data_3BNO # _entry.id 3BNO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 3BNO pdb_00003bno 10.2210/pdb3bno/pdb NDB AR0087 ? ? RCSB RCSB045740 ? ? WWPDB D_1000045740 ? ? # 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 2008-06-24 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2024-02-21 # _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' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 '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 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 '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' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.entry_id 3BNO _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 2007-12-14 _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.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3BNL . unspecified PDB 3BNN . unspecified PDB 3BNP . unspecified PDB 3BNQ . unspecified PDB 3BNR . unspecified PDB 3BNS . unspecified PDB 3BNT . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kondo, J.' 1 'Westhof, E.' 2 # _citation.id primary _citation.title 'The bacterial and mitochondrial ribosomal A-site molecular switches possess different conformational substates' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 36 _citation.page_first 2654 _citation.page_last 2666 _citation.year 2008 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18346970 _citation.pdbx_database_id_DOI 10.1093/nar/gkn112 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kondo, J.' 1 ? primary 'Westhof, E.' 2 ? # 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 'A site of human mitochondrial ribosome' 6765.949 4 ? ? ? ? 2 water nat water 18.015 31 ? ? ? ? # _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 'GCGUCACC(5BU)CGAACAAGUCGC' _entity_poly.pdbx_seq_one_letter_code_can GCGUCACCUCGAACAAGUCGC _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 C n 1 3 G n 1 4 U n 1 5 C n 1 6 A n 1 7 C n 1 8 C n 1 9 5BU n 1 10 C n 1 11 G n 1 12 A n 1 13 A n 1 14 C n 1 15 A n 1 16 A n 1 17 G n 1 18 U n 1 19 C n 1 20 G n 1 21 C 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 5BU 'RNA linking' n "5-BROMO-URIDINE-5'-MONOPHOSPHATE" ? 'C9 H12 Br N2 O9 P' 403.077 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 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 G 3 3 3 G G 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 A 6 6 6 A A A . n A 1 7 C 7 7 7 C C A . n A 1 8 C 8 8 8 C C A . n A 1 9 5BU 9 9 9 5BU 5BU A . n A 1 10 C 10 10 10 C C A . n A 1 11 G 11 11 11 G G A . n A 1 12 A 12 12 12 A A A . n A 1 13 A 13 13 13 A A A . n A 1 14 C 14 14 14 C C A . n A 1 15 A 15 15 15 A A A . n A 1 16 A 16 16 16 A A A . n A 1 17 G 17 17 17 G G A . n A 1 18 U 18 18 18 U U A . n A 1 19 C 19 19 19 C C A . n A 1 20 G 20 20 20 G G A . n A 1 21 C 21 21 21 C C A . n B 1 1 G 1 1 1 G G B . n B 1 2 C 2 2 2 C C B . n B 1 3 G 3 3 3 G G B . n B 1 4 U 4 4 4 U U B . n B 1 5 C 5 5 5 C C B . n B 1 6 A 6 6 6 A A B . n B 1 7 C 7 7 7 C C B . n B 1 8 C 8 8 8 C C B . n B 1 9 5BU 9 9 9 5BU 5BU B . n B 1 10 C 10 10 10 C C B . n B 1 11 G 11 11 11 G G B . n B 1 12 A 12 12 12 A A B . n B 1 13 A 13 13 13 A A B . n B 1 14 C 14 14 14 C C B . n B 1 15 A 15 15 15 A A B . n B 1 16 A 16 16 16 A A B . n B 1 17 G 17 17 17 G G B . n B 1 18 U 18 18 18 U U B . n B 1 19 C 19 19 19 C C B . n B 1 20 G 20 20 20 G G B . n B 1 21 C 21 21 21 C C B . n C 1 1 G 1 1 1 G G C . n C 1 2 C 2 2 2 C C C . n C 1 3 G 3 3 3 G G C . n C 1 4 U 4 4 4 U U C . n C 1 5 C 5 5 5 C C C . n C 1 6 A 6 6 6 A A C . n C 1 7 C 7 7 7 C C C . n C 1 8 C 8 8 8 C C C . n C 1 9 5BU 9 9 9 5BU 5BU C . n C 1 10 C 10 10 10 C C C . n C 1 11 G 11 11 11 G G C . n C 1 12 A 12 12 12 A A C . n C 1 13 A 13 13 13 A A C . n C 1 14 C 14 14 14 C C C . n C 1 15 A 15 15 15 A A C . n C 1 16 A 16 16 16 A A C . n C 1 17 G 17 17 17 G G C . n C 1 18 U 18 18 18 U U C . n C 1 19 C 19 19 19 C C C . n C 1 20 G 20 20 20 G G C . n C 1 21 C 21 21 21 C C C . n D 1 1 G 1 1 1 G G D . n D 1 2 C 2 2 2 C C D . n D 1 3 G 3 3 3 G G D . n D 1 4 U 4 4 4 U U D . n D 1 5 C 5 5 5 C C D . n D 1 6 A 6 6 6 A A D . n D 1 7 C 7 7 7 C C D . n D 1 8 C 8 8 8 C C D . n D 1 9 5BU 9 9 9 5BU 5BU D . n D 1 10 C 10 10 10 C C D . n D 1 11 G 11 11 11 G G D . n D 1 12 A 12 12 12 A A D . n D 1 13 A 13 13 13 A A D . n D 1 14 C 14 14 14 C C D . n D 1 15 A 15 15 15 A A D . n D 1 16 A 16 16 16 A A D . n D 1 17 G 17 17 17 G G D . n D 1 18 U 18 18 18 U U D . n D 1 19 C 19 19 19 C C D . n D 1 20 G 20 20 20 G G D . n D 1 21 C 21 21 21 C C D . 