data_3IFI # _entry.id 3IFI # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.378 _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 3IFI pdb_00003ifi 10.2210/pdb3ifi/pdb NDB NA0096 ? ? RCSB RCSB054346 ? ? WWPDB D_1000054346 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1DNS . unspecified PDB 3IFF . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3IFI _pdbx_database_status.recvd_initial_deposition_date 2009-07-24 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _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_ _audit_author.name _audit_author.pdbx_ordinal 'Sheng, J.' 1 'Gan, J.' 2 'Salon, J.' 3 'Huang, Z.' 4 # _citation.id primary _citation.title ;Synthesis and crystal structure of 2'-se-modified guanosine containing DNA. ; _citation.journal_abbrev J.Org.Chem. _citation.journal_volume 75 _citation.page_first 637 _citation.page_last 641 _citation.year 2010 _citation.journal_id_ASTM JOCEAH _citation.country US _citation.journal_id_ISSN 0022-3263 _citation.journal_id_CSD 0035 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 20047333 _citation.pdbx_database_id_DOI 10.1021/jo902190c # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Salon, J.' 1 ? primary 'Sheng, J.' 2 ? primary 'Gan, J.' 3 ? primary 'Huang, Z.' 4 ? # _cell.entry_id 3IFI _cell.length_a 41.641 _cell.length_b 41.641 _cell.length_c 24.112 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3IFI _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _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 ;DNA (5'-D(*GP*TP*(XUG)P*TP*AP*CP*AP*C)-3') ; 2519.604 1 ? ? ? 'selenium modified DNA 8mer' 2 water nat water 18.015 46 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DG)(DT)(XUG)(DT)(DA)(DC)(DA)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GTGTACAC _entity_poly.pdbx_strand_id A _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 DG n 1 2 DT n 1 3 XUG n 1 4 DT n 1 5 DA n 1 6 DC n 1 7 DA n 1 8 DC 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 'Synthesized by solid phase synthesis' # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3IFI _struct_ref.pdbx_db_accession 3IFI _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code GTGTACAC _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3IFI _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 8 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 3IFI _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 8 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 8 # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 XUG 'DNA linking' n ;2'-SE-METHYL-2'-SELENOGUANOSINE 5'-(DIHYDROGEN PHOSPHATE) ; "(D)-2'-METHYLSELENYL-2'-DEOXYGUANOSINE-5'-PHOSPHATE" 'C11 H16 N5 O7 P Se' 440.208 # _exptl.entry_id 3IFI _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.07 _exptl_crystal.density_percent_sol 40.70 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details ;10% v / v MPD, 40 mM Na Cacodylate pH 6.0, 12 mM Spermine tetra-HCl, 80 mM Strontium Chloride, VAPOR DIFFUSION, HANGING DROP, temperature 293K ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 99 _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 2009-03-25 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(lll)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9795 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X12C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X12C _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9795 # _reflns.entry_id 3IFI _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50 _reflns.d_resolution_high 1.2 _reflns.number_obs 6376 _reflns.number_all 7069 _reflns.percent_possible_obs 90.2 _reflns.pdbx_Rmerge_I_obs 0.065 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 52.8 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 13 _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 # _reflns_shell.d_res_high 1.20 _reflns_shell.d_res_low 1.22 _reflns_shell.percent_possible_all 47.1 _reflns_shell.Rmerge_I_obs 0.32 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.16 _reflns_shell.pdbx_redundancy 3.2 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 160 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3IFI _refine.ls_number_reflns_obs 5901 _refine.ls_number_reflns_all 6693 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F . _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 29.45 _refine.ls_d_res_high 1.20 _refine.ls_percent_reflns_obs 88.17 _refine.ls_R_factor_obs 0.203 _refine.ls_R_factor_all 0.203 _refine.ls_R_factor_R_work 0.202 _refine.ls_R_factor_R_free 0.221 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.8 _refine.ls_number_reflns_R_free 295 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.951 _refine.correlation_coeff_Fo_to_Fc_free 0.948 _refine.B_iso_mean 13.545 _refine.aniso_B[1][1] 0.05 _refine.aniso_B[2][2] 0.05 _refine.aniso_B[3][3] -0.10 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model 1DNS _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model Isotropic _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.052 _refine.pdbx_overall_ESU_R_Free 0.053 _refine.overall_SU_ML 0.029 _refine.overall_SU_B 1.333 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 3IFI _refine_analyze.Luzzati_coordinate_error_obs 0.052 _refine_analyze.Luzzati_sigma_a_obs 0.029 _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free 0.053 _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 163 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 46 _refine_hist.number_atoms_total 209 _refine_hist.d_res_high 1.20 _refine_hist.d_res_low 29.45 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.004 0.021 ? 182 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.144 3.000 ? 279 'X-RAY DIFFRACTION' ? r_chiral_restr 0.058 0.200 ? 31 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.008 0.020 ? 84 'X-RAY DIFFRACTION' ? r_nbd_refined 0.127 0.200 ? 54 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.264 0.200 ? 110 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.095 0.200 ? 24 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.183 0.200 ? 22 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.124 0.200 ? 24 'X-RAY DIFFRACTION' ? r_scbond_it 0.689 3.000 ? 264 'X-RAY DIFFRACTION' ? r_scangle_it 1.062 4.500 ? 279 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.200 _refine_ls_shell.d_res_low 1.231 _refine_ls_shell.number_reflns_R_work 205 _refine_ls_shell.R_factor_R_work 0.389 _refine_ls_shell.percent_reflns_obs 42.15 _refine_ls_shell.R_factor_R_free 0.304 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 7 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3IFI _struct.title ;2'-SeMe-dG modified octamer DNA ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3IFI _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Selenium, nucleic acid, guanosine, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # _struct_biol.id 1 _struct_biol.details 'The DNA was synthesized by solid phase synthesis and purified by HPLC' # 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 DT 2 "O3'" ? ? ? 1_555 A XUG 3 P ? ? A DT 2 A XUG 3 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale2 covale both ? A XUG 3 "O3'" ? ? ? 1_555 A DT 4 P ? ? A XUG 3 A DT 4 1_555 ? ? ? ? ? ? ? 1.600 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 1 A DC 8 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 1 A DC 8 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 1 A DC 8 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 2 N3 ? ? ? 1_555 A DA 7 N1 ? ? A DT 2 A DA 7 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DT 2 O4 ? ? ? 1_555 A DA 7 N6 ? ? A DT 2 A DA 7 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A XUG 3 N1 ? ? ? 1_555 A DC 6 N3 ? ? A XUG 3 A DC 6 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A XUG 3 N2 ? ? ? 1_555 A DC 6 O2 ? ? A XUG 3 A DC 6 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A XUG 3 O6 ? ? ? 1_555 A DC 6 N4 ? ? A XUG 3 A DC 6 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 A DA 5 N1 ? ? A DT 4 A DA 5 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 A DA 5 N6 ? ? A DT 4 A DA 5 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N1 ? ? ? 1_555 A DT 4 N3 ? ? A DA 5 A DT 4 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N6 ? ? ? 1_555 A DT 4 O4 ? ? A DA 5 A DT 4 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 6 N3 ? ? ? 1_555 A XUG 3 N1 ? ? A DC 6 A XUG 3 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N4 ? ? ? 1_555 A XUG 3 O6 ? ? A DC 6 A XUG 3 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 O2 ? ? ? 