data_3OPI # _entry.id 3OPI # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 3OPI pdb_00003opi 10.2210/pdb3opi/pdb NDB NA0773 ? ? RCSB RCSB061410 ? ? WWPDB D_1000061410 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3OPI _pdbx_database_status.recvd_initial_deposition_date 2010-09-01 _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.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kowal, E.A.' 1 'Ganguly, M.' 2 'Pallan, P.S.' 3 'Marky, L.A.' 4 'Gold, B.' 5 'Egli, M.' 6 'Stone, M.P.' 7 # _citation.id primary _citation.title ;Altering the Electrostatic Potential in the Major Groove: Thermodynamic and Structural Characterization of 7-Deaza-2'-deoxyadenosine:dT Base Pairing in DNA. ; _citation.journal_abbrev J.Phys.Chem.B _citation.journal_volume 115 _citation.page_first 13925 _citation.page_last 13934 _citation.year 2011 _citation.journal_id_ASTM JPCBFK _citation.country US _citation.journal_id_ISSN 1089-5647 _citation.journal_id_CSD 1278 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22059929 _citation.pdbx_database_id_DOI 10.1021/jp207104w # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kowal, E.A.' 1 ? primary 'Ganguly, M.' 2 ? primary 'Pallan, P.S.' 3 ? primary 'Marky, L.A.' 4 ? primary 'Gold, B.' 5 ? primary 'Egli, M.' 6 ? primary 'Stone, M.P.' 7 ? # _cell.entry_id 3OPI _cell.length_a 25.635 _cell.length_b 40.310 _cell.length_c 65.928 _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 3OPI _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _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(*CP*GP*CP*GP*AP*(7DA)P*TP*TP*CP*GP*CP*G)-3') ; 3662.404 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 4 ? ? ? ? 4 water nat water 18.015 133 ? ? ? ? # _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 '(DC)(DG)(DC)(DG)(DA)(7DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _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 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 7DA n 1 7 DT n 1 8 DT n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3OPI _struct_ref.pdbx_db_accession 3OPI _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code CGCGAATTCGCG _struct_ref.pdbx_align_begin ? _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 3OPI A 1 ? 12 ? 3OPI 101 ? 112 ? 101 112 2 1 3OPI B 1 ? 12 ? 3OPI 213 ? 224 ? 213 224 # 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 7DA 'DNA linking' n "7-DEAZA-2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C11 H15 N4 O6 P' 330.234 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 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 # _exptl.entry_id 3OPI _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.33 _exptl_crystal.density_percent_sol 47.10 _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 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details ;DROPLETS CONTAINING 0.6 MM OLIGONUCLEOTIDE, 5% 2-METHYL-2,4-PENTANEDIOL (MPD), 20 MM SODIUM CACODYLATE, 6 MM SPERMINE TETRAHYDROCHLORIDE, 40 MM NACL WERE EQUILIBRATED AGAINST A RESERVOIR OF 0.75 ML OF 35% MPD, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K ; _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 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2007-10-20 _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 ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9785 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 21-ID-F' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 21-ID-F _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9785 # _reflns.entry_id 3OPI _reflns.observed_criterion_sigma_I 165.4 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.0 _reflns.d_resolution_high 1.10 _reflns.number_obs 27920 _reflns.number_all 28548 _reflns.percent_possible_obs 97.8 _reflns.pdbx_Rmerge_I_obs 0.048 _reflns.pdbx_netI_over_sigmaI 61.3 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 10.6 _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_Rsym_value ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.10 _reflns_shell.d_res_low 1.14 _reflns_shell.percent_possible_all 95.8 _reflns_shell.Rmerge_I_obs 0.39 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy 6.9 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 2679 _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 3OPI _refine.ls_number_reflns_obs 27920 _refine.ls_number_reflns_all 28548 _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 34.4 _refine.ls_d_res_high 1.10 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all 0.164 _refine.ls_R_factor_R_work 0.161 _refine.ls_R_factor_R_free 0.195 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free 2162 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model 'PDB ENTRY 355D' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_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 486 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 133 _refine_hist.number_atoms_total 624 _refine_hist.d_res_high 1.10 _refine_hist.d_res_low 34.4 # 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 p_bond_d 0.0236 ? ? ? 'X-RAY DIFFRACTION' ? o_angle_deg 1.95 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 1.10 _refine_ls_shell.d_res_low 1.14 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.161 _refine_ls_shell.percent_reflns_obs 97.9 _refine_ls_shell.R_factor_R_free 0.195 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 2162 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 2679 _refine_ls_shell.redundancy_reflns_obs ? # _struct.entry_id 3OPI _struct.title ;7-DEAZA-2'-DEOXYADENOSINE modification in B-FORM DNA ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3OPI _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA, DODECAMER, 7-DEAZA-DEOXYADENOSINE, 7-DEAZA-DA, 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 1 ? C N N 2 ? D N N 3 ? E N N 3 ? F N N 3 ? G N N 3 ? H N N 4 ? I N N 4 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DA 5 "O3'" A ? ? 1_555 A 7DA 6 P A ? A DA 105 A 7DA 106 1_555 ? ? ? ? ? ? ? 1.723 ? ? covale2 covale both ? A DA 5 "O3'" B ? ? 1_555 A 7DA 6 P B ? A DA 105 A 7DA 106 1_555 ? ? ? ? ? ? ? 1.558 ? ? covale3 covale both ? A 7DA 6 "O3'" A ? ? 1_555 A DT 7 P ? ? A 7DA 106 A DT 107 1_555 ? ? ? ? ? ? ? 1.660 ? ? covale4 covale both ? A 7DA 6 "O3'" B ? ? 1_555 A DT 7 P ? ? A 7DA 106 A DT 107 1_555 ? ? ? ? ? ? ? 1.511 ? ? covale5 covale both ? B DA 5 "O3'" ? ? ? 1_555 B 7DA 6 P ? ? B DA 217 B 7DA 218 1_555 ? ? ? ? ? ? ? 1.556 ? ? covale6 covale both ? B 7DA 6 "O3'" ? ? ? 1_555 B DT 7 P ? ? B 7DA 218 B DT 219 1_555 ? ? ? ? ? ? ? 1.557 ? ? metalc1 metalc ? ? A DT 7 O2 ? ? ? 1_555 D NA . NA ? ? A DT 107 A NA 400 1_555 ? ? ? ? ? ? ? 2.731 ? ? metalc2 metalc ? ? A DT 7 OP1 ? ? ? 1_555 E NA . NA ? ? A DT 107 A NA 401 1_555 ? ? ? ? ? ? ? 2.748 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 H HOH . O ? ? A MG 301 A HOH 407 1_555 ? ? ? ? ? ? ? 2.092 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 H HOH . O ? ? A MG 301 A HOH 408 1_555 ? ? ? ? ? ? ? 2.085 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 H HOH . O ? ? A MG 301 A HOH 410 1_555 ? ? ? ? ? ? ? 2.080 ? ? metalc6 metalc ? ? D NA . NA ? ? ? 1_555 B DT 7 O2 ? ? A NA 400 B DT 219 1_555 ? ? ? ? ? ? ? 2.782 ? ? metalc7 metalc ? ? D NA . NA ? ? ? 1_555 I HOH . O ? ? A NA 400 B HOH 441 1_555 ? ? ? ? ? ? ? 2.793 ? ? metalc8 metalc ? ? D NA . NA ? ? ? 1_555 I HOH . O ? ? A NA 400 B HOH 450 1_555 ? ? ? ? ? ? ? 2.877 ? ? metalc9 metalc ? ? E NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 401 A HOH 443 1_555 ? ? ? ? ? ? ? 2.732 ? ? metalc10 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 402 A HOH 484 1_555 ? ? ? ? ? ? ? 2.870 ? ? metalc11 metalc ? ? F NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 402 A HOH 519 1_555 ? ? ? ? ? ? ? 3.021 ? ? metalc12 metalc ? ? B DC 3 OP1 ? ? ? 1_555 G NA . NA ? ? B DC 215 B NA 403 1_555 ? ? ? ? ? ? ? 2.683 ? ? metalc13 metalc ? ? G NA . NA ? ? ? 1_555 I HOH . O ? ? B NA 403 B HOH 533 1_555 ? ? ? ? ? ? ? 2.781 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 101 B DG 224 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 101 B DG 224 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 101 B DG 224 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 102 B DC 223 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 102 B DC 223 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 102 B DC 223 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 103 B DG 222 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 103 B DG 222 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 103 B DG 222 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 A ? ? 1_555 B DC 9 N3 ? ? A DG 104 B DC 221 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 A ? ? 1_555 B DC 9 O2 ? ? A DG 104 B DC 221 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 A ? ? 1_555 B DC 9 N4 ? ? A DG 104 B DC 221 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 A ? ? 1_555 B DT 8 N3 ? ? A DA 105 B DT 220 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 A ? ? 1_555 B DT 8 O4 ? ? A DA 105 B DT 220 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A 7DA 6 N1 A ? ? 1_555 B DT 7 N3 ? ? A 7DA 106 B DT 219 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A 7DA 6 N6 A ? ? 1_555 B DT 7 O4 ? ? A 7DA 106 B DT 219 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B 7DA 6 N1 ? ? A DT 107 B 7DA 218 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B 7DA 6 N6 ? ? A DT 107 B 7DA 218 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 108 B DA 217 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 108 B DA 217 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 109 B DG 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 109 B DG 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 109 B DG 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 110 B DC 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 110 B DC 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 110 B DC 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 111 B DG 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 111 B DG 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 111 B DG 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 112 B DC 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 112 B DC 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 112 B DC 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MG 301 ? 6 'BINDING SITE FOR RESIDUE MG A 301' AC2 Software A NA 400 ? 6 'BINDING SITE FOR RESIDUE NA A 400' AC3 Software A NA 401 ? 4 'BINDING SITE FOR RESIDUE NA A 401' AC4 Software A NA 402 ? 5 'BINDING SITE FOR RESIDUE NA A 402' AC5 Software B NA 403 ? 5 'BINDING SITE FOR RESIDUE NA B 403' # 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 6 HOH H . ? HOH A 406 . ? 3_346 ? 2 AC1 6 HOH H . ? HOH A 407 . ? 1_555 ? 3 AC1 6 HOH H . ? HOH A 408 . ? 1_555 ? 4 AC1 6 HOH H . ? HOH A 409 . ? 3_346 ? 5 AC1 6 HOH H . ? HOH A 410 . ? 1_555 ? 6 AC1 6 HOH I . ? HOH B 405 . ? 3_346 