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 E 2 HOH 1 22 3 HOH HOH A . E 2 HOH 2 23 4 HOH HOH A . E 2 HOH 3 24 5 HOH HOH A . E 2 HOH 4 25 6 HOH HOH A . E 2 HOH 5 26 7 HOH HOH A . E 2 HOH 6 27 8 HOH HOH A . F 2 HOH 1 22 1 HOH HOH B . F 2 HOH 2 23 2 HOH HOH B . F 2 HOH 3 24 3 HOH HOH B . F 2 HOH 4 25 4 HOH HOH B . F 2 HOH 5 26 5 HOH HOH B . F 2 HOH 6 27 6 HOH HOH B . F 2 HOH 7 28 7 HOH HOH B . F 2 HOH 8 29 9 HOH HOH B . F 2 HOH 9 30 10 HOH HOH B . F 2 HOH 10 31 11 HOH HOH B . F 2 HOH 11 32 12 HOH HOH B . F 2 HOH 12 33 13 HOH HOH B . G 2 HOH 1 22 1 HOH HOH C . G 2 HOH 2 23 8 HOH HOH C . G 2 HOH 3 24 1 HOH HOH C . G 2 HOH 4 25 2 HOH HOH C . G 2 HOH 5 26 3 HOH HOH C . G 2 HOH 6 27 4 HOH HOH C . G 2 HOH 7 28 5 HOH HOH C . G 2 HOH 8 29 6 HOH HOH C . G 2 HOH 9 30 7 HOH HOH C . G 2 HOH 10 31 8 HOH HOH C . H 2 HOH 1 22 2 HOH HOH D . H 2 HOH 2 23 1 HOH HOH D . H 2 HOH 3 24 2 HOH HOH D . # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal d*TREK 9.2SSI 'Nov 2 2004' package 'Pflugrath, J.W.' jwp@RigakuMSC.com 'data scaling' http://www.msc.com/protein/dtrek.html ? ? 1 AMoRE . ? program 'Jorge Navaza' ccp4@dl.ac.uk phasing http://www.ccp4.ac.uk/main.html Fortran_77 ? 2 CNS . ? package 'Axel T. Brunger' axel.brunger@yale.edu refinement http://cns.csb.yale.edu/v1.1/ Fortran_77 ? 3 PDB_EXTRACT 3.004 'September 10, 2007' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 4 # _cell.length_a 35.140 _cell.length_b 45.460 _cell.length_c 52.130 _cell.angle_alpha 71.430 _cell.angle_beta 73.420 _cell.angle_gamma 74.050 _cell.entry_id 3BNO _cell.Z_PDB 4 _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.space_group_name_H-M 'P 1' _symmetry.entry_id 3BNO _symmetry.Int_Tables_number 1 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.entry_id 3BNO _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.74 _exptl_crystal.density_percent_sol 55.07 _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.pH 7.0 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.pdbx_details ;Sodium cacodylate, spermine tetrachloride, paromomycin, KCl, 2-methyl-2,4-pentanediol, pH 7.0, 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 MPD ? ? ? 1 2 1 KCl ? ? ? 1 3 1 'Sodium cacodylate' ? ? ? 1 4 2 MPD ? ? ? 1 5 2 KCl ? ? ? # _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 'MAR CCD 165 mm' _diffrn_detector.pdbx_collection_date 2005-09-08 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.8856 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID23-1' _diffrn_source.pdbx_wavelength_list 0.8856 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID23-1 # _reflns.entry_id 3BNO _reflns.d_resolution_high 2.350 _reflns.d_resolution_low 36.880 _reflns.number_obs 11751 _reflns.pdbx_scaling_rejects 695 _reflns.pdbx_Rmerge_I_obs 0.038 _reflns.pdbx_netI_over_sigmaI 17.800 _reflns.pdbx_chi_squared 0.990 _reflns.pdbx_redundancy 3.930 _reflns.percent_possible_obs 97.800 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_ordinal 2.35 2.43 ? 9087 ? 0.366 3.2 ? 0.960 3.97 ? 2285 97.70 ? 1 2.43 2.53 ? 9367 ? 0.287 3.9 ? 0.940 3.95 ? 2368 98.30 ? 2 2.53 2.65 ? 9172 ? 0.225 4.6 ? 0.920 3.94 ? 2323 98.10 ? 3 2.65 2.79 ? 9341 ? 0.151 6.4 ? 0.910 3.95 ? 2361 98.30 ? 4 2.79 2.96 ? 9372 ? 0.094 9.1 ? 0.880 3.92 ? 2384 99.00 ? 5 2.96 3.19 ? 9365 ? 0.046 16.1 ? 0.890 3.92 ? 2373 98.40 ? 6 3.19 3.51 ? 9347 ? 0.039 22.2 ? 0.990 3.92 ? 2357 98.60 ? 7 3.51 4.02 ? 9319 ? 0.035 28.2 ? 1.010 3.94 ? 2340 98.50 ? 8 4.02 5.06 ? 9551 ? 0.031 40.8 ? 1.160 3.96 ? 2382 98.50 ? 9 5.06 36.88 ? 8691 ? 0.029 45.9 ? 1.290 3.82 ? 2210 92.90 ? 10 # _refine.entry_id 3BNO _refine.ls_d_res_high 2.350 _refine.ls_d_res_low 36.880 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 98.100 _refine.ls_number_reflns_obs 11718 _refine.ls_R_factor_R_work 0.226 _refine.ls_R_factor_R_free 0.255 _refine.ls_percent_reflns_R_free 10.100 _refine.ls_number_reflns_R_free 1204 _refine.B_iso_mean 67.940 _refine.solvent_model_param_bsol 74.988 _refine.aniso_B[1][1] -7.529 _refine.aniso_B[2][2] 4.792 _refine.aniso_B[3][3] 2.736 _refine.aniso_B[1][2] 21.764 _refine.aniso_B[1][3] -11.173 _refine.aniso_B[2][3] 0.604 _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.overall_FOM_work_R_set 0.688 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.details ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_overall_phase_error ? _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.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.