1_555 A XUG 3 N2 ? ? A DC 6 A XUG 3 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 7 N1 ? ? ? 1_555 A DT 2 N3 ? ? A DA 7 A DT 2 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N6 ? ? ? 1_555 A DT 2 O4 ? ? A DA 7 A DT 2 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 1 N1 ? ? A DC 8 A DG 1 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 1 O6 ? ? A DC 8 A DG 1 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 1 N2 ? ? A DC 8 A DG 1 7_644 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _database_PDB_matrix.entry_id 3IFI _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 3IFI _atom_sites.fract_transf_matrix[1][1] 0.024015 _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] 0.024015 _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] 0.041473 _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 SE # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num ATOM 1 O "O5'" . DG A 1 1 ? -6.852 -40.059 -17.333 1.00 14.60 ? 1 DG A "O5'" 1 ATOM 2 C "C5'" . DG A 1 1 ? -6.555 -38.685 -17.111 1.00 13.98 ? 1 DG A "C5'" 1 ATOM 3 C "C4'" . DG A 1 1 ? -7.680 -37.979 -16.377 1.00 13.05 ? 1 DG A "C4'" 1 ATOM 4 O "O4'" . DG A 1 1 ? -8.880 -38.012 -17.190 1.00 12.35 ? 1 DG A "O4'" 1 ATOM 5 C "C3'" . DG A 1 1 ? -8.089 -38.602 -15.047 1.00 12.53 ? 1 DG A "C3'" 1 ATOM 6 O "O3'" . DG A 1 1 ? -7.252 -38.139 -13.979 1.00 12.61 ? 1 DG A "O3'" 1 ATOM 7 C "C2'" . DG A 1 1 ? -9.524 -38.107 -14.914 1.00 12.34 ? 1 DG A "C2'" 1 ATOM 8 C "C1'" . DG A 1 1 ? -10.009 -38.195 -16.359 1.00 12.01 ? 1 DG A "C1'" 1 ATOM 9 N N9 . DG A 1 1 ? -10.613 -39.491 -16.650 1.00 11.70 ? 1 DG A N9 1 ATOM 10 C C8 . DG A 1 1 ? -10.061 -40.517 -17.378 1.00 11.93 ? 1 DG A C8 1 ATOM 11 N N7 . DG A 1 1 ? -10.838 -41.559 -17.466 1.00 11.64 ? 1 DG A N7 1 ATOM 12 C C5 . DG A 1 1 ? -11.971 -41.215 -16.744 1.00 11.34 ? 1 DG A C5 1 ATOM 13 C C6 . DG A 1 1 ? -13.159 -41.945 -16.481 1.00 11.67 ? 1 DG A C6 1 ATOM 14 O O6 . DG A 1 1 ? -13.452 -43.095 -16.850 1.00 11.57 ? 1 DG A O6 1 ATOM 15 N N1 . DG A 1 1 ? -14.069 -41.218 -15.707 1.00 11.38 ? 1 DG A N1 1 ATOM 16 C C2 . DG A 1 1 ? -13.858 -39.938 -15.240 1.00 11.49 ? 1 DG A C2 1 ATOM 17 N N2 . DG A 1 1 ? -14.848 -39.397 -14.503 1.00 11.97 ? 1 DG A N2 1 ATOM 18 N N3 . DG A 1 1 ? -12.745 -39.248 -15.477 1.00 10.81 ? 1 DG A N3 1 ATOM 19 C C4 . DG A 1 1 ? -11.849 -39.937 -16.233 1.00 11.15 ? 1 DG A C4 1 ATOM 20 P P . DT A 1 2 ? -6.849 -39.094 -12.757 1.00 12.55 ? 2 DT A P 1 ATOM 21 O OP1 . DT A 1 2 ? -5.938 -38.306 -11.904 1.00 13.67 ? 2 DT A OP1 1 ATOM 22 O OP2 . DT A 1 2 ? -6.396 -40.398 -13.292 1.00 12.75 ? 2 DT A OP2 1 ATOM 23 O "O5'" . DT A 1 2 ? -8.213 -39.349 -11.969 1.00 12.09 ? 2 DT A "O5'" 1 ATOM 24 C "C5'" . DT A 1 2 ? -8.824 -38.312 -11.219 1.00 12.14 ? 2 DT A "C5'" 1 ATOM 25 C "C4'" . DT A 1 2 ? -10.207 -38.722 -10.753 1.00 11.81 ? 2 DT A "C4'" 1 ATOM 26 O "O4'" . DT A 1 2 ? -11.027 -39.079 -11.892 1.00 11.12 ? 2 DT A "O4'" 1 ATOM 27 C "C3'" . DT A 1 2 ? -10.232 -39.949 -9.865 1.00 11.77 ? 2 DT A "C3'" 1 ATOM 28 O "O3'" . DT A 1 2 ? -9.960 -39.504 -8.542 1.00 12.10 ? 2 DT A "O3'" 1 ATOM 29 C "C2'" . DT A 1 2 ? -11.677 -40.397 -10.043 1.00 11.22 ? 2 DT A "C2'" 1 ATOM 30 C "C1'" . DT A 1 2 ? -11.925 -40.103 -11.521 1.00 10.82 ? 2 DT A "C1'" 1 ATOM 31 N N1 . DT A 1 2 ? -11.748 -41.297 -12.411 1.00 10.12 ? 2 DT A N1 1 ATOM 32 C C2 . DT A 1 2 ? -12.810 -42.175 -12.530 1.00 10.04 ? 2 DT A C2 1 ATOM 33 O O2 . DT A 1 2 ? -13.873 -42.023 -11.958 1.00 10.84 ? 2 DT A O2 1 ATOM 34 N N3 . DT A 1 2 ? -12.576 -43.241 -13.358 1.00 10.43 ? 2 DT A N3 1 ATOM 35 C C4 . DT A 1 2 ? -11.414 -43.533 -14.054 1.00 10.86 ? 2 DT A C4 1 ATOM 36 O O4 . DT A 1 2 ? -11.335 -44.535 -14.766 1.00 11.15 ? 2 DT A O4 1 ATOM 37 C C5 . DT A 1 2 ? -10.336 -42.582 -13.879 1.00 11.05 ? 2 DT A C5 1 ATOM 38 C C7 . DT A 1 2 ? -9.027 -42.789 -14.592 1.00 11.33 ? 2 DT A C7 1 ATOM 39 C C6 . DT A 1 2 ? -10.551 -41.526 -13.078 1.00 10.48 ? 2 DT A C6 1 HETATM 40 O O6 . XUG A 1 3 ? -11.666 -47.691 -13.313 1.00 10.43 ? 3 XUG A O6 1 HETATM 41 C C6 . XUG A 1 3 ? -12.438 -47.292 -12.421 1.00 9.03 ? 3 XUG A C6 1 HETATM 42 C C5 . XUG A 1 3 ? -12.248 -46.202 -11.527 1.00 9.01 ? 3 XUG A C5 1 HETATM 43 N N7 . XUG A 1 3 ? -11.186 -45.312 -11.390 1.00 9.60 ? 3 XUG A N7 1 HETATM 44 C C8 . XUG A 1 3 ? -11.552 -44.513 -10.422 1.00 9.70 ? 