data_3S4P # _entry.id 3S4P # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 3S4P pdb_00003s4p 10.2210/pdb3s4p/pdb NDB NA1132 ? ? RCSB RCSB065757 ? ? WWPDB D_1000065757 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2PWT . unspecified PDB 2BE0 . unspecified PDB 2BEE . unspecified # _pdbx_database_status.entry_id 3S4P _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2011-05-20 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Szychowski, J.' 1 'Kondo, J.' 2 'Zahr, O.' 3 'Auclair, K.' 4 'Westhof, E.' 5 'Hanessian, S.' 6 'Keillor, J.W.' 7 # _citation.id primary _citation.title ;Inhibition of aminoglycoside-deactivating enzymes APH(3')-IIIa and AAC(6')-Ii by amphiphilic paromomycin O2''-ether analogues ; _citation.journal_abbrev Chemmedchem _citation.journal_volume 6 _citation.page_first 1961 _citation.page_last 1966 _citation.year 2011 _citation.journal_id_ASTM ? _citation.country DE _citation.journal_id_ISSN 1860-7179 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21905229 _citation.pdbx_database_id_DOI 10.1002/cmdc.201100346 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Szychowski, J.' 1 ? primary 'Kondo, J.' 2 ? primary 'Zahr, O.' 3 ? primary 'Auclair, K.' 4 ? primary 'Westhof, E.' 5 ? primary 'Hanessian, S.' 6 ? primary 'Keillor, J.W.' 7 ? # _cell.length_a 34.189 _cell.length_b 44.689 _cell.length_c 94.585 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 3S4P _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _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 21 21 21' _symmetry.entry_id 3S4P _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.Int_Tables_number 19 _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 ;RNA (5'-R(P*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3') ; 6743.077 2 ? ? ? ? 2 non-polymer syn ;(1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-2-O-{2-[(2-phenylethyl)amino]ethyl}-beta-D-ribofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-glucopyranoside ; 762.845 2 ? ? ? ? 3 water nat water 18.015 38 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code GCGUCACACCGGUGAAGUCGC _entity_poly.pdbx_seq_one_letter_code_can GCGUCACACCGGUGAAGUCGC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # 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 A n 1 9 C n 1 10 C n 1 11 G n 1 12 G n 1 13 U n 1 14 G 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 # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _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 'Chemically synthesized' # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3S4P _struct_ref.pdbx_db_accession 3S4P _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 3S4P A 1 ? 21 ? 3S4P 1 ? 21 ? 1 21 2 1 3S4P B 1 ? 21 ? 3S4P 22 ? 42 ? 22 42 # 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 JS6 non-polymer . ;(1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-2-O-{2-[(2-phenylethyl)amino]ethyl}-beta-D-ribofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-glucopyranoside ; ? 'C33 H58 N6 O14' 762.845 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.crystals_number 1 _exptl.entry_id 3S4P _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.density_Matthews 2.68 _exptl_crystal.density_diffrn ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_percent_sol 54.09 _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _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 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details 'Sodium Cacodylate, Spermine, KCl, MPD, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K' _exptl_crystal_grow.pdbx_pH_range . # _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 210' _diffrn_detector.pdbx_collection_date 2006-05-27 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _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 0.9 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID29' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9 _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID29 # _reflns.entry_id 3S4P _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 2.56 _reflns.d_resolution_low 40.4 _reflns.number_all ? _reflns.number_obs 5003 _reflns.percent_possible_obs 99.6 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _refine.entry_id 3S4P _refine.ls_d_res_high 2.5600 _refine.ls_d_res_low 10.0000 _refine.pdbx_ls_sigma_F 65.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 98.6000 _refine.ls_number_reflns_obs 4848 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details ? _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_work 0.2379 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2671 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 10.2000 _refine.ls_number_reflns_R_free 501 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 47.9676 _refine.solvent_model_param_bsol 36.3817 _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -6.3500 _refine.aniso_B[2][2] 6.9600 _refine.aniso_B[3][3] -0.6100 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.solvent_model_details ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 1J7T _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set 0.8273 _refine.B_iso_max 92.190 _refine.B_iso_min 14.540 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _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 900 _refine_hist.pdbx_number_atoms_ligand 106 _refine_hist.number_atoms_solvent 38 _refine_hist.number_atoms_total 1044 _refine_hist.d_res_high 2.5600 _refine_hist.d_res_low 10.0000 # 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_restraint_function _refine_ls_restr.pdbx_refine_id c_bond_d ? 0.006 ? ? ? 'X-RAY DIFFRACTION' c_angle_deg ? 0.895 ? ? ? 'X-RAY DIFFRACTION' c_mcbond_it ? 0.000 ? ? ? 'X-RAY DIFFRACTION' c_scbond_it ? 1.731 2.000 ? ? 'X-RAY DIFFRACTION' c_mcangle_it ? 0.000 2.000 ? ? 'X-RAY DIFFRACTION' c_scangle_it ? 2.635 2.500 ? ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.pdbx_refine_id _refine_ls_shell.redundancy_reflns_obs 2.5600 2.6500 10 . 405 . 0.5000 0.6031 . 50 . 455 . 'X-RAY DIFFRACTION' . 2.6500 2.7500 10 . 414 . 0.4134 0.4429 . 39 . 453 . 'X-RAY DIFFRACTION' . 2.7500 2.8800 10 . 430 . 0.3903 0.4440 . 50 . 480 . 'X-RAY DIFFRACTION' . 2.8800 3.0200 10 . 432 . 0.3127 0.3423 . 43 . 475 . 'X-RAY DIFFRACTION' . 3.0200 3.2100 10 . 436 . 0.2225 0.2741 . 49 . 485 . 'X-RAY DIFFRACTION' . 3.2100 3.4500 10 . 443 . 0.2429 0.2477 . 52 . 495 . 'X-RAY DIFFRACTION' . 3.4500 3.7800 10 . 433 . 0.2261 0.3118 . 56 . 489 . 'X-RAY DIFFRACTION' . 3.7800 4.2800 10 . 442 . 0.2010 0.2496 . 49 . 491 . 'X-RAY DIFFRACTION' . 4.2800 5.2600 10 . 444 . 0.2017 0.1982 . 53 . 497 . 'X-RAY DIFFRACTION' . 5.2600 10.0000 10 . 468 . 0.1807 0.1992 . 60 . 528 . 