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_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 1788 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 31 _refine_hist.number_atoms_total 1819 _refine_hist.d_res_high 2.350 _refine_hist.d_res_low 36.880 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d ? 0.005 ? ? 'X-RAY DIFFRACTION' ? c_angle_deg ? 0.901 ? ? '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 rna_free.param rna_free.top 'X-RAY DIFFRACTION' 2 bru.param bru.top 'X-RAY DIFFRACTION' 3 CNS_TOPPAR:ion.param CNS_TOPPAR:ion.top 'X-RAY DIFFRACTION' 4 CNS_TOPPAR:water_rep.param CNS_TOPPAR:water.top 'X-RAY DIFFRACTION' # _struct.entry_id 3BNO _struct.title 'Crystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site (Br-derivative)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3BNO _struct_keywords.text 'ribosome, decoding site, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3BNO _struct_ref.pdbx_db_accession 3BNO _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # 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 3BNO A 1 ? 21 ? 3BNO 1 ? 21 ? 1 21 2 1 3BNO B 1 ? 21 ? 3BNO 1 ? 21 ? 1 21 3 1 3BNO C 1 ? 21 ? 3BNO 1 ? 21 ? 1 21 4 1 3BNO D 1 ? 21 ? 3BNO 1 ? 21 ? 1 21 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F 2 1 C,D,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 _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 both ? A C 8 "O3'" ? ? ? 1_555 A 5BU 9 P ? ? A C 8 A 5BU 9 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale2 covale both ? A 5BU 9 "O3'" ? ? ? 1_555 A C 10 P ? ? A 5BU 9 A C 10 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale3 covale both ? B C 8 "O3'" ? ? ? 1_555 B 5BU 9 P ? ? B C 8 B 5BU 9 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale4 covale both ? B 5BU 9 "O3'" ? ? ? 1_555 B C 10 P ? ? B 5BU 9 B C 10 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale5 covale both ? C C 8 "O3'" ? ? ? 1_555 C 5BU 9 P ? ? C C 8 C 5BU 9 1_555 ? ? ? ? ? ? ? 1.591 ? ? covale6 covale both ? C 5BU 9 "O3'" ? ? ? 1_555 C C 10 P ? ? C 5BU 9 C C 10 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale7 covale both ? D C 8 "O3'" ? ? ? 1_555 D 5BU 9 P ? ? D C 8 D 5BU 9 1_555 ? ? ? ? ? ? ? 1.615 ? ? covale8 covale both ? D 5BU 9 "O3'" ? ? ? 1_555 D C 10 P ? ? D 5BU 9 D C 10 1_555 ? ? ? ? ? ? ? 1.600 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 21 N3 ? ? A G 1 B C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 21 O2 ? ? A G 1 B C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 21 N4 ? ? A G 1 B C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 20 N1 ? ? A C 2 B G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 20 O6 ? ? A C 2 B G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 20 N2 ? ? A C 2 B G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 19 N3 ? ? A G 3 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 19 O2 ? ? A G 3 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 19 N4 ? ? A G 3 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 4 N3 ? ? ? 1_555 B U 18 O4 ? ? A U 4 B U 18 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog11 hydrog ? ? A U 4 O2 ? ? ? 1_555 B U 18 N3 ? ? A U 4 B U 18 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog12 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 17 N1 ? ? A C 5 B G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 17 O6 ? ? A C 5 B G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 17 N2 ? ? A C 5 B G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 8 N4 ? ? ? 1_555 B A 13 N1 ? ? A C 8 B A 13 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog16 hydrog ? ? A 5BU 9 N3 ? ? ? 1_555 B A 12 N1 ? ? A 5BU 9 B A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A 5BU 9 O4 ? ? ? 1_555 B A 12 N6 ? ? A 5BU 9 B A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 10 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 10 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 10 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 11 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 11 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 11 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A A 12 N1 ? ? ? 1_555 B 5BU 9 N3 ? ? A A 12 B 5BU 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A A 12 N6 ? ? ? 1_555 B 5BU 9 O4 ? ? A A 12 B 5BU 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 14 O2 ? ? ? 1_555 B C 8 N4 ? ? A C 14 B C 8 1_555 ? ? ? ? ? ? 