3 XUG A C8 1 HETATM 45 N N1 . XUG A 1 3 ? -13.664 -47.937 -12.230 1.00 9.56 ? 3 XUG A N1 1 HETATM 46 C C2 . XUG A 1 3 ? -14.597 -47.569 -11.282 1.00 8.86 ? 3 XUG A C2 1 HETATM 47 N N2 . XUG A 1 3 ? -15.724 -48.295 -11.226 1.00 9.08 ? 3 XUG A N2 1 HETATM 48 N N3 . XUG A 1 3 ? -14.433 -46.548 -10.444 1.00 9.27 ? 3 XUG A N3 1 HETATM 49 C C4 . XUG A 1 3 ? -13.245 -45.910 -10.620 1.00 9.20 ? 3 XUG A C4 1 HETATM 50 N N9 . XUG A 1 3 ? -12.792 -44.820 -9.903 1.00 9.27 ? 3 XUG A N9 1 HETATM 51 C "C1'" . XUG A 1 3 ? -13.514 -44.113 -8.843 1.00 10.10 ? 3 XUG A "C1'" 1 HETATM 52 O "O4'" . XUG A 1 3 ? -12.759 -42.988 -8.421 1.00 10.00 ? 3 XUG A "O4'" 1 HETATM 53 C "C2'" . XUG A 1 3 ? -13.871 -44.929 -7.609 1.00 10.02 ? 3 XUG A "C2'" 1 HETATM 54 SE "SE2'" . XUG A 1 3 ? -15.555 -44.253 -6.845 0.70 13.01 ? 3 XUG A "SE2'" 1 HETATM 55 C "CA'" . XUG A 1 3 ? -16.887 -44.436 -8.271 1.00 14.32 ? 3 XUG A "CA'" 1 HETATM 56 C "C3'" . XUG A 1 3 ? -12.674 -44.608 -6.727 1.00 10.50 ? 3 XUG A "C3'" 1 HETATM 57 O "O3'" . XUG A 1 3 ? -12.968 -44.778 -5.352 1.00 10.92 ? 3 XUG A "O3'" 1 HETATM 58 C "C4'" . XUG A 1 3 ? -12.407 -43.141 -7.024 1.00 10.41 ? 3 XUG A "C4'" 1 HETATM 59 C "C5'" . XUG A 1 3 ? -10.974 -42.702 -6.825 1.00 11.00 ? 3 XUG A "C5'" 1 HETATM 60 O "O5'" . XUG A 1 3 ? -10.934 -41.321 -7.088 1.00 12.06 ? 3 XUG A "O5'" 1 HETATM 61 P P . XUG A 1 3 ? -9.583 -40.507 -7.353 1.00 13.31 ? 3 XUG A P 1 HETATM 62 O OP1 . XUG A 1 3 ? -9.335 -39.656 -6.169 1.00 13.58 ? 3 XUG A OP1 1 HETATM 63 O OP2 . XUG A 1 3 ? -8.529 -41.431 -7.812 1.00 12.98 ? 3 XUG A OP2 1 ATOM 64 P P . DT A 1 4 ? -12.565 -46.141 -4.617 1.00 12.14 ? 4 DT A P 1 ATOM 65 O OP1 . DT A 1 4 ? -12.939 -45.977 -3.197 1.00 13.00 ? 4 DT A OP1 1 ATOM 66 O OP2 . DT A 1 4 ? -11.161 -46.450 -4.941 1.00 13.75 ? 4 DT A OP2 1 ATOM 67 O "O5'" . DT A 1 4 ? -13.488 -47.265 -5.280 1.00 12.60 ? 4 DT A "O5'" 1 ATOM 68 C "C5'" . DT A 1 4 ? -14.867 -47.420 -4.958 1.00 12.46 ? 4 DT A "C5'" 1 ATOM 69 C "C4'" . DT A 1 4 ? -15.426 -48.680 -5.591 1.00 11.77 ? 4 DT A "C4'" 1 ATOM 70 O "O4'" . DT A 1 4 ? -15.446 -48.527 -7.034 1.00 11.50 ? 4 DT A "O4'" 1 ATOM 71 C "C3'" . DT A 1 4 ? -14.596 -49.934 -5.354 1.00 11.19 ? 4 DT A "C3'" 1 ATOM 72 O "O3'" . DT A 1 4 ? -14.938 -50.500 -4.106 1.00 10.59 ? 4 DT A "O3'" 1 ATOM 73 C "C2'" . DT A 1 4 ? -15.038 -50.808 -6.516 1.00 10.65 ? 4 DT A "C2'" 1 ATOM 74 C "C1'" . DT A 1 4 ? -15.120 -49.773 -7.628 1.00 11.03 ? 4 DT A "C1'" 1 ATOM 75 N N1 . DT A 1 4 ? -13.868 -49.662 -8.444 1.00 10.41 ? 4 DT A N1 1 ATOM 76 C C2 . DT A 1 4 ? -13.705 -50.554 -9.487 1.00 10.76 ? 4 DT A C2 1 ATOM 77 O O2 . DT A 1 4 ? -14.511 -51.424 -9.759 1.00 10.84 ? 4 DT A O2 1 ATOM 78 N N3 . DT A 1 4 ? -12.552 -50.402 -10.206 1.00 9.76 ? 4 DT A N3 1 ATOM 79 C C4 . DT A 1 4 ? -11.555 -49.479 -9.991 1.00 9.81 ? 4 DT A C4 1 ATOM 80 O O4 . DT A 1 4 ? -10.565 -49.429 -10.717 1.00 10.37 ? 4 DT A O4 1 ATOM 81 C C5 . DT A 1 4 ? -11.766 -48.581 -8.874 1.00 10.27 ? 4 DT A C5 1 ATOM 82 C C7 . DT A 1 4 ? -10.744 -47.537 -8.535 1.00 11.29 ? 4 DT A C7 1 ATOM 83 C C6 . DT A 1 4 ? -12.899 -48.712 -8.163 1.00 10.75 ? 4 DT A C6 1 ATOM 84 P P . DA A 1 5 ? -14.000 -51.602 -3.424 1.00 11.35 ? 5 DA A P 1 ATOM 85 O OP1 . DA A 1 5 ? -14.403 -51.688 -2.005 1.00 11.88 ? 5 DA A OP1 1 ATOM 86 O OP2 . DA A 1 5 ? -12.588 -51.335 -3.793 1.00 13.83 ? 5 DA A OP2 1 ATOM 87 O "O5'" . DA A 1 5 ? -14.471 -52.936 -4.166 1.00 10.32 ? 5 DA A "O5'" 1 ATOM 88 C "C5'" . DA A 1 5 ? -13.580 -54.021 -4.384 1.00 10.00 ? 5 DA A "C5'" 1 ATOM 89 C "C4'" . DA A 1 5 ? -14.121 -54.883 -5.511 1.00 9.86 ? 5 DA A "C4'" 1 ATOM 90 O "O4'" . DA A 1 5 ? -14.295 -54.076 -6.699 1.00 9.56 ? 5 DA A "O4'" 1 ATOM 91 C "C3'" . DA A 1 5 ? -13.214 -56.037 -5.920 1.00 9.43 ? 5 DA A "C3'" 1 ATOM 92 O "O3'" . DA A 1 5 ? -13.544 -57.194 -5.174 1.00 9.44 ? 5 DA A "O3'" 1 ATOM 93 C "C2'" . DA A 1 5 ? -13.537 -56.212 -7.396 1.00 9.47 ? 5 DA A "C2'" 1 ATOM 94 C "C1'" . DA A 1 5 ? -13.755 -54.761 -7.814 1.00 9.93 ? 5 DA A "C1'" 1 ATOM 95 N N9 . DA A 1 5 ? -12.577 -54.021 -8.272 1.00 9.32 ? 5 DA A N9 1 ATOM 96 C C8 . DA A 1 5 ? -11.954 -52.970 -7.654 1.00 9.72 ? 5 DA A C8 1 ATOM 97 N N7 . DA A 1 5 ? -10.939 -52.487 -8.327 1.00 9.25 ? 5 DA A N7 1 ATOM 98 C C5 . DA A 1 5 ? -10.904 -53.254 -9.475 1.00 9.29 ? 