'X-RAY DIFFRACTION' . # loop_ _pdbx_xplor_file.pdbx_refine_id _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file 'X-RAY DIFFRACTION' 1 protein_rep.param protein.top 'X-RAY DIFFRACTION' 2 rna_jw.param dna-rna.top 'X-RAY DIFFRACTION' 3 water_rep.param water.top 'X-RAY DIFFRACTION' 4 ion.param ion.top 'X-RAY DIFFRACTION' 5 JS136.param JS136.top # _struct.entry_id 3S4P _struct.title ;Crystal structure of the bacterial ribosomal decoding site complexed with an amphiphilic paromomycin O2''-ether analogue ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3S4P _struct_keywords.pdbx_keywords RNA/ANTIBIOTIC _struct_keywords.text 'aminoglycoside, antibiotics, ribosome, decoding site, RNA, RNA-ANTIBIOTIC complex' # 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 3 ? F N N 3 ? # _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 hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 21 N3 ? ? A G 1 B C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 21 O2 ? ? A G 1 B C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 21 N4 ? ? A G 1 B C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 20 N1 ? ? A C 2 B G 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 20 O6 ? ? A C 2 B G 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 20 N2 ? ? A C 2 B G 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 19 N3 ? ? A G 3 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 19 O2 ? ? A G 3 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 19 N4 ? ? A G 3 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 4 N3 ? ? ? 1_555 B U 18 O4 ? ? A U 4 B U 39 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog11 hydrog ? ? A U 4 O2 ? ? ? 1_555 B U 18 N3 ? ? A U 4 B U 39 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog12 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 17 N1 ? ? A C 5 B G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 17 O6 ? ? A C 5 B G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 17 N2 ? ? A C 5 B G 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 14 N1 ? ? A C 7 B G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 14 O6 ? ? A C 7 B G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 14 N2 ? ? A C 7 B G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 8 N1 ? ? ? 1_555 B U 13 N3 ? ? A A 8 B U 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 8 N6 ? ? ? 1_555 B U 13 O4 ? ? A A 8 B U 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 9 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 9 B G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 9 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 9 B G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 9 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 9 B G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 10 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 10 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 10 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 11 B C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 11 B C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 11 B C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 12 N1 ? ? ? 1_555 B C 9 N3 ? ? A G 12 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 12 N2 ? ? ? 1_555 B C 9 O2 ? ? A G 12 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 12 O6 ? ? ? 1_555 B C 9 N4 ? ? A G 12 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 13 N3 ? ? ? 1_555 B A 8 N1 ? ? A U 13 B A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A U 13 O4 ? ? ? 1_555 B A 8 N6 ? ? A U 13 B A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 14 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 14 B C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 14 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 14 B C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 14 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 14 B C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A G 17 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 17 B C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A G 17 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 17 B C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A G 17 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 17 B C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A U 18 N3 ? ? ? 