'C-C MISPAIR' ? ? ? hydrog27 hydrog ? ? A G 17 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 17 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 17 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 17 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 17 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 17 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A U 18 N3 ? ? ? 1_555 B U 4 O4 ? ? A U 18 B U 4 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog31 hydrog ? ? A U 18 O2 ? ? ? 1_555 B U 4 N3 ? ? A U 18 B U 4 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog32 hydrog ? ? A C 19 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 19 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 19 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 19 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 19 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 19 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 20 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 20 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 20 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 20 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A G 20 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 20 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 21 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 21 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 21 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 21 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 21 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 21 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C G 1 N1 ? ? ? 1_555 D C 21 N3 ? ? C G 1 D C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C G 1 N2 ? ? ? 1_555 D C 21 O2 ? ? C G 1 D C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C G 1 O6 ? ? ? 1_555 D C 21 N4 ? ? C G 1 D C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C C 2 N3 ? ? ? 1_555 D G 20 N1 ? ? C C 2 D G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C C 2 N4 ? ? ? 1_555 D G 20 O6 ? ? C C 2 D G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C C 2 O2 ? ? ? 1_555 D G 20 N2 ? ? C C 2 D G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C G 3 N1 ? ? ? 1_555 D C 19 N3 ? ? C G 3 D C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C G 3 N2 ? ? ? 1_555 D C 19 O2 ? ? C G 3 D C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C G 3 O6 ? ? ? 1_555 D C 19 N4 ? ? C G 3 D C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C U 4 N3 ? ? ? 1_555 D U 18 O4 ? ? C U 4 D U 18 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog51 hydrog ? ? C U 4 O2 ? ? ? 1_555 D U 18 N3 ? ? C U 4 D U 18 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog52 hydrog ? ? C C 5 N3 ? ? ? 1_555 D G 17 N1 ? ? C C 5 D G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C C 5 N4 ? ? ? 1_555 D G 17 O6 ? ? C C 5 D G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C C 5 O2 ? ? ? 1_555 D G 17 N2 ? ? C C 5 D G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C C 7 N4 ? ? ? 1_555 D C 14 O2 ? ? C C 7 D C 14 1_555 ? ? ? ? ? ? 'C-C MISPAIR' ? ? ? hydrog56 hydrog ? ? C C 8 N4 ? ? ? 1_555 D A 13 N1 ? ? C C 8 D A 13 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog57 hydrog ? ? C 5BU 9 N3 ? ? ? 1_555 D A 12 N1 ? ? C 5BU 9 D A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C 5BU 9 O4 ? ? ? 1_555 D A 12 N6 ? ? C 5BU 9 D A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C C 10 N3 ? ? ? 1_555 D G 11 N1 ? ? C C 10 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C C 10 N4 ? ? ? 1_555 D G 11 O6 ? ? C C 10 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? C C 10 O2 ? ? ? 1_555 D G 11 N2 ? ? C C 10 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? C G 11 N1 ? ? ? 1_555 D C 10 N3 ? ? C G 11 D C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? C G 11 N2 ? ? ? 1_555 D C 10 O2 ? ? C G 11 D C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? C G 11 O6 ? ? ? 1_555 D C 10 N4 ? ? C G 11 D C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? C A 12 N1 ? ? ? 1_555 D 5BU 9 N3 ? ? C A 12 D 5BU 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? C A 12 N6 ? ? ? 1_555 D 5BU 9 O4 ? ? C A 12 D 5BU 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? C G 17 N1 ? ? ? 1_555 D C 5 N3 ? ? C G 17 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? C G 17 N2 ? ? ? 1_555 D C 5 O2 ? ? C G 17 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? C G 17 O6 ? ? ? 