5 DA A C5 1 ATOM 99 C C6 . DA A 1 5 ? -10.058 -53.248 -10.607 1.00 9.89 ? 5 DA A C6 1 ATOM 100 N N6 . DA A 1 5 ? -9.046 -52.388 -10.765 1.00 10.52 ? 5 DA A N6 1 ATOM 101 N N1 . DA A 1 5 ? -10.299 -54.158 -11.571 1.00 9.37 ? 5 DA A N1 1 ATOM 102 C C2 . DA A 1 5 ? -11.302 -55.027 -11.421 1.00 9.98 ? 5 DA A C2 1 ATOM 103 N N3 . DA A 1 5 ? -12.164 -55.123 -10.406 1.00 10.38 ? 5 DA A N3 1 ATOM 104 C C4 . DA A 1 5 ? -11.906 -54.203 -9.457 1.00 9.79 ? 5 DA A C4 1 ATOM 105 P P . DC A 1 6 ? -12.387 -58.147 -4.620 1.00 10.47 ? 6 DC A P 1 ATOM 106 O OP1 . DC A 1 6 ? -13.055 -59.200 -3.825 1.00 11.58 ? 6 DC A OP1 1 ATOM 107 O OP2 . DC A 1 6 ? -11.331 -57.312 -4.006 1.00 11.61 ? 6 DC A OP2 1 ATOM 108 O "O5'" . DC A 1 6 ? -11.770 -58.812 -5.933 1.00 10.58 ? 6 DC A "O5'" 1 ATOM 109 C "C5'" . DC A 1 6 ? -12.494 -59.806 -6.646 1.00 10.76 ? 6 DC A "C5'" 1 ATOM 110 C "C4'" . DC A 1 6 ? -11.848 -60.057 -7.993 1.00 10.82 ? 6 DC A "C4'" 1 ATOM 111 O "O4'" . DC A 1 6 ? -11.882 -58.836 -8.779 1.00 10.83 ? 6 DC A "O4'" 1 ATOM 112 C "C3'" . DC A 1 6 ? -10.368 -60.406 -7.956 1.00 10.77 ? 6 DC A "C3'" 1 ATOM 113 O "O3'" . DC A 1 6 ? -10.159 -61.770 -7.598 1.00 11.14 ? 6 DC A "O3'" 1 ATOM 114 C "C2'" . DC A 1 6 ? -9.992 -60.110 -9.403 1.00 10.75 ? 6 DC A "C2'" 1 ATOM 115 C "C1'" . DC A 1 6 ? -10.735 -58.795 -9.609 1.00 10.54 ? 6 DC A "C1'" 1 ATOM 116 N N1 . DC A 1 6 ? -9.906 -57.586 -9.272 1.00 9.99 ? 6 DC A N1 1 ATOM 117 C C2 . DC A 1 6 ? -8.998 -57.130 -10.228 1.00 10.42 ? 6 DC A C2 1 ATOM 118 O O2 . DC A 1 6 ? -8.911 -57.730 -11.308 1.00 10.79 ? 6 DC A O2 1 ATOM 119 N N3 . DC A 1 6 ? -8.244 -56.035 -9.936 1.00 9.97 ? 6 DC A N3 1 ATOM 120 C C4 . DC A 1 6 ? -8.353 -55.422 -8.754 1.00 9.97 ? 6 DC A C4 1 ATOM 121 N N4 . DC A 1 6 ? -7.589 -54.347 -8.526 1.00 10.09 ? 6 DC A N4 1 ATOM 122 C C5 . DC A 1 6 ? -9.271 -55.880 -7.762 1.00 9.85 ? 6 DC A C5 1 ATOM 123 C C6 . DC A 1 6 ? -10.016 -56.949 -8.063 1.00 10.49 ? 6 DC A C6 1 ATOM 124 P P . DA A 1 7 ? -8.761 -62.269 -6.987 1.00 10.80 ? 7 DA A P 1 ATOM 125 O OP1 . DA A 1 7 ? -8.949 -63.682 -6.566 1.00 11.69 ? 7 DA A OP1 1 ATOM 126 O OP2 . DA A 1 7 ? -8.298 -61.289 -5.983 1.00 11.65 ? 7 DA A OP2 1 ATOM 127 O "O5'" . DA A 1 7 ? -7.742 -62.211 -8.215 1.00 10.21 ? 7 DA A "O5'" 1 ATOM 128 C "C5'" . DA A 1 7 ? -7.810 -63.152 -9.288 1.00 9.76 ? 7 DA A "C5'" 1 ATOM 129 C "C4'" . DA A 1 7 ? -6.677 -62.890 -10.254 1.00 9.06 ? 7 DA A "C4'" 1 ATOM 130 O "O4'" . DA A 1 7 ? -6.851 -61.574 -10.836 1.00 9.42 ? 7 DA A "O4'" 1 ATOM 131 C "C3'" . DA A 1 7 ? -5.290 -62.862 -9.632 1.00 9.00 ? 7 DA A "C3'" 1 ATOM 132 O "O3'" . DA A 1 7 ? -4.791 -64.185 -9.548 1.00 10.11 ? 7 DA A "O3'" 1 ATOM 133 C "C2'" . DA A 1 7 ? -4.522 -62.035 -10.651 1.00 8.62 ? 7 DA A "C2'" 1 ATOM 134 C "C1'" . DA A 1 7 ? -5.568 -60.997 -11.026 1.00 8.78 ? 7 DA A "C1'" 1 ATOM 135 N N9 . DA A 1 7 ? -5.500 -59.765 -10.244 1.00 8.34 ? 7 DA A N9 1 ATOM 136 C C8 . DA A 1 7 ? -6.265 -59.405 -9.164 1.00 8.60 ? 7 DA A C8 1 ATOM 137 N N7 . DA A 1 7 ? -5.990 -58.212 -8.686 1.00 8.76 ? 7 DA A N7 1 ATOM 138 C C5 . DA A 1 7 ? -4.970 -57.761 -9.509 1.00 7.67 ? 7 DA A C5 1 ATOM 139 C C6 . DA A 1 7 ? -4.227 -56.556 -9.544 1.00 8.28 ? 7 DA A C6 1 ATOM 140 N N6 . DA A 1 7 ? -4.416 -55.549 -8.685 1.00 8.54 ? 7 DA A N6 1 ATOM 141 N N1 . DA A 1 7 ? -3.276 -56.430 -10.500 1.00 8.69 ? 7 DA A N1 1 ATOM 142 C C2 . DA A 1 7 ? -3.079 -57.436 -11.361 1.00 8.81 ? 7 DA A C2 1 ATOM 143 N N3 . DA A 1 7 ? -3.717 -58.607 -11.431 1.00 8.22 ? 7 DA A N3 1 ATOM 144 C C4 . DA A 1 7 ? -4.658 -58.706 -10.471 1.00 8.28 ? 7 DA A C4 1 ATOM 145 P P . DC A 1 8 ? -3.558 -64.570 -8.599 1.00 10.36 ? 8 DC A P 1 ATOM 146 O OP1 . DC A 1 8 ? -3.485 -66.048 -8.632 1.00 10.43 ? 8 DC A OP1 1 ATOM 147 O OP2 . DC A 1 8 ? -3.661 -63.849 -7.311 1.00 11.84 ? 8 DC A OP2 1 ATOM 148 O "O5'" . DC A 1 8 ? -2.274 -63.938 -9.310 1.00 11.94 ? 8 DC A "O5'" 1 ATOM 149 C "C5'" . DC A 1 8 ? -1.736 -64.489 -10.492 1.00 12.14 ? 8 DC A "C5'" 1 ATOM 150 C "C4'" . DC A 1 8 ? -0.585 -63.651 -11.021 1.00 12.48 ? 8 DC A "C4'" 1 ATOM 151 O "O4'" . DC A 1 8 ? -0.942 -62.243 -10.992 1.00 10.13 ? 8 DC A "O4'" 1 ATOM 152 C "C3'" . DC A 1 8 ? 0.730 -63.798 -10.267 1.00 14.07 ? 8 DC A "C3'" 1 ATOM 153 O "O3'" . DC A 1 8 ? 1.803 -63.950 -11.194 1.00 16.81 ? 8 DC A "O3'" 1 ATOM 154 C "C2'" . DC A 1 8 ? 0.849 -62.500 -9.477 1.00 12.68 ? 