1_555 B U 4 O2 ? ? A U 18 B U 25 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog41 hydrog ? ? A U 18 O4 ? ? ? 1_555 B U 4 N3 ? ? A U 18 B U 25 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog42 hydrog ? ? A C 19 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 19 B G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A C 19 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 19 B G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A C 19 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 19 B G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A G 20 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 20 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A G 20 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 20 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A G 20 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 20 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A C 21 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 21 B G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A C 21 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 21 B G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A C 21 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 21 B G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 JS6 50 ? 9 'BINDING SITE FOR RESIDUE JS6 A 50' AC2 Software B JS6 51 ? 11 'BINDING SITE FOR RESIDUE JS6 B 51' 1 ? ? ? ? ? ? ? # 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 9 U A 13 ? U A 13 . ? 1_555 ? 2 AC1 9 G A 14 ? G A 14 . ? 1_555 ? 3 AC1 9 A A 15 ? A A 15 . ? 1_555 ? 4 AC1 9 A A 16 ? A A 16 . ? 1_555 ? 5 AC1 9 G A 17 ? G A 17 . ? 1_555 ? 6 AC1 9 U A 18 ? U A 18 . ? 1_555 ? 7 AC1 9 U B 4 ? U B 25 . ? 1_555 ? 8 AC1 9 C B 5 ? C B 26 . ? 1_555 ? 9 AC1 9 A B 6 ? A B 27 . ? 1_555 ? 10 AC2 11 G A 3 ? G A 3 . ? 1_555 ? 11 AC2 11 U A 4 ? U A 4 . ? 1_555 ? 12 AC2 11 C A 5 ? C A 5 . ? 1_555 ? 13 AC2 11 A A 6 ? A A 6 . ? 1_555 ? 14 AC2 11 G B 12 ? G B 33 . ? 1_555 ? 15 AC2 11 U B 13 ? U B 34 . ? 1_555 ? 16 AC2 11 G B 14 ? G B 35 . ? 1_555 ? 17 AC2 11 A B 15 ? A B 36 . ? 1_555 ? 18 AC2 11 A B 16 ? A B 37 . ? 1_555 ? 19 AC2 11 G B 17 ? G B 38 . ? 1_555 ? 20 AC2 11 U B 18 ? U B 39 . ? 1_555 ? # _atom_sites.entry_id 3S4P _atom_sites.fract_transf_matrix[1][1] 0.029249 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.022377 _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] 0.010573 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_ _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 A 8 8 8 A A A . n A 1 9 C 9 9 9 C C 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 G 12 12 12 G G A . n A 1 13 U 13 13 13 U U A . n A 1 14 G 14 14 14 G G 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 22 22 G G B . n B 1 2 C 2 23 23 C C B . n B 1 3 G 3 24 24 G G B . n B 1 4 U 4 25 25 U U B . n B 1 5 C 5 26 26 C C B . n B 1 6 A 6 27 27 A A B . n B 1 7 C 7 28 28 C C B . n B 1 8 A 8 29 29 A A B . n B 1 9 C 9 30 30 C C B . n B 1 10 C 10 31 31 C C B . n B 1 11 G 11 32 32 G G B . n B 1 12 G 12 33 33 G G B . n B 1 13 U 13 34 34 U U B . n B 1 14 G 14 35 35 G G B . n B 1 15 A 15 36 36 A A B . n B 1 16 A 16 37 37 A A B . n B 1 17 G 17 38 38 G G B . n B 1 18 U 18 39 39 U U B . n B 1 19 C 19 40 40 C C B . n B 1 20 G 20 41 41 G G B . n B 1 21 C 21 42 42 C C 