55 C HOP2 H N N 56 C "H5'" H N N 57 C "H5''" H N N 58 C "H4'" H N N 59 C "H3'" H N N 60 C "HO3'" H N N 61 C "H2'" H N N 62 C "HO2'" H N N 63 C "H1'" H N N 64 C H41 H N N 65 C H42 H N N 66 C H5 H N N 67 C H6 H N N 68 G OP3 O N N 69 G P P N N 70 G OP1 O N N 71 G OP2 O N N 72 G "O5'" O N N 73 G "C5'" C N N 74 G "C4'" C N R 75 G "O4'" O N N 76 G "C3'" C N S 77 G "O3'" O N N 78 G "C2'" C N R 79 G "O2'" O N N 80 G "C1'" C N R 81 G N9 N Y N 82 G C8 C Y N 83 G N7 N Y N 84 G C5 C Y N 85 G C6 C N N 86 G O6 O N N 87 G N1 N N N 88 G C2 C N N 89 G N2 N N N 90 G N3 N N N 91 G C4 C Y N 92 G HOP3 H N N 93 G HOP2 H N N 94 G "H5'" H N N 95 G "H5''" H N N 96 G "H4'" H N N 97 G "H3'" H N N 98 G "HO3'" H N N 99 G "H2'" H N N 100 G "HO2'" H N N 101 G "H1'" H N N 102 G H8 H N N 103 G H1 H N N 104 G H21 H N N 105 G H22 H N N 106 HOH O O N N 107 HOH H1 H N N 108 HOH H2 H N N 109 RHD RH RH N N 110 RHD N1 N N N 111 RHD N2 N N N 112 RHD N3 N N N 113 RHD N4 N N N 114 RHD N5 N N N 115 RHD N6 N N N 116 RHD HN11 H N N 117 RHD HN12 H N N 118 RHD HN13 H N N 119 RHD HN21 H N N 120 RHD HN22 H N N 121 RHD HN23 H N N 122 RHD HN31 H N N 123 RHD HN32 H N N 124 RHD HN33 H N N 125 RHD HN41 H N N 126 RHD HN42 H N N 127 RHD HN43 H N N 128 RHD HN51 H N N 129 RHD HN52 H N N 130 RHD HN53 H N N 131 RHD HN61 H N N 132 RHD HN62 H N N 133 RHD HN63 H N N 134 U OP3 O N N 135 U P P N N 136 U OP1 O N N 137 U OP2 O N N 138 U "O5'" O N N 139 U "C5'" C N N 140 U "C4'" C N R 141 U "O4'" O N N 142 U "C3'" C N S 143 U "O3'" O N N 144 U "C2'" C N R 145 U "O2'" O N N 146 U "C1'" C N R 147 U N1 N N N 148 U C2 C N N 149 U O2 O N N 150 U N3 N N N 151 U C4 C N N 152 U O4 O N N 153 U C5 C N N 154 U C6 C N N 155 U HOP3 H N N 156 U HOP2 H N N 157 U "H5'" H N N 158 U "H5''" H N N 159 U "H4'" H N N 160 U "H3'" H N N 161 U "HO3'" H N N 162 U "H2'" H N N 163 U "HO2'" H N N 164 U "H1'" H N N 165 U H3 H N N 166 U H5 H N N 167 U H6 H N N 168 # 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 BRU N1 C2 sing N N 1 BRU N1 C6 sing N N 2 BRU N1 "C1'" sing N N 3 BRU C2 N3 sing N N 4 BRU C2 O2 doub N N 5 BRU N3 C4 sing N N 6 BRU N3 HN3 sing N N 7 BRU C4 C5 sing N N 8 BRU C4 O4 doub N N 9 BRU C5 C6 doub N N 10 BRU C5 BR sing N N 11 BRU C6 H6 sing N N 12 BRU "C1'" "C2'" sing N N 13 BRU "C1'" "O4'" sing N N 14 BRU "C1'" "H1'" sing N N 15 BRU "C2'" "C3'" sing N N 16 BRU "C2'" "H2'" sing N N 17 BRU "C2'" "H2''" sing N N 18 BRU "C3'" "C4'" sing N N 19 BRU "C3'" "O3'" sing N N 20 BRU "C3'" "H3'" sing N N 21 BRU "C4'" "O4'" sing N N 22 BRU "C4'" "C5'" sing N N 23 BRU "C4'" "H4'" sing N N 24 BRU "O3'" "HO3'" sing N N 25 BRU "C5'" "O5'" sing N N 26 BRU "C5'" "H5'" sing N N 27 BRU "C5'" "H5''" sing N N 28 BRU "O5'" P sing N N 29 BRU P OP1 doub N N 30 BRU P OP2 sing N N 31 BRU P OP3 sing N N 32 BRU OP2 HOP2 sing N N 33 BRU OP3 HOP3 sing N N 34 C OP3 P sing N N 35 C OP3 HOP3 sing N N 36 C P OP1 doub N N 37 C P OP2 sing N N 38 C P "O5'" sing N N 39 C OP2 HOP2 sing N N 40 C "O5'" "C5'" sing N N 41 C "C5'" "C4'" sing N N 42 C "C5'" "H5'" sing