8 DC A "C2'" 1 ATOM 155 C "C1'" . DC A 1 8 ? 0.035 -61.502 -10.302 1.00 11.04 ? 8 DC A "C1'" 1 ATOM 156 N N1 . DC A 1 8 ? -0.657 -60.480 -9.455 1.00 9.92 ? 8 DC A N1 1 ATOM 157 C C2 . DC A 1 8 ? -0.238 -59.139 -9.477 1.00 9.94 ? 8 DC A C2 1 ATOM 158 O O2 . DC A 1 8 ? 0.699 -58.794 -10.212 1.00 10.37 ? 8 DC A O2 1 ATOM 159 N N3 . DC A 1 8 ? -0.875 -58.238 -8.683 1.00 9.31 ? 8 DC A N3 1 ATOM 160 C C4 . DC A 1 8 ? -1.882 -58.630 -7.897 1.00 9.39 ? 8 DC A C4 1 ATOM 161 N N4 . DC A 1 8 ? -2.476 -57.706 -7.137 1.00 9.67 ? 8 DC A N4 1 ATOM 162 C C5 . DC A 1 8 ? -2.331 -59.985 -7.865 1.00 9.41 ? 8 DC A C5 1 ATOM 163 C C6 . DC A 1 8 ? -1.691 -60.865 -8.643 1.00 9.41 ? 8 DC A C6 1 HETATM 164 O O . HOH B 2 . ? -5.741 -40.632 -8.297 1.00 37.56 ? 101 HOH A O 1 HETATM 165 O O . HOH B 2 . ? -5.413 -41.501 -15.530 1.00 17.65 ? 102 HOH A O 1 HETATM 166 O O . HOH B 2 . ? -6.826 -40.652 -19.921 1.00 18.84 ? 103 HOH A O 1 HETATM 167 O O . HOH B 2 . ? -18.941 -43.859 -11.136 1.00 14.35 ? 104 HOH A O 1 HETATM 168 O O . HOH B 2 . ? -14.517 -57.705 0.797 1.00 18.90 ? 105 HOH A O 1 HETATM 169 O O . HOH B 2 . ? -5.285 -38.199 -9.441 1.00 21.91 ? 106 HOH A O 1 HETATM 170 O O . HOH B 2 . ? -15.103 -56.113 10.724 1.00 10.71 ? 107 HOH A O 1 HETATM 171 O O . HOH B 2 . ? -15.375 -59.046 14.638 1.00 14.24 ? 108 HOH A O 1 HETATM 172 O O . HOH B 2 . ? -8.186 -48.287 -10.975 1.00 18.60 ? 109 HOH A O 1 HETATM 173 O O . HOH B 2 . ? -8.630 -45.417 -12.384 1.00 20.12 ? 110 HOH A O 1 HETATM 174 O O . HOH B 2 . ? -5.968 -44.143 -15.877 1.00 24.37 ? 111 HOH A O 1 HETATM 175 O O . HOH B 2 . ? -4.560 -58.424 -5.285 1.00 20.91 ? 112 HOH A O 1 HETATM 176 O O . HOH B 2 . ? -6.724 -57.266 -6.067 1.00 20.61 ? 113 HOH A O 1 HETATM 177 O O . HOH B 2 . ? -3.323 -53.807 -5.805 1.00 16.25 ? 114 HOH A O 1 HETATM 178 O O . HOH B 2 . ? -2.036 -51.336 -5.403 1.00 19.74 ? 115 HOH A O 1 HETATM 179 O O . HOH B 2 . ? -6.684 -42.792 -11.868 1.00 21.41 ? 116 HOH A O 1 HETATM 180 O O . HOH B 2 . ? -5.011 -51.134 -9.633 1.00 9.81 ? 117 HOH A O 1 HETATM 181 O O . HOH B 2 . ? -5.545 -48.533 -11.270 1.00 9.94 ? 118 HOH A O 1 HETATM 182 O O . HOH B 2 . ? -10.936 -49.360 -5.065 1.00 21.89 ? 119 HOH A O 1 HETATM 183 O O . HOH B 2 . ? -9.296 -50.682 -7.048 1.00 16.05 ? 120 HOH A O 1 HETATM 184 O O . HOH B 2 . ? -16.495 -49.604 -1.498 1.00 30.85 ? 121 HOH A O 1 HETATM 185 O O . HOH B 2 . ? -15.528 -40.543 -6.947 1.00 28.69 ? 122 HOH A O 1 HETATM 186 O O . HOH B 2 . ? -1.950 -68.222 -8.076 1.00 20.23 ? 123 HOH A O 1 HETATM 187 O O . HOH B 2 . ? -15.519 -60.288 -4.787 1.00 21.78 ? 124 HOH A O 1 HETATM 188 O O . HOH B 2 . ? -3.616 -37.231 -12.946 1.00 16.30 ? 125 HOH A O 1 HETATM 189 O O . HOH B 2 . ? -19.783 -59.923 14.756 1.00 32.83 ? 126 HOH A O 1 HETATM 190 O O . HOH B 2 . ? -18.318 -59.180 10.869 1.00 20.89 ? 127 HOH A O 1 HETATM 191 O O . HOH B 2 . ? -12.043 -57.674 0.874 1.00 19.03 ? 128 HOH A O 1 HETATM 192 O O . HOH B 2 . ? -12.442 -56.231 -1.601 1.00 29.31 ? 129 HOH A O 1 HETATM 193 O O . HOH B 2 . ? -5.331 -52.606 -7.451 1.00 24.65 ? 130 HOH A O 1 HETATM 194 O O . HOH B 2 . ? -7.605 -52.794 -5.881 1.00 23.47 ? 131 HOH A O 1 HETATM 195 O O . HOH B 2 . ? -6.708 -50.480 -6.819 1.00 16.20 ? 132 HOH A O 1 HETATM 196 O O . HOH B 2 . ? -4.428 -54.850 -3.545 1.00 34.36 ? 133 HOH A O 1 HETATM 197 O O . HOH B 2 . ? -15.437 -40.871 -9.871 1.00 25.55 ? 134 HOH A O 1 HETATM 198 O O . HOH B 2 . ? -7.462 -50.430 -9.216 1.00 27.32 ? 135 HOH A O 1 HETATM 199 O O . HOH B 2 . ? -8.511 -43.120 -9.884 1.00 20.52 ? 136 HOH A O 1 HETATM 200 O O . HOH B 2 . ? -17.549 -41.533 -11.327 1.00 32.39 ? 137 HOH A O 1 HETATM 201 O O . HOH B 2 . ? -10.098 -54.946 -4.391 1.00 29.10 ? 138 HOH A O 1 HETATM 202 O O . HOH B 2 . ? -12.564 -43.185 -2.237 1.00 26.78 ? 139 HOH A O 1 HETATM 203 O O . HOH B 2 . ? -7.872 -45.722 -8.796 1.00 31.70 ? 140 HOH A O 1 HETATM 204 O O . HOH B 2 . ? -8.867 -45.678 -6.017 1.00 30.84 ? 141 HOH A O 1 HETATM 205 O O . HOH B 2 . ? -8.719 -58.796 -5.105 1.00 31.48 ? 142 HOH A O 1 HETATM 206 O O . HOH B 2 . ? -15.893 -44.168 -2.536 1.00 43.05 ? 143 HOH A O 1 HETATM 207 O O . HOH B 2 . ? -19.551 -38.839 -10.816 1.00 29.96 ? 144 HOH A O 1 HETATM 208 O O . HOH B 2 . ? -10.126 -42.163 -2.929 1.00 33.34 ? 145 HOH A O 1 HETATM 209 O O . HOH B 2 . ? -5.249 -61.442 -6.022 1.00 20.04 ? 