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 JS6 1 50 50 JS6 JS6 A . D 2 JS6 1 51 51 JS6 JS6 B . E 3 HOH 1 22 3 HOH HOH A . E 3 HOH 2 23 5 HOH HOH A . E 3 HOH 3 24 6 HOH HOH A . E 3 HOH 4 25 9 HOH HOH A . E 3 HOH 5 26 10 HOH HOH A . E 3 HOH 6 27 13 HOH HOH A . E 3 HOH 7 28 15 HOH HOH A . E 3 HOH 8 29 18 HOH HOH A . E 3 HOH 9 30 19 HOH HOH A . E 3 HOH 10 31 20 HOH HOH A . E 3 HOH 11 33 33 HOH HOH A . E 3 HOH 12 39 39 HOH HOH A . E 3 HOH 13 40 40 HOH HOH A . E 3 HOH 14 41 41 HOH HOH A . E 3 HOH 15 46 46 HOH HOH A . E 3 HOH 16 47 47 HOH HOH A . E 3 HOH 17 49 49 HOH HOH A . E 3 HOH 18 56 56 HOH HOH A . E 3 HOH 19 72 72 HOH HOH A . E 3 HOH 20 74 74 HOH HOH A . F 3 HOH 1 1 1 HOH HOH B . F 3 HOH 2 4 4 HOH HOH B . F 3 HOH 3 7 7 HOH HOH B . F 3 HOH 4 8 8 HOH HOH B . F 3 HOH 5 11 11 HOH HOH B . F 3 HOH 6 12 12 HOH HOH B . F 3 HOH 7 14 14 HOH HOH B . F 3 HOH 8 16 16 HOH HOH B . F 3 HOH 9 43 28 HOH HOH B . F 3 HOH 10 44 30 HOH HOH B . F 3 HOH 11 45 45 HOH HOH B . F 3 HOH 12 46 31 HOH HOH B . F 3 HOH 13 47 42 HOH HOH B . F 3 HOH 14 60 60 HOH HOH B . F 3 HOH 15 61 61 HOH HOH B . F 3 HOH 16 62 62 HOH HOH B . F 3 HOH 17 69 69 HOH HOH B . F 3 HOH 18 73 73 HOH HOH B . # _struct_site_keywords.site_id 1 _struct_site_keywords.text bis-intercalation # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _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 # 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)' 2730 ? 1 MORE -17 ? 1 'SSA (A^2)' 8160 ? # _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 2011-09-21 2 'Structure model' 1 1 2013-06-19 3 'Structure model' 1 2 2023-11-01 # _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' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 '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' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_initial_refinement_model 5 3 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 4 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _phasing.method MR # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 AMoRE . ? program 'Jorge Navaza' ccp4@ccp4.ac.uk phasing http://www.ccp4.ac.uk/ Fortran_77 ? 2 CNS . ? package 'Axel T. Brunger' axel.brunger@yale.edu refinement http://cns-online.org/ Fortran_77 ? 3 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 4 CrystalClear . ? ? ? ? 'data reduction' ? ? ? 5 CrystalClear . ? ? ? ? 'data scaling' ? ? ? # 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 ? ? 1.523 1.607 -0.084 0.012 N 2 1 P B G 22 ? ? OP3 B G 22 ? ? 1.520 1.607 -0.087 0.012 N # 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 JS6 C11 C N S 114 JS6 O11 O N N 115 JS6 C12 C N R 116 JS6 N12 N N N 117 JS6 C13 C N S 118 JS6 C14 C N R 119 JS6 C15 C N N 120 JS6 C16 C Y N 121 JS6 C21 C N R 122 JS6 N21 N N N 123 JS6 C22 C N N 124 JS6 C23 C N R 125 JS6 O23 O N N 126 JS6 C24 C N R 127 JS6 N24 N N N 128 JS6 C25 C N N 129 JS6 N25 N N N 130 JS6 C26 C Y N 131 JS6 C31 C N R 132 JS6 O31 O N N 133 JS6 C32 C N S 134 JS6 N32 N N N 135 JS6 C33 C N R 136 JS6 O33 O N N 137 JS6 C34 C N R 138 JS6 O34 O N N 139 JS6 C35 C N N 140 JS6 C36 C Y N 141 JS6 C41 C N S 142 JS6 O41 O N N 143 JS6 C42 C N R 144 JS6 C43 C N R 145 JS6 O43 O N N 146 JS6 C44 C N S 147 JS6 O44 O N N 148 JS6 C45 C N N 149 JS6 C46 C Y N 150 JS6 C51 C N R 151 JS6 O51 O N N 152 JS6 C52 C N R 153 JS6 O52 O N N 154 JS6 C53 C N N 155 JS6 O53 O N N 156 JS6 C54 C N S 157 JS6 O54 O N N 158 JS6 C56 C Y N 159 JS6 C61 C N N 160 JS6 O61 O N N 161 JS6 C62 C N S 162 JS6 O62 O N N 163 JS6 C64 C N N 164 JS6 N64 N N N 165 JS6 C66 C Y N 166 JS6 H11 H N N 167 JS6 H12 H N N 168 JS6 HN12 H N N 169 JS6 