1_555 D C 5 N4 ? ? C G 17 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? C U 18 N3 ? ? ? 1_555 D U 4 O4 ? ? C U 18 D U 4 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog71 hydrog ? ? C U 18 O2 ? ? ? 1_555 D U 4 N3 ? ? C U 18 D U 4 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog72 hydrog ? ? C C 19 N3 ? ? ? 1_555 D G 3 N1 ? ? C C 19 D G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? C C 19 N4 ? ? ? 1_555 D G 3 O6 ? ? C C 19 D G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? C C 19 O2 ? ? ? 1_555 D G 3 N2 ? ? C C 19 D G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? C G 20 N1 ? ? ? 1_555 D C 2 N3 ? ? C G 20 D C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? C G 20 N2 ? ? ? 1_555 D C 2 O2 ? ? C G 20 D C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? C G 20 O6 ? ? ? 1_555 D C 2 N4 ? ? C G 20 D C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? C C 21 N3 ? ? ? 1_555 D G 1 N1 ? ? C C 21 D G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? C C 21 N4 ? ? ? 1_555 D G 1 O6 ? ? C C 21 D G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? C C 21 O2 ? ? ? 1_555 D G 1 N2 ? ? C C 21 D G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 P A G 1 ? ? OP3 A G 1 ? ? 1.521 1.607 -0.086 0.012 N 2 1 P B G 1 ? ? OP3 B G 1 ? ? 1.522 1.607 -0.085 0.012 N 3 1 P C G 1 ? ? OP3 C G 1 ? ? 1.523 1.607 -0.084 0.012 N 4 1 P D G 1 ? ? OP3 D G 1 ? ? 1.525 1.607 -0.082 0.012 N # 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 5BU 9 A 5BU 9 ? U "5-BROMO-URIDINE-5'-MONOPHOSPHATE" 2 B 5BU 9 B 5BU 9 ? U "5-BROMO-URIDINE-5'-MONOPHOSPHATE" 3 C 5BU 9 C 5BU 9 ? U "5-BROMO-URIDINE-5'-MONOPHOSPHATE" 4 D 5BU 9 D 5BU 9 ? U "5-BROMO-URIDINE-5'-MONOPHOSPHATE" # _phasing.method MR # 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 5BU P P N N 1 5BU OP1 O N N 2 5BU OP2 O N N 3 5BU OP3 O N N 4 5BU "O5'" O N N 5 5BU "C5'" C N N 6 5BU "C4'" C N R 7 5BU "O4'" O N N 8 5BU "C3'" C N S 9 5BU "O3'" O N N 10 5BU "C2'" C N R 11 5BU "O2'" O N N 12 5BU "C1'" C N R 13 5BU N1 N N N 14 5BU C2 C N N 15 5BU O2 O N N 16 5BU N3 N N N 17 5BU C4 C N N 18 5BU O4 O N N 19 5BU C5 C N N 20 5BU C6 C N N 21 5BU BR BR N N 22 5BU HOP2 H N N 23 5BU HOP3 H N N 24 5BU "H5'" H N N 25 5BU "H5''" H N N 26 5BU "H4'" H N N 27 5BU "H3'" H N N 28 5BU "HO3'" H N N 29 5BU "H2'" H N N 30 5BU "HO2'" H N N 31 5BU "H1'" H N N 32 5BU H3 H N N 33 5BU H6 H N N 34 A OP3 O N N 35 A P P N N 36 A OP1 O N N 37 A OP2 O N N 38 A "O5'" O N N 39 A "C5'" C N N 40 A "C4'" C N R 41 A "O4'" O N N 42 A "C3'" C N S 43 A "O3'" O N N 44 A "C2'" C N R 45 A "O2'" O N N 46 A "C1'" C N R 47 A N9 N Y N 48 A C8 C Y N 49 A N7 N Y N 50 A C5 C Y N 51 A C6 C Y N 52 A N6 N N N 53 A N1 N Y N 54 A C2 C Y N 55 A N3 N Y N 56 A C4 C Y N 57 A HOP3 H N N 58 A HOP2 H N N 59 A "H5'" H N N 60 A "H5''" H N N 61 A "H4'" H N N 62 A "H3'" H N N 63 A "HO3'" H N N 64 A "H2'" H N N 65 A "HO2'" H N N 66 A "H1'" H N N 67 A H8 H N N 68 A H61 H N N 69 A H62 H N N 70 A H2 H N N 71 C OP3 O N N 72 C P P N N 73 C OP1 O N N 74 C OP2 O N N 75 C "O5'" O N N 76 C "C5'" C N N 77 C "C4'" C N R 78 C "O4'" O N N 79 C "C3'" C N S 80 C "O3'" O N N 81 C "C2'" C N R 82 C "O2'" O N N 83 C "C1'" C N R 84 C N1 N N N 85 C C2 C N N 86 C O2 O N N 87 C N3 N N N 88 C C4 C N N 89 C N4 N N N 90 C C5 C N N 91 C C6 C N N 92 C HOP3 H N N 93 C HOP2 H N N 94 C "H5'" H N N 95 C "H5''" H N N 96 C "H4'" H N N 97 C "H3'" H N N 98 C "HO3'" H N N 99 C "H2'" H N N 100 C "HO2'" H N N 101 C "H1'" H N N 102 C H41 H N N 103 C H42 H N N 104 C H5 H N N 105 C H6 H N N 106 G OP3 O N N 107 G P P N N 108 G OP1 O N N 109 G OP2 O N N 110 G "O5'" O N N 111 G "C5'" C N N 112 G "C4'" C N R 113 G "O4'" O N N 114 G "C3'" C N S 115 G "O3'" O N N 116 G "C2'" C N R 117 G "O2'" O N N 118 G "C1'" C N R 119 G N9 N Y N 120 G C8 C Y N 121 G N7 N Y N 122 G C5 C Y N 123 G C6 C N N 124 G O6 O N N 125 G N1 N N N 126 G C2 C N N 127 G N2 N N N 128 G N3 N N N 129 G C4 C Y N 130 G HOP3 H N N 131 G HOP2 H N N 132 G "H5'" H N N 133 G "H5''" H N N 134 G "H4'" H N N 135 G "H3'" H N N 136 G "HO3'" H N N 137 G "H2'" H N N 138 G "HO2'" H N N 139 G "H1'" H N N 140 G H8 H N N 141 G H1 H N N 142 G H21 H N N 143 G H22 H N N 144 HOH O O N N 145 HOH H1 H N N 146 HOH H2 H N N 147 U OP3 O N N 148 U P P N N 149 U OP1 O N N 150 U OP2 O N N 151 U "O5'" O N N 152 U "C5'" C N N 153 U "C4'" C N R 154 U "O4'" O N N 155 U "C3'" C N S 156 U "O3'" O N N 157 U "C2'" C N R 158 U "O2'" O N N 159 U "C1'" C N R 160 U N1 N N N 161 U