N N 43 C "C5'" "H5''" sing N N 44 C "C4'" "O4'" sing N N 45 C "C4'" "C3'" sing N N 46 C "C4'" "H4'" sing N N 47 C "O4'" "C1'" sing N N 48 C "C3'" "O3'" sing N N 49 C "C3'" "C2'" sing N N 50 C "C3'" "H3'" sing N N 51 C "O3'" "HO3'" sing N N 52 C "C2'" "O2'" sing N N 53 C "C2'" "C1'" sing N N 54 C "C2'" "H2'" sing N N 55 C "O2'" "HO2'" sing N N 56 C "C1'" N1 sing N N 57 C "C1'" "H1'" sing N N 58 C N1 C2 sing N N 59 C N1 C6 sing N N 60 C C2 O2 doub N N 61 C C2 N3 sing N N 62 C N3 C4 doub N N 63 C C4 N4 sing N N 64 C C4 C5 sing N N 65 C N4 H41 sing N N 66 C N4 H42 sing N N 67 C C5 C6 doub N N 68 C C5 H5 sing N N 69 C C6 H6 sing N N 70 G OP3 P sing N N 71 G OP3 HOP3 sing N N 72 G P OP1 doub N N 73 G P OP2 sing N N 74 G P "O5'" sing N N 75 G OP2 HOP2 sing N N 76 G "O5'" "C5'" sing N N 77 G "C5'" "C4'" sing N N 78 G "C5'" "H5'" sing N N 79 G "C5'" "H5''" sing N N 80 G "C4'" "O4'" sing N N 81 G "C4'" "C3'" sing N N 82 G "C4'" "H4'" sing N N 83 G "O4'" "C1'" sing N N 84 G "C3'" "O3'" sing N N 85 G "C3'" "C2'" sing N N 86 G "C3'" "H3'" sing N N 87 G "O3'" "HO3'" sing N N 88 G "C2'" "O2'" sing N N 89 G "C2'" "C1'" sing N N 90 G "C2'" "H2'" sing N N 91 G "O2'" "HO2'" sing N N 92 G "C1'" N9 sing N N 93 G "C1'" "H1'" sing N N 94 G N9 C8 sing Y N 95 G N9 C4 sing Y N 96 G C8 N7 doub Y N 97 G C8 H8 sing N N 98 G N7 C5 sing Y N 99 G C5 C6 sing N N 100 G C5 C4 doub Y N 101 G C6 O6 doub N N 102 G C6 N1 sing N N 103 G N1 C2 sing N N 104 G N1 H1 sing N N 105 G C2 N2 sing N N 106 G C2 N3 doub N N 107 G N2 H21 sing N N 108 G N2 H22 sing N N 109 G N3 C4 sing N N 110 HOH O H1 sing N N 111 HOH O H2 sing N N 112 RHD RH N1 sing N N 113 RHD RH N2 sing N N 114 RHD RH N3 sing N N 115 RHD RH N4 sing N N 116 RHD RH N5 sing N N 117 RHD RH N6 sing N N 118 RHD N1 HN11 sing N N 119 RHD N1 HN12 sing N N 120 RHD N1 HN13 sing N N 121 RHD N2 HN21 sing N N 122 RHD N2 HN22 sing N N 123 RHD N2 HN23 sing N N 124 RHD N3 HN31 sing N N 125 RHD N3 HN32 sing N N 126 RHD N3 HN33 sing N N 127 RHD N4 HN41 sing N N 128 RHD N4 HN42 sing N N 129 RHD N4 HN43 sing N N 130 RHD N5 HN51 sing N N 131 RHD N5 HN52 sing N N 132 RHD N5 HN53 sing N N 133 RHD N6 HN61 sing N N 134 RHD N6 HN62 sing N N 135 RHD N6 HN63 sing N N 136 U OP3 P sing N N 137 U OP3 HOP3 sing N N 138 U P OP1 doub N N 139 U P OP2 sing N N 140 U P "O5'" sing N N 141 U OP2 HOP2 sing N N 142 U "O5'" "C5'" sing N N 143 U "C5'" "C4'" sing N N 144 U "C5'" "H5'" sing N N 145 U "C5'" "H5''" sing N N 146 U "C4'" "O4'" sing N N 147 U "C4'" "C3'" sing N N 148 U "C4'" "H4'" sing N N 149 U "O4'" "C1'" sing N N 150 U "C3'" "O3'" sing N N 151 U "C3'" "C2'" sing N N 152 U "C3'" "H3'" sing N N 153 U "O3'" "HO3'" sing N N 154 U "C2'" "O2'" sing N N 155 U "C2'" "C1'" sing N N 156 U "C2'" "H2'" sing N N 157 U "O2'" "HO2'" sing N N 158 U "C1'" N1 sing N N 159 U "C1'" "H1'" sing N N 160 U N1 C2 sing N N 161 U N1 C6 sing N N 162 U C2 O2 doub N N 163 U C2 N3 sing N N 164 U N3 C4 sing N N 165 U N3 H3 sing N N 166 U C4 O4 doub N N 167 U C4 C5 sing N N 168 U C5 C6 doub N N 169 U C5 H5 sing N N 170 U C6 H6 sing N N 171 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 165D 'double helix' 165D 'a-form double helix' 165D '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 G 1 1_555 B C 8 1_555 -0.507 -0.379 -0.271 0.915 -13.439 1.089 1 A_G1:C17_B A 1 ? B 17 ? 