HN1A H N N 170 JS6 H13 H N N 171 JS6 H14 H N N 172 JS6 H15 H N N 173 JS6 H15A H N N 174 JS6 H21 H N N 175 JS6 HN21 H N N 176 JS6 HN2A H N N 177 JS6 H22 H N N 178 JS6 H22A H N N 179 JS6 H23 H N N 180 JS6 H24 H N N 181 JS6 HN24 H N N 182 JS6 HN2B H N N 183 JS6 H25 H N N 184 JS6 H25A H N N 185 JS6 HN25 H N N 186 JS6 H26 H N N 187 JS6 H31 H N N 188 JS6 HO31 H N N 189 JS6 H32 H N N 190 JS6 HN32 H N N 191 JS6 HN3A H N N 192 JS6 H33 H N N 193 JS6 H34 H N N 194 JS6 HO34 H N N 195 JS6 H35 H N N 196 JS6 H35A H N N 197 JS6 H36 H N N 198 JS6 H41 H N N 199 JS6 HO41 H N N 200 JS6 H42 H N N 201 JS6 H43 H N N 202 JS6 H44 H N N 203 JS6 HO44 H N N 204 JS6 H45 H N N 205 JS6 H45A H N N 206 JS6 H46 H N N 207 JS6 H51 H N N 208 JS6 H52 H N N 209 JS6 H53 H N N 210 JS6 H53A H N N 211 JS6 HO53 H N N 212 JS6 H54 H N N 213 JS6 H56 H N N 214 JS6 H61 H N N 215 JS6 H61A H N N 216 JS6 HO61 H N N 217 JS6 H62 H N N 218 JS6 HO62 H N N 219 JS6 H64 H N N 220 JS6 H64A H N N 221 JS6 HN64 H N N 222 JS6 HN6A H N N 223 JS6 H66 H N N 224 U OP3 O N N 225 U P P N N 226 U OP1 O N N 227 U OP2 O N N 228 U "O5'" O N N 229 U "C5'" C N N 230 U "C4'" C N R 231 U "O4'" O N N 232 U "C3'" C N S 233 U "O3'" O N N 234 U "C2'" C N R 235 U "O2'" O N N 236 U "C1'" C N R 237 U N1 N N N 238 U C2 C N N 239 U O2 O N N 240 U N3 N N N 241 U C4 C N N 242 U O4 O N N 243 U C5 C N N 244 U C6 C N N 245 U HOP3 H N N 246 U HOP2 H N N 247 U "H5'" H N N 248 U "H5''" H N N 249 U "H4'" H N N 250 U "H3'" H N N 251 U "HO3'" H N N 252 U "H2'" H N N 253 U "HO2'" H N N 254 U "H1'" H N N 255 U H3 H N N 256 U H5 H N N 257 U H6 H N N 258 # 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 JS6 C11 O11 sing N N 118 JS6 C11 C21 sing N N 119 JS6 C11 O51 sing N N 120 JS6 O11 C42 sing N N 121 JS6 C12 N12 sing N N 122 JS6 C12 C22 sing N N 123 JS6 C12 C62 sing N N 124 JS6 C13 C23 sing N N 125 JS6 C13 O43 sing N N 126 JS6 C13 O52 sing N N 127 JS6 C14 C24 sing N N 128 JS6 C14 O33 sing N N 129 JS6 C14 O54 sing N N 130 JS6 C15 O23 sing N N 131 JS6 C15 C25 sing N N 132 JS6 C16 C26 doub Y N 133 JS6 C16 C45 sing N N 134 JS6 C16 C66 sing Y N 135 JS6 C21 N21 sing N N 136 JS6 C21 C31 sing N N 137 JS6 C22 C32 sing N N 138 JS6 C23 O23 sing N N 139 JS6 C23 C33 sing N N 140 JS6 C24 N24 sing N N 141 JS6 C24 C34 sing N N 142 JS6 C25 N25 sing N N 143 JS6 N25 C35 sing N N 144 JS6 C26 C36 sing Y N 145 JS6 C31 O31 sing N N 146 JS6 C31 C41 sing N N 147 JS6 C32 N32 sing N N 148 JS6 C32 C42 sing N N 149 JS6 C33 O33 sing N N 150 JS6 C33 C43 sing N N 151 JS6 C34 O34 sing N N 152 JS6 C34 C44 sing N N 153 JS6 C35 C45 sing N N 154 JS6 C36 C46 doub Y N 155 JS6 C41 O41 sing N N 156 JS6 C41 C51 sing N N 157 JS6 C42 C52 sing N N 158 JS6 C43 O43 sing N N 159 JS6 C43 C53 sing N N 160 JS6 C44 O44 sing N N 161 JS6 C44 C54 sing N N 162 JS6 C46 C56 sing Y N 163 JS6 C51 O51 sing N N 164 JS6 C51 C61 sing N N 165 JS6 C52 O52 sing N N 166 JS6 C52 C62 sing N N 167 JS6 C53 O53 sing N N 168 JS6 C54 O54 sing N N 169 JS6 C54 C64 sing N N 170 JS6 C56 C66 doub Y N 171 JS6 C61 O61 sing N N 172 JS6 C62 O62 sing N N 173 JS6 C64 N64 sing N N 174 JS6 C11 H11 sing N N 175 JS6 C12 H12 sing N N 176 JS6 N12 HN12 sing N N 177 JS6 N12 HN1A sing N N 178 JS6 C13 H13 sing N N 179 JS6 C14 H14 sing N N 180 JS6 C15 H15 sing N N 181 JS6 C15 H15A sing N N 182 JS6 C21 H21 sing N N 183 JS6 N21 HN21 sing N N 184 JS6 N21 HN2A sing N N 185 JS6 C22 H22 sing N N 186 JS6 C22 H22A sing N N 187 JS6 C23 H23 sing N N 188 JS6 C24 H24 sing N N 189 JS6 N24 HN24 sing N N 190 JS6 N24 HN2B sing N N 191 JS6 C25 H25 sing N N 192 JS6 C25 H25A sing N N 193 JS6 N25 HN25 sing N N 194 JS6 C26 H26 