C2 C N N 162 U O2 O N N 163 U N3 N N N 164 U C4 C N N 165 U O4 O N N 166 U C5 C N N 167 U C6 C N N 168 U HOP3 H N N 169 U HOP2 H N N 170 U "H5'" H N N 171 U "H5''" H N N 172 U "H4'" H N N 173 U "H3'" H N N 174 U "HO3'" H N N 175 U "H2'" H N N 176 U "HO2'" H N N 177 U "H1'" H N N 178 U H3 H N N 179 U H5 H N N 180 U H6 H N N 181 # 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 5BU P OP1 doub N N 1 5BU P OP2 sing N N 2 5BU P OP3 sing N N 3 5BU P "O5'" sing N N 4 5BU OP2 HOP2 sing N N 5 5BU OP3 HOP3 sing N N 6 5BU "O5'" "C5'" sing N N 7 5BU "C5'" "C4'" sing N N 8 5BU "C5'" "H5'" sing N N 9 5BU "C5'" "H5''" sing N N 10 5BU "C4'" "O4'" sing N N 11 5BU "C4'" "C3'" sing N N 12 5BU "C4'" "H4'" sing N N 13 5BU "O4'" "C1'" sing N N 14 5BU "C3'" "O3'" sing N N 15 5BU "C3'" "C2'" sing N N 16 5BU "C3'" "H3'" sing N N 17 5BU "O3'" "HO3'" sing N N 18 5BU "C2'" "O2'" sing N N 19 5BU "C2'" "C1'" sing N N 20 5BU "C2'" "H2'" sing N N 21 5BU "O2'" "HO2'" sing N N 22 5BU "C1'" N1 sing N N 23 5BU "C1'" "H1'" sing N N 24 5BU N1 C2 sing N N 25 5BU N1 C6 sing N N 26 5BU C2 O2 doub N N 27 5BU C2 N3 sing N N 28 5BU N3 C4 sing N N 29 5BU N3 H3 sing N N 30 5BU C4 O4 doub N N 31 5BU C4 C5 sing N N 32 5BU C5 C6 doub N N 33 5BU C5 BR sing N N 34 5BU C6 H6 sing N N 35 A OP3 P sing N N 36 A OP3 HOP3 sing N N 37 A P OP1 doub N N 38 A P OP2 sing N N 39 A P "O5'" sing N N 40 A OP2 HOP2 sing N N 41 A "O5'" "C5'" sing N N 42 A "C5'" "C4'" sing N N 43 A "C5'" "H5'" sing N N 44 A "C5'" "H5''" sing N N 45 A "C4'" "O4'" sing N N 46 A "C4'" "C3'" sing N N 47 A "C4'" "H4'" sing N N 48 A "O4'" "C1'" sing N N 49 A "C3'" "O3'" sing N N 50 A "C3'" "C2'" sing N N 51 A "C3'" "H3'" sing N N 52 A "O3'" "HO3'" sing N N 53 A "C2'" "O2'" sing N N 54 A "C2'" "C1'" sing N N 55 A "C2'" "H2'" sing N N 56 A "O2'" "HO2'" sing N N 57 A "C1'" N9 sing N N 58 A "C1'" "H1'" sing N N 59 A N9 C8 sing Y N 60 A N9 C4 sing Y N 61 A C8 N7 doub Y N 62 A C8 H8 sing N N 63 A N7 C5 sing Y N 64 A C5 C6 sing Y N 65 A C5 C4 doub Y N 66 A C6 N6 sing N N 67 A C6 N1 doub Y N 68 A N6 H61 sing N N 69 A N6 H62 sing N N 70 A N1 C2 sing Y N 71 A C2 N3 doub Y N 72 A C2 H2 sing N N 73 A N3 C4 sing Y N 74 C OP3 P sing N N 75 C OP3 HOP3 sing N N 76 C P OP1 doub N N 77 C P OP2 sing N N 78 C P "O5'" sing N N 79 C OP2 HOP2 sing N N 80 C "O5'" "C5'" sing N N 81 C "C5'" "C4'" sing N N 82 C "C5'" "H5'" sing N N 83 C "C5'" "H5''" sing N N 84 C "C4'" "O4'" sing N N 85 C "C4'" "C3'" sing N N 86 C "C4'" "H4'" sing N N 87 C "O4'" "C1'" sing N N 88 C "C3'" "O3'" sing N N 89 C "C3'" "C2'" sing N N 90 C "C3'" "H3'" sing N N 91 C "O3'" "HO3'" sing N N 92 C "C2'" "O2'" sing N N 93 C "C2'" "C1'" sing N N 94 C "C2'" "H2'" sing N N 95 C "O2'" "HO2'" sing N N 96 C "C1'" N1 sing N N 97 C "C1'" "H1'" sing N N 98 C N1 C2 sing N N 99 C N1 C6 sing N N 100 C C2 O2 doub N N 101 C C2 N3 sing N N 102 C N3 C4 doub N N 103 C C4 N4 sing N N 104 C C4 C5 sing N N 105 C N4 H41 sing N N 106 C N4 H42 sing N N 107 C C5 C6 doub N N 108 C C5 H5 sing N N 109 C C6 H6 sing N N 110 G OP3 P sing N N 111 G OP3 HOP3 sing N N 112 G P OP1 doub N N 113 G P OP2 sing N N 114 G P "O5'" sing N N 115 G OP2 HOP2 sing N N 116 G "O5'" "C5'" sing N N 117 G "C5'" "C4'" sing N N 118 G "C5'" "H5'" sing N N 119 G "C5'" "H5''" sing N N 120 G "C4'" "O4'" sing N N 121 G "C4'" "C3'" sing N N 122 G "C4'" "H4'" sing N N 123 G "O4'" "C1'" sing N N 124 G "C3'" "O3'" sing N N 125 G "C3'" "C2'" sing N N 126 G "C3'" "H3'" sing N N 127 G "O3'" "HO3'" sing N N 128 G "C2'" "O2'" sing N N 129 G "C2'" "C1'" sing N N 130 G "C2'" "H2'" sing N N 131 G "O2'" "HO2'" sing N N 132 G "C1'" N9 sing N N 133 G "C1'" "H1'" sing N N 134 G N9 C8 sing Y N 135 G N9 C4 sing Y N 136 G C8 N7 doub Y N 137 G C8 H8 sing N N 138 G N7 C5 sing Y N 139 G C5 C6 sing N N 140 G C5 C4 doub Y N 141 G C6 O6 doub N N 142 G C6 N1 sing N N 143 G N1 C2 sing N N 144 G N1 H1 sing N N 145 G C2 N2 sing N N 146 G C2 N3 doub N N 147 G N2 H21 sing N N 148 G N2 H22 sing N N 149 G N3 C4 sing N N 150 HOH O H1 sing N N 151 HOH O H2 sing N N 152 U OP3 P sing N N 153 U OP3 HOP3 sing N N 154 U P OP1 doub N N 155 U P OP2 sing N N 156 U P "O5'" sing N N 157 U OP2 HOP2 sing N N 158 U "O5'" "C5'" sing N N 159 U "C5'" "C4'" sing N N 160 U "C5'" "H5'" sing N N 161 U "C5'" "H5''" sing N N 162 U "C4'" "O4'" sing N N 163 U "C4'" "C3'" sing N N 164 U "C4'" "H4'" sing N N 165 U "O4'" "C1'" sing N N 166 U "C3'" "O3'" sing N N 167 U "C3'" "C2'" sing N N 168 U "C3'" "H3'" sing N N 169 U "O3'" "HO3'" sing