19 1 1 A C 2 1_555 B G 7 1_555 0.162 -0.263 -0.027 5.509 -11.964 1.106 2 A_C2:G16_B A 2 ? B 16 ? 19 1 1 A U 3 1_555 B G 6 1_555 2.233 -0.490 -0.124 4.776 -10.255 -1.858 3 A_U3:G15_B A 3 ? B 15 ? 28 ? 1 A U 4 1_555 B C 5 1_555 -0.638 0.206 0.220 2.026 2.784 -40.981 4 A_U4:C14_B A 4 ? B 14 ? ? ? 1 A C 5 1_555 B U 4 1_555 0.733 0.119 -0.397 7.013 -3.734 -39.828 5 A_C5:U13_B A 5 ? B 13 ? ? ? 1 A G 6 1_555 B U 3 1_555 -2.244 -0.601 -0.180 -0.232 -12.882 -1.239 6 A_G6:U12_B A 6 ? B 12 ? 28 1 1 A G 7 1_555 B C 2 1_555 -0.178 -0.118 -0.160 -4.817 -12.774 1.012 7 A_G7:C11_B A 7 ? B 11 ? 19 1 1 A C 8 1_555 B G 1 1_555 0.445 -0.195 0.090 -3.779 -6.718 -0.871 8 A_C8:G10_B A 8 ? B 10 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A G 1 1_555 B C 8 1_555 A C 2 1_555 B G 7 1_555 -0.228 -1.669 3.238 -2.718 4.640 35.602 -3.335 -0.002 3.012 7.535 4.415 35.993 1 AA_G1C2:G16C17_BB A 1 ? B 17 ? A 2 ? B 16 ? 1 A C 2 1_555 B G 7 1_555 A U 3 1_555 B G 6 1_555 -0.023 -1.320 3.377 2.142 5.349 37.904 -2.684 0.305 3.163 8.177 -3.275 38.323 2 AA_C2U3:G15G16_BB A 2 ? B 16 ? A 3 ? B 15 ? 1 A U 3 1_555 B G 6 1_555 A U 4 1_555 B C 5 1_555 -3.926 -1.958 3.406 -5.163 6.663 20.686 -7.783 8.032 3.479 17.641 13.668 22.320 3 AA_U3U4:C14G15_BB A 3 ? B 15 ? A 4 ? B 14 ? 1 A U 4 1_555 B C 5 1_555 A C 5 1_555 B U 4 1_555 0.004 -1.867 3.489 2.016 6.124 38.655 -3.536 0.241 3.164 9.174 -3.019 39.169 4 AA_U4C5:U13C14_BB A 4 ? B 14 ? A 5 ? B 13 ? 1 A C 5 1_555 B U 4 1_555 A G 6 1_555 B U 3 1_555 3.202 -1.635 3.434 -0.651 12.018 25.252 -6.047 -6.779 2.344 25.709 1.393 27.932 5 AA_C5G6:U12U13_BB A 5 ? B 13 ? A 6 ? B 12 ? 1 A G 6 1_555 B U 3 1_555 A G 7 1_555 B C 2 1_555 0.186 -1.616 3.456 -0.690 7.573 39.522 -3.219 -0.350 3.103 11.075 1.009 40.218 6 AA_G6G7:C11U12_BB A 6 ? B 12 ? A 7 ? B 11 ? 1 A G 7 1_555 B C 2 1_555 A C 8 1_555 B G 1 1_555 0.107 -1.732 3.462 -0.073 -0.759 35.338 -2.734 -0.187 3.497 -1.251 0.121 35.346 7 AA_G7C8:G10C11_BB A 7 ? B 11 ? A 8 ? B 10 ? # _atom_sites.entry_id 165D _atom_sites.fract_transf_matrix[1][1] 0.018587 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.006729 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.051546 _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] 0.021211 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # _atom_sites_footnote.id 1 _atom_sites_footnote.text ;THE DEOXY-BROMO-URACIL +U IS WELL ORDERED ON STRAND A BUT NOT ON STRAND B (RESIDUE +U 18) WHERE TWO (50:50) DISORDERED POSITIONS WERE GIVEN. FOUR RHODIUM HEXAMINE IONS RH(NH3)6 ++ WERE LOCATED (NAMED RHD), TWO WITH FULL OCCUPANCY FACTORS (RESIDUES 19 AND 20) AND TWO WITH PARTIAL OCCUPANCIES (RESIDUES 21 AND 22). ; # loop_ _atom_type.symbol BR C N O P RH # loop_