sing N N 195 JS6 C31 H31 sing N N 196 JS6 O31 HO31 sing N N 197 JS6 C32 H32 sing N N 198 JS6 N32 HN32 sing N N 199 JS6 N32 HN3A sing N N 200 JS6 C33 H33 sing N N 201 JS6 C34 H34 sing N N 202 JS6 O34 HO34 sing N N 203 JS6 C35 H35 sing N N 204 JS6 C35 H35A sing N N 205 JS6 C36 H36 sing N N 206 JS6 C41 H41 sing N N 207 JS6 O41 HO41 sing N N 208 JS6 C42 H42 sing N N 209 JS6 C43 H43 sing N N 210 JS6 C44 H44 sing N N 211 JS6 O44 HO44 sing N N 212 JS6 C45 H45 sing N N 213 JS6 C45 H45A sing N N 214 JS6 C46 H46 sing N N 215 JS6 C51 H51 sing N N 216 JS6 C52 H52 sing N N 217 JS6 C53 H53 sing N N 218 JS6 C53 H53A sing N N 219 JS6 O53 HO53 sing N N 220 JS6 C54 H54 sing N N 221 JS6 C56 H56 sing N N 222 JS6 C61 H61 sing N N 223 JS6 C61 H61A sing N N 224 JS6 O61 HO61 sing N N 225 JS6 C62 H62 sing N N 226 JS6 O62 HO62 sing N N 227 JS6 C64 H64 sing N N 228 JS6 C64 H64A sing N N 229 JS6 N64 HN64 sing N N 230 JS6 N64 HN6A sing N N 231 JS6 C66 H66 sing N N 232 U OP3 P sing N N 233 U OP3 HOP3 sing N N 234 U P OP1 doub N N 235 U P OP2 sing N N 236 U P "O5'" sing N N 237 U OP2 HOP2 sing N N 238 U "O5'" "C5'" sing N N 239 U "C5'" "C4'" sing N N 240 U "C5'" "H5'" sing N N 241 U "C5'" "H5''" sing N N 242 U "C4'" "O4'" sing N N 243 U "C4'" "C3'" sing N N 244 U "C4'" "H4'" sing N N 245 U "O4'" "C1'" sing N N 246 U "C3'" "O3'" sing N N 247 U "C3'" "C2'" sing N N 248 U "C3'" "H3'" sing N N 249 U "O3'" "HO3'" sing N N 250 U "C2'" "O2'" sing N N 251 U "C2'" "C1'" sing N N 252 U "C2'" "H2'" sing N N 253 U "O2'" "HO2'" sing N N 254 U "C1'" N1 sing N N 255 U "C1'" "H1'" sing N N 256 U N1 C2 sing N N 257 U N1 C6 sing N N 258 U C2 O2 doub N N 259 U C2 N3 sing N N 260 U N3 C4 sing N N 261 U N3 H3 sing N N 262 U C4 O4 doub N N 263 U C4 C5 sing N N 264 U C5 C6 doub N N 265 U C5 H5 sing N N 266 U C6 H6 sing N N 267 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3S4P 'double helix' 3S4P 'a-form double helix' 3S4P 'mismatched base pair' 3S4P '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 0.008 -0.427 -0.375 -8.902 -3.978 -0.532 1 A_G1:C42_B A 1 ? B 42 ? 19 1 1 A C 2 1_555 B G 20 1_555 -0.209 -0.371 -0.086 1.895 -3.862 0.742 2 A_C2:G41_B A 2 ? B 41 ? 19 1 1 A G 3 1_555 B C 19 1_555 0.186 -0.242 -0.025 -4.700 -10.441 4.483 3 A_G3:C40_B A 3 ? B 40 ? 19 1 1 A U 4 1_555 B U 18 1_555 1.699 -1.308 0.274 -1.243 -10.962 11.987 4 A_U4:U39_B A 4 ? B 39 ? 16 1 1 A C 5 1_555 B G 17 1_555 0.363 -0.397 -0.094 -3.553 -12.572 1.671 5 A_C5:G38_B A 5 ? B 38 ? 19 1 1 A C 7 1_555 B G 14 1_555 0.408 0.034 0.103 10.640 -21.179 3.894 6 A_C7:G35_B A 7 ? B 35 ? 19 1 1 A A 8 1_555 B U 13 1_555 0.398 -0.358 0.210 -1.312 -11.162 1.328 7 A_A8:U34_B A 8 ? B 34 ? 20 1 1 A C 9 1_555 B G 12 1_555 0.277 -0.413 0.252 1.312 -14.895 -4.654 8 A_C9:G33_B A 9 ? B 33 ? 19 1 1 A C 10 1_555 B G 11 1_555 0.014 -0.160 0.372 0.094 -13.594 -0.318 9 A_C10:G32_B A 10 ? B 32 ? 19 1 1 A G 11 1_555 B C 10 1_555 -0.001 -0.233 -0.307 -4.520 -12.442 -1.717 10 A_G11:C31_B A 11 ? B 31 ? 19 1 1 A G 12 1_555 B C 9 1_555 -0.214 -0.106 -0.079 -9.500 -17.825 2.657 11 A_G12:C30_B A 12 ? B 30 ? 19 1 1 A U 13 1_555 B A 8 1_555 -0.317 -0.244 0.111 1.221 -14.464 3.717 12 A_U13:A29_B A 13 ? B 29 ? 20 1 1 A G 14 1_555 B C 7 1_555 -0.088 -0.127 -0.215 -9.007 -18.182 3.530 13 A_G14:C28_B A 14 ? B 28 ? 19 1 1 A G 17 1_555 B C 5 1_555 -0.562 -0.166 -0.257 0.858 -6.605 0.087 14 A_G17:C26_B A 17 ? B 26 ? 19 1 1 A U 18 1_555 B U 4 1_555 -2.123 -1.607 0.314 -4.680 -6.831 7.303 15 A_U18:U25_B A 18 ? B 25 ? 16 1 1 A C 19 1_555 B G 3 1_555 -0.651 -0.339 -0.030 4.258 -9.855 1.302 16 A_C19:G24_B A 19 ? B 24 ? 