146 HOH A O 1 # 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 DG 1 1 1 DG G A . n A 1 2 DT 2 2 2 DT T A . n A 1 3 XUG 3 3 3 XUG XUG A . n A 1 4 DT 4 4 4 DT T A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DC 6 6 6 DC C A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 DC 8 8 8 DC C A . 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 B 2 HOH 1 101 101 HOH HOH A . B 2 HOH 2 102 102 HOH HOH A . B 2 HOH 3 103 103 HOH HOH A . B 2 HOH 4 104 104 HOH HOH A . B 2 HOH 5 105 105 HOH HOH A . B 2 HOH 6 106 106 HOH HOH A . B 2 HOH 7 107 107 HOH HOH A . B 2 HOH 8 108 108 HOH HOH A . B 2 HOH 9 109 109 HOH HOH A . B 2 HOH 10 110 110 HOH HOH A . B 2 HOH 11 111 111 HOH HOH A . B 2 HOH 12 112 112 HOH HOH A . B 2 HOH 13 113 113 HOH HOH A . B 2 HOH 14 114 114 HOH HOH A . B 2 HOH 15 115 115 HOH HOH A . B 2 HOH 16 116 116 HOH HOH A . B 2 HOH 17 117 117 HOH HOH A . B 2 HOH 18 118 118 HOH HOH A . B 2 HOH 19 119 119 HOH HOH A . B 2 HOH 20 120 120 HOH HOH A . B 2 HOH 21 121 121 HOH HOH A . B 2 HOH 22 122 122 HOH HOH A . B 2 HOH 23 123 123 HOH HOH A . B 2 HOH 24 124 124 HOH HOH A . B 2 HOH 25 125 125 HOH HOH A . B 2 HOH 26 126 126 HOH HOH A . B 2 HOH 27 127 127 HOH HOH A . B 2 HOH 28 128 128 HOH HOH A . B 2 HOH 29 129 129 HOH HOH A . B 2 HOH 30 130 130 HOH HOH A . B 2 HOH 31 131 131 HOH HOH A . B 2 HOH 32 132 132 HOH HOH A . B 2 HOH 33 133 133 HOH HOH A . B 2 HOH 34 134 134 HOH HOH A . B 2 HOH 35 135 135 HOH HOH A . B 2 HOH 36 136 136 HOH HOH A . B 2 HOH 37 137 137 HOH HOH A . B 2 HOH 38 138 138 HOH HOH A . B 2 HOH 39 139 139 HOH HOH A . B 2 HOH 40 140 140 HOH HOH A . B 2 HOH 41 141 141 HOH HOH A . B 2 HOH 42 142 142 HOH HOH A . B 2 HOH 43 143 143 HOH HOH A . B 2 HOH 44 144 144 HOH HOH A . B 2 HOH 45 145 145 HOH HOH A . B 2 HOH 46 146 146 HOH HOH A . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id XUG _pdbx_struct_mod_residue.label_seq_id 3 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id XUG _pdbx_struct_mod_residue.auth_seq_id 3 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DG _pdbx_struct_mod_residue.details ? # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B # 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)' 1990 ? 1 MORE 3 ? 1 'SSA (A^2)' 2860 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 7_644 y+1,x-1,-z-1 0.0000000000 1.0000000000 0.0000000000 41.6410000000 1.0000000000 0.0000000000 0.0000000000 -41.6410000000 0.0000000000 0.0000000000 -1.0000000000 -24.1120000000 # 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 2009-08-11 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2023-09-06 # _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' Advisory 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 3 'Structure model' 'Derived calculations' 6 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_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_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x -9.6953 _pdbx_refine_tls.origin_y -50.9110 _pdbx_refine_tls.origin_z -9.7843 _pdbx_refine_tls.T[1][1] -0.0079 _pdbx_refine_tls.T[2][2] -0.0162 _pdbx_refine_tls.T[3][3] -0.0186 _pdbx_refine_tls.T[1][2] -0.0044 _pdbx_refine_tls.T[1][3] -0.0103 _pdbx_refine_tls.T[2][3] 0.0038 _pdbx_refine_tls.L[1][1] 0.7155 _pdbx_refine_tls.L[2][2] 5.3834 _pdbx_refine_tls.L[3][3] 2.0558 _pdbx_refine_tls.L[1][2] -0.8040 _pdbx_refine_tls.L[1][3] 0.5378 _pdbx_refine_tls.L[2][3] -2.4567 _pdbx_refine_tls.S[1][1] -0.0886 _pdbx_refine_tls.S[1][2] -0.0502 _pdbx_refine_tls.S[1][3] -0.0335 _pdbx_refine_tls.S[2][1] 0.2587 _pdbx_refine_tls.S[2][2] 0.1346 _pdbx_refine_tls.S[2][3] 0.0689 _pdbx_refine_tls.S[3][1] -0.1269 _pdbx_refine_tls.S[3][2] 0.0141 _pdbx_refine_tls.S[3][3] -0.0460 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 1 _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 8 _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.selection_details ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CBASS 'data collection' . ? 1 PHASES phasing . ? 2 REFMAC refinement 5.2.0019 ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DT 2 ? ? "C1'" A DT 2 ? ? N1 A DT 2 ? ? 110.27 108.30 1.97 0.30 N 2 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 110.79 108.30 2.49 0.30 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 XUG O6 O N N 147 XUG C6 C N N 148 XUG C5 C Y N 149 XUG N7 N Y N 150 XUG C8 C Y N 151 XUG N1 N N N 152 XUG C2 C N N 153 XUG N2 N N N 154 XUG N3 N N N 155 XUG C4 C Y N 156 XUG N9 N Y N 157 XUG "C1'" C N R 158 XUG "O4'" O N N 159 XUG "C2'" C N R 160 XUG "SE2'" SE N N 161 XUG "CA'" C N N 162 XUG "C3'" C N R 163 XUG "O3'" O N N 164 XUG "C4'" C N R 165 XUG "C5'" C N N 166 XUG "O5'" O N N 167 XUG P P N N 168 XUG OP1 O N N 169 XUG OP2 O N N 170 XUG OP3 O N N 171 XUG H8 H N N 172 XUG HN1 H N N 173 XUG HN21 H N N 174 XUG HN22 H N N 175 XUG "H1'" H N N 176 XUG "H2'" H N N 177 XUG "HA'1" H N N 178 XUG "HA'2" H N N 179 XUG "HA'3" H N N 180 XUG "H3'" H N N 181 XUG "HO3'" H N N 182 XUG "H4'" H N N 183 XUG "H5'" H N N 184 XUG "H5''" H N N 185 XUG HOP2 H N N 186 XUG HOP3 H N N 187 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 XUG O6 C6 doub N N 152 XUG C6 C5 sing N N 153 XUG C6 N1 sing N N 154 XUG C5 N7 sing Y N 155 XUG C5 C4 doub Y N 156 XUG N7 C8 doub Y N 157 XUG C8 N9 sing Y N 158 XUG C8 H8 sing N N 159 XUG N1 C2 sing N N 160 XUG N1 HN1 sing N N 161 XUG C2 N2 sing N N 162 XUG C2 N3 doub N N 163 XUG N2 HN21 sing N N 164 XUG N2 HN22 sing N N 165 XUG N3 C4 sing N N 166 XUG C4 N9 sing Y N 167 XUG N9 "C1'" sing N N 168 XUG "C1'" "O4'" sing N N 169 XUG "C1'" "C2'" sing N N 170 XUG "C1'" "H1'" sing N N 171 XUG "O4'" "C4'" sing N N 172 XUG "C2'" "SE2'" sing N N 173 XUG "C2'" "C3'" sing N N 174 XUG "C2'" "H2'" sing N N 175 XUG "SE2'" "CA'" sing N N 176 XUG "CA'" "HA'1" sing N N 177 XUG "CA'" "HA'2" sing N N 178 XUG "CA'" "HA'3" sing N N 179 XUG "C3'" "O3'" sing N N 180 XUG "C3'" "C4'" sing N N 181 XUG "C3'" "H3'" sing N N 182 XUG "O3'" "HO3'" sing N N 183 XUG "C4'" "C5'" sing N N 184 XUG "C4'" "H4'" sing N N 185 XUG "C5'" "O5'" sing N N 186 XUG "C5'" "H5'" sing N N 187 XUG "C5'" "H5''" sing N N 188 XUG "O5'" P sing N N 189 XUG P OP1 doub N N 190 XUG P OP2 sing N N 191 XUG P OP3 sing N N 192 XUG OP2 HOP2 sing N N 193 XUG OP3 HOP3 sing N N 194 # _ndb_struct_conf_na.entry_id 3IFI _ndb_struct_conf_na.feature 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DG 1 1_555 A DC 8 7_644 -0.297 -0.174 -0.213 -15.227 -14.513 -2.060 1 A_DG1:DC8_A A 1 ? A 8 ? 19 1 1 A DT 2 1_555 A DA 7 7_644 0.027 -0.139 0.189 -4.707 -12.413 3.502 2 A_DT2:DA7_A A 2 ? A 7 ? 20 1 1 A XUG 3 1_555 A DC 6 7_644 -0.226 -0.164 0.135 -9.313 -17.450 -0.115 3 A_XUG3:DC6_A A 3 ? A 6 ? 19 1 1 A DT 4 1_555 A DA 5 7_644 0.024 -0.193 0.489 -8.591 -10.873 -1.165 4 A_DT4:DA5_A A 4 ? A 5 ? 20 1 1 A DA 5 1_555 A DT 4 7_644 -0.024 -0.193 0.489 8.591 -10.873 -1.165 5 A_DA5:DT4_A A 5 ? A 4 ? 20 1 1 A DC 6 1_555 A XUG 3 7_644 0.226 -0.164 0.135 9.313 -17.450 -0.115 6 A_DC6:XUG3_A A 6 ? A 3 ? 19 1 1 A DA 7 1_555 A DT 2 7_644 -0.027 -0.139 0.189 4.707 -12.413 3.502 7 A_DA7:DT2_A A 7 ? A 2 ? 20 1 1 A DC 8 1_555 A DG 1 7_644 0.297 -0.174 -0.213 15.227 -14.513 -2.060 8 A_DC8:DG1_A A 8 ? A 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 DG 1 1_555 A DC 8 7_644 A DT 2 1_555 A DA 7 7_644 0.739 -1.116 3.092 -0.960 8.156 33.995 -2.973 -1.363 2.738 13.704 1.613 34.944 1 AA_DG1DT2:DA7DC8_AA A 1 ? A 8 ? A 2 ? A 7 ? 1 A DT 2 1_555 A DA 7 7_644 A XUG 3 1_555 A DC 6 7_644 0.519 -1.667 3.153 1.735 13.547 30.141 -4.919 -0.659 2.244 24.529 -3.142 33.025 2 AA_DT2XUG3:DC6DA7_AA A 2 ? A 7 ? A 3 ? A 6 ? 1 A XUG 3 1_555 A DC 6 7_644 A DT 4 1_555 A DA 5 7_644 -0.348 -1.401 3.174 -1.909 2.222 38.842 -2.360 0.300 3.106 3.335 2.866 38.948 3 AA_XUG3DT4:DA5DC6_AA A 3 ? A 6 ? A 4 ? A 5 ? 1 A DT 4 1_555 A DA 5 7_644 A DA 5 1_555 A DT 4 7_644 0.000 -1.411 2.641 0.000 6.427 27.994 -3.945 0.000 2.267 13.069 0.000 28.708 4 AA_DT4DA5:DT4DA5_AA A 4 ? A 5 ? A 5 ? A 4 ? 1 A DA 5 1_555 A DT 4 7_644 A DC 6 1_555 A XUG 3 7_644 0.348 -1.401 3.174 1.909 2.222 38.842 -2.360 -0.300 3.106 3.335 -2.866 38.948 5 AA_DA5DC6:XUG3DT4_AA A 5 ? A 4 ? A 6 ? A 3 ? 1 A DC 6 1_555 A XUG 3 7_644 A DA 7 1_555 A DT 2 7_644 -0.519 -1.667 3.153 -1.735 13.547 30.141 -4.919 0.659 2.244 24.529 3.142 33.025 6 AA_DC6DA7:DT2XUG3_AA A 6 ? A 3 ? A 7 ? A 2 ? 1 A DA 7 1_555 A DT 2 7_644 A DC 8 1_555 A DG 1 7_644 -0.739 -1.116 3.092 0.960 8.156 33.995 -2.973 1.363 2.738 13.704 -1.613 34.944 7 AA_DA7DC8:DG1DT2_AA A 7 ? A 2 ? A 8 ? A 1 ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id 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 1DNS _pdbx_initial_refinement_model.details ? #