N N 170 U "C2'" "O2'" sing N N 171 U "C2'" "C1'" sing N N 172 U "C2'" "H2'" sing N N 173 U "O2'" "HO2'" sing N N 174 U "C1'" N1 sing N N 175 U "C1'" "H1'" sing N N 176 U N1 C2 sing N N 177 U N1 C6 sing N N 178 U C2 O2 doub N N 179 U C2 N3 sing N N 180 U N3 C4 sing N N 181 U N3 H3 sing N N 182 U C4 O4 doub N N 183 U C4 C5 sing N N 184 U C5 C6 doub N N 185 U C5 H5 sing N N 186 U C6 H6 sing N N 187 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3BNO 'double helix' 3BNO 'a-form double helix' 3BNO 'mismatched base pair' 3BNO 'internal loop' # 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 21 1_555 -0.284 -0.293 -0.127 -8.942 -7.584 3.448 1 A_G1:C21_B A 1 ? B 21 ? 19 1 1 A C 2 1_555 B G 20 1_555 0.127 -0.194 0.034 -2.958 -6.510 5.924 2 A_C2:G20_B A 2 ? B 20 ? 19 1 1 A G 3 1_555 B C 19 1_555 -0.695 -0.123 -0.580 -11.543 -22.831 14.576 3 A_G3:C19_B A 3 ? B 19 ? 19 1 1 A U 4 1_555 B U 18 1_555 1.373 -1.639 0.135 0.400 -20.566 15.580 4 A_U4:U18_B A 4 ? B 18 ? 16 1 1 A C 5 1_555 B G 17 1_555 0.142 -0.073 -0.200 8.411 -15.568 11.132 5 A_C5:G17_B A 5 ? B 17 ? 19 1 1 A C 8 1_555 B A 13 1_555 -1.979 0.631 0.531 10.893 0.389 6.895 6 A_C8:A13_B A 8 ? B 13 ? ? ? 1 A 5BU 9 1_555 B A 12 1_555 -0.083 -0.055 -0.122 8.065 -1.967 0.930 7 A_5BU9:A12_B A 9 ? B 12 ? 20 1 1 A C 10 1_555 B G 11 1_555 0.688 -0.057 -0.092 2.139 -5.972 7.858 8 A_C10:G11_B A 10 ? B 11 ? 19 1 1 A G 11 1_555 B C 10 1_555 0.085 0.011 -0.194 -8.368 -9.980 4.012 9 A_G11:C10_B A 11 ? B 10 ? 19 1 1 A A 12 1_555 B 5BU 9 1_555 0.104 -0.331 -0.469 -11.789 -6.180 1.836 10 A_A12:5BU9_B A 12 ? B 9 ? 20 1 1 A C 14 1_555 B C 8 1_555 5.756 -1.496 0.228 -22.270 8.539 34.415 11 A_C14:C8_B A 14 ? B 8 ? ? ? 1 A G 17 1_555 B C 5 1_555 -0.426 -0.162 -0.160 -1.485 -11.652 5.118 12 A_G17:C5_B A 17 ? B 5 ? 19 1 1 A U 18 1_555 B U 4 1_555 2.155 -1.885 0.081 2.590 -21.054 4.364 13 A_U18:U4_B A 18 ? B 4 ? 16 1 1 A C 19 1_555 B G 3 1_555 -0.048 -0.198 -0.091 2.139 -12.141 1.541 14 A_C19:G3_B A 19 ? B 3 ? 19 1 1 A G 20 1_555 B C 2 1_555 -0.105 -0.243 0.071 -1.335 -7.006 1.743 15 A_G20:C2_B A 20 ? B 2 ? 19 1 1 A C 21 1_555 B G 1 1_555 0.271 -0.138 -0.127 5.131 -2.229 -0.602 16 A_C21:G1_B A 21 ? B 1 ? 19 1 1 C G 1 1_555 D C 21 1_555 -0.527 0.018 0.180 0.921 -0.791 1.816 17 C_G1:C21_D C 1 ? D 21 ? 19 1 1 C C 2 1_555 D G 20 1_555 -0.095 0.216 -0.222 10.543 -8.082 7.963 18 C_C2:G20_D C 2 ? D 20 ? 19 1 1 C G 3 1_555 D C 19 1_555 -0.278 0.222 -0.512 -14.799 -22.042 6.525 19 C_G3:C19_D C 3 ? D 19 ? 19 1 1 C U 4 1_555 D U 18 1_555 2.333 -1.835 0.108 -5.360 -15.010 3.362 20 C_U4:U18_D C 4 ? D 18 ? 16 1 1 C C 5 1_555 D G 17 1_555 0.151 -0.124 -0.764 13.000 -13.148 5.131 21 C_C5:G17_D C 5 ? D 17 ? 19 1 1 C C 7 1_555 D C 14 1_555 -6.372 -2.017 0.447 -1.617 13.736 -8.442 22 C_C7:C14_D C 7 ? D 14 ? ? ? 1 C C 8 1_555 D A 13 1_555 -2.542 0.374 -0.342 12.569 -3.921 7.960 23 C_C8:A13_D C 8 ? D 13 ? ? ? 1 C 5BU 9 1_555 D A 12 1_555 -0.432 -0.082 -0.368 12.442 -9.708 -3.098 24 C_5BU9:A12_D C 9 ? D 12 ? 20 1 1 C C 10 1_555 D G 11 1_555 -0.059 -0.174 0.005 3.149 -10.345 1.435 25 C_C10:G11_D C 10 ? D 11 ? 19 1 1 C G 11 1_555 D C 10 1_555 -0.203 -0.094 -0.496 -6.240 -14.263 5.624 26 C_G11:C10_D C 11 ? D 10 ? 19 1 1 C A 12 1_555 D 5BU 9 1_555 -0.320 -0.345 -0.207 -3.882 -10.796 2.373 27 C_A12:5BU9_D C 12 ? D 9 ? 20 1 1 C G 17 1_555 D C 5 1_555 -0.581 -0.188 0.270 6.128 -12.990 2.980 28 C_G17:C5_D C 17 ? D 5 ? 19 1 1 C U 18 1_555 D U 4 1_555 2.046 -1.919 0.511 -2.206 -14.679 1.228 29 C_U18:U4_D C 18 ? D 4 ? 16 1 1 C C 19 1_555 D G 3 1_555 0.057 0.062 -0.046 4.083 -12.981 7.355 30 C_C19:G3_D C 19 ? D 3 ? 19 1 1 C G 20 1_555 D C 2 1_555 -0.092 -0.280 -0.023 -4.730 -6.096 -0.166 31 C_G20:C2_D C 20 ? D 2 ? 19 1 1 C C 21 1_555 D G 1 1_555 0.546 -0.077 -0.052 6.159 -7.475 0.245 32 C_C21:G1_D C 21 ? D 1 ? 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 21 1_555 A C 2 1_555 B G 20 1_555 -0.487 -1.541 3.195 -4.393 3.904 32.968 -3.293 0.150 3.035 6.812 7.665 33.473 1 AA_G1C2:G20C21_BB A 1 ? B 21 ? A 2 ? B 20 ? 1 A C 2 1_555 B G 20 1_555 A G 3 1_555 B C 19 1_555 0.463 -1.511 3.396 5.504 13.897 25.125 -5.850 0.210 2.311 28.910 -11.450 29.173 2 AA_C2G3:C19G20_BB A 2 ? B 20 ? A 3 ? B 19 ? 1 A G 3 1_555 B C 19 1_555 A U 4 1_555 B U 18 1_555 0.061 -0.154 2.902 -5.171 5.428 44.235 -0.637 -0.495 2.841 7.148 6.809 44.834 3 AA_G3U4:U18C19_BB A 3 ? B 19 ? A 4 ? B 18 ? 1 A U 4 1_555 B U 18 1_555 A C 5 1_555 B G 17 1_555 0.210 -1.301 3.005 5.894 4.330 28.794 -3.356 0.702 2.771 8.534 -11.618 29.689 4 AA_U4C5:G17U18_BB A 4 ? B 18 ? A 5 ? B 17 ? 1 A C 8 1_555 B A 13 1_555 A 5BU 9 1_555 B A 12 1_555 -0.384 -1.698 3.213 1.500 9.779 38.032 -3.599 0.736 2.695 14.705 -2.256 39.252 5 AA_C85BU9:A12A13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A 5BU 9 1_555 B A 12 1_555 A C 10 1_555 B G 11 1_555 0.311 -1.566 3.285 -0.006 6.426 36.874 -3.257 -0.485 2.980 10.065 0.009 37.410 6 AA_5BU9C10:G11A12_BB A 9 ? B 12 ? A 10 ? B 11 ? 1 A C 10 1_555 B G 11 1_555 A G 11 1_555 B C 10 1_555 -0.426 -1.923 3.461 -0.543 9.273 25.501 -6.348 0.776 2.621 20.172 1.182 27.114 7 AA_C10G11:C10G11_BB A 10 ? B 11 ? A 11 ? B 10 ? 1 A G 11 1_555 B C 10 1_555 A A 12 1_555 B 5BU 9 1_555 0.062 -1.931 3.442 0.121 7.542 30.835 -4.897 -0.092 2.901 13.925 -0.224 31.723 8 AA_G11A12:5BU9C10_BB A 11 ? B 10 ? A 12 ? B 9 ? 1 A A 12 1_555 B 5BU 9 1_555 A C 14 1_555 B C 8 1_555 0.047 -0.950 6.082 25.070 19.436 67.645 -1.940 1.444 5.425 16.568 -21.371 73.904 9 AA_A12C14:C85BU9_BB A 12 ? B 9 ? A 14 ? B 8 ? 1 A G 17 1_555 B C 5 1_555 A U 18 1_555 B U 4 1_555 -0.251 -1.107 3.145 -3.023 7.643 48.633 -1.864 0.088 2.959 9.203 3.640 49.281 10 AA_G17U18:U4C5_BB A 17 ? B 5 ? A 18 ? B 4 ? 1 A U 18 1_555 B U 4 1_555 A C 19 1_555 B G 3 1_555 -0.048 -1.689 3.112 6.096 7.740 23.460 -5.778 1.638 2.357 18.048 -14.216 25.418 11 AA_U18C19:G3U4_BB A 18 ? B 4 ? A 19 ? B 3 ? 1 A C 19 1_555 B G 3 1_555 A G 20 1_555 B C 2 1_555 -0.042 -2.049 3.189 0.363 11.970 27.445 -6.079 0.146 2.128 23.843 -0.723 29.898 12 AA_C19G20:C2G3_BB A 19 ? B 3 ? A 20 ? B 2 ? 1 A G 20 1_555 B C 2 1_555 A C 21 1_555 B G 1 1_555 0.079 -1.871 3.141 2.942 2.696 33.126 -3.680 0.321 2.979 4.707 -5.136 33.359 13 AA_G20C21:G1C2_BB A 20 ? B 2 ? A 21 ? B 1 ? 1 C G 1 1_555 D C 21 1_555 C C 2 1_555 D G 20 1_555 -0.101 -1.518 3.119 1.827 5.226 31.890 -3.570 0.476 2.831 9.423 -3.294 32.354 14 CC_G1C2:G20C21_DD C 1 ? D 21 ? C 2 ? D 20 ? 1 C C 2 1_555 D G 20 1_555 C G 3 1_555 D C 19 1_555 0.062 -1.602 3.923 1.807 15.067 28.922 -5.711 0.231 2.770 27.876 -3.343 32.586 15 CC_C2G3:C19G20_DD C 2 ? D 20 ? C 3 ? D 19 ? 1 C G 3 1_555 D C 19 1_555 C U 4 1_555 D U 18 1_555 -0.180 -0.692 3.089 -5.764 3.894 46.508 -1.169 -0.220 3.025 4.899 7.252 46.997 16 CC_G3U4:U18C19_DD C 3 ? D 19 ? C 4 ? D 18 ? 1 C U 4 1_555 D U 18 1_555 C C 5 1_555 D G 17 1_555 0.217 -1.628 2.614 11.194 6.313 26.233 -4.278 1.422 2.091 12.965 -22.991 29.163 17 CC_U4C5:G17U18_DD C 4 ? D 18 ? C 5 ? D 17 ? 1 C C 7 1_555 D C 14 1_555 C C 8 1_555 D A 13 1_555 0.541 -1.155 3.033 -3.268 11.168 43.503 -2.399 -0.967 2.629 14.756 4.318 44.960 18 CC_C7C8:A13C14_DD C 7 ? D 14 ? C 8 ? D 13 ? 1 C C 8 1_555 D A 13 1_555 C 5BU 9 1_555 D A 12 1_555 -0.871 -1.385 3.362 -4.141 10.073 38.556 -3.169 0.802 2.996 14.896 6.124 40.008 19 CC_C85BU9:A12A13_DD C 8 ? D 13 ? C 9 ? D 12 ? 1 C 5BU 9 1_555 D A 12 1_555 C C 10 1_555 D G 11 1_555 0.269 -1.777 3.550 -4.781 6.174 33.315 -4.029 -1.238 3.113 10.588 8.199 34.192 20 CC_5BU9C10:G11A12_DD C 9 ? D 12 ? C 10 ? D 11 ? 1 C C 10 1_555 D G 11 1_555 C G 11 1_555 D C 10 1_555 -0.062 -1.753 3.542 3.108 9.365 28.282 -5.332 0.763 2.809 18.468 -6.130 29.920 21 CC_C10G11:C10G11_DD C 10 ? D 11 ? C 11 ? D 10 ? 1 C G 11 1_555 D C 10 1_555 C A 12 1_555 D 5BU 9 1_555 0.360 -1.713 3.223 -3.510 6.566 29.523 -4.477 -1.335 2.727 12.634 6.754 30.427 22 CC_G11A12:5BU9C10_DD C 11 ? D 10 ? C 12 ? D 9 ? 1 C G 17 1_555 D C 5 1_555 C U 18 1_555 D U 4 1_555 -0.105 -1.291 3.415 -4.186 8.194 48.651 -2.160 -0.190 3.169 9.843 5.029 49.461 23 CC_G17U18:U4C5_DD C 17 ? D 5 ? C 18 ? D 4 ? 1 C U 18 1_555 D U 4 1_555 C C 19 1_555 D G 3 1_555 0.155 -2.010 2.784 9.375 10.821 26.249 -5.584 1.154 1.787 21.878 -18.956 29.839 24 CC_U18C19:G3U4_DD C 18 ? D 4 ? C 19 ? D 3 ? 1 C C 19 1_555 D G 3 1_555 C G 20 1_555 D C 2 1_555 -0.723 -1.820 3.259 -1.221 11.863 27.790 -5.644 1.166 2.333 23.382 2.406 30.195 25 CC_C19G20:C2G3_DD C 19 ? D 3 ? C 20 ? D 2 ? 1 C G 20 1_555 D C 2 1_555 C C 21 1_555 D G 1 1_555 0.174 -1.644 3.068 0.991 0.718 34.434 -2.880 -0.149 3.037 1.212 -1.673 34.455 26 CC_G20C21:G1C2_DD C 20 ? D 2 ? C 21 ? D 1 ? # _atom_sites.entry_id 3BNO _atom_sites.fract_transf_matrix[1][1] 0.028458 _atom_sites.fract_transf_matrix[1][2] -0.008133 _atom_sites.fract_transf_matrix[1][3] -0.006581 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.022878 _atom_sites.fract_transf_matrix[2][3] -0.006173 _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] 0.020731 _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 BR C N O P # loop_