19 1 1 A G 20 1_555 B C 2 1_555 0.266 -0.282 -0.040 -2.137 -6.156 1.522 17 A_G20:C23_B A 20 ? B 23 ? 19 1 1 A C 21 1_555 B G 1 1_555 0.482 -0.459 0.132 -3.057 -3.364 -1.043 18 A_C21:G22_B A 21 ? B 22 ? 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 -0.540 -1.998 3.072 -3.825 1.463 24.098 -5.145 0.164 2.995 3.472 9.077 24.439 1 AA_G1C2:G41C42_BB A 1 ? B 42 ? A 2 ? B 41 ? 1 A C 2 1_555 B G 20 1_555 A G 3 1_555 B C 19 1_555 0.280 -1.958 3.423 -0.684 9.947 34.201 -4.602 -0.555 2.758 16.485 1.134 35.583 2 AA_C2G3:C40G41_BB A 2 ? B 41 ? A 3 ? B 40 ? 1 A G 3 1_555 B C 19 1_555 A U 4 1_555 B U 18 1_555 0.764 -1.201 3.214 -0.096 -0.336 39.517 -1.738 -1.141 3.222 -0.497 0.143 39.518 3 AA_G3U4:U39C40_BB A 3 ? B 40 ? A 4 ? B 39 ? 1 A U 4 1_555 B U 18 1_555 A C 5 1_555 B G 17 1_555 -0.666 -2.556 3.162 3.704 4.080 27.400 -6.164 2.169 2.650 8.505 -7.720 27.938 4 AA_U4C5:G38U39_BB A 4 ? B 39 ? A 5 ? B 38 ? 1 A C 5 1_555 B G 17 1_555 A C 7 1_555 B G 14 1_555 1.901 -3.343 6.132 -9.786 17.987 77.746 -3.442 -1.936 5.160 14.103 7.673 79.983 5 AA_C5C7:G35G38_BB A 5 ? B 38 ? A 7 ? B 35 ? 1 A C 7 1_555 B G 14 1_555 A A 8 1_555 B U 13 1_555 -0.228 -1.411 3.237 -1.596 15.923 34.839 -3.967 0.166 2.399 25.026 2.509 38.235 6 AA_C7A8:U34G35_BB A 7 ? B 35 ? A 8 ? B 34 ? 1 A A 8 1_555 B U 13 1_555 A C 9 1_555 B G 12 1_555 -0.604 -1.430 3.160 -0.898 4.818 30.297 -3.589 0.977 2.919 9.142 1.704 30.682 7 AA_A8C9:G33U34_BB A 8 ? B 34 ? A 9 ? B 33 ? 1 A C 9 1_555 B G 12 1_555 A C 10 1_555 B G 11 1_555 0.400 -1.356 3.186 0.174 3.938 32.894 -3.009 -0.674 3.010 6.923 -0.306 33.123 8 AA_C9C10:G32G33_BB A 9 ? B 33 ? A 10 ? B 32 ? 1 A C 10 1_555 B G 11 1_555 A G 11 1_555 B C 10 1_555 -0.046 -1.748 3.329 4.642 9.808 27.522 -5.362 1.006 2.530 19.674 -9.312 29.545 9 AA_C10G11:C31G32_BB A 10 ? B 32 ? A 11 ? B 31 ? 1 A G 11 1_555 B C 10 1_555 A G 12 1_555 B C 9 1_555 0.667 -1.807 3.297 -1.018 6.997 32.418 -4.281 -1.330 2.834 12.350 1.798 33.160 10 AA_G11G12:C30C31_BB A 11 ? B 31 ? A 12 ? B 30 ? 1 A G 12 1_555 B C 9 1_555 A U 13 1_555 B A 8 1_555 -0.100 -1.271 2.989 0.010 1.179 30.508 -2.626 0.193 2.939 2.240 -0.019 30.530 11 AA_G12U13:A29C30_BB A 12 ? B 30 ? A 13 ? B 29 ? 1 A U 13 1_555 B A 8 1_555 A G 14 1_555 B C 7 1_555 -0.214 -1.391 3.366 0.946 13.572 35.073 -3.854 0.450 2.659 21.546 -1.502 37.542 12 AA_U13G14:C28A29_BB A 13 ? B 29 ? A 14 ? B 28 ? 1 A G 14 1_555 B C 7 1_555 A G 17 1_555 B C 5 1_555 -1.641 -3.650 6.120 10.416 24.993 74.583 -4.060 1.787 4.675 20.006 -8.337 78.669 13 AA_G14G17:C26C28_BB A 14 ? B 28 ? A 17 ? B 26 ? 1 A G 17 1_555 B C 5 1_555 A U 18 1_555 B U 4 1_555 0.372 -2.727 3.399 -4.648 -1.114 28.230 -5.252 -1.853 3.398 -2.263 9.443 28.624 14 AA_G17U18:U25C26_BB A 17 ? B 26 ? A 18 ? B 25 ? 1 A U 18 1_555 B U 4 1_555 A C 19 1_555 B G 3 1_555 -0.530 -1.459 3.023 0.300 -1.166 36.484 -2.179 0.885 3.062 -1.862 -0.478 36.503 15 AA_U18C19:G24U25_BB A 18 ? B 25 ? A 19 ? B 24 ? 1 A C 19 1_555 B G 3 1_555 A G 20 1_555 B C 2 1_555 -0.064 -1.394 3.267 -0.948 11.550 36.783 -3.459 -0.013 2.724 17.770 1.459 38.505 16 AA_C19G20:C23G24_BB A 19 ? B 24 ? A 20 ? B 23 ? 1 A G 20 1_555 B C 2 1_555 A C 21 1_555 B G 1 1_555 0.466 -2.104 3.352 -0.663 -0.834 29.008 -4.008 -1.079 3.398 -1.664 1.322 29.027 17 AA_G20C21:G22C23_BB A 20 ? B 23 ? A 21 ? B 22 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 ;(1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-2-O-{2-[(2-phenylethyl)amino]ethyl}-beta-D-ribofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-glucopyranoside ; JS6 3 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 1J7T _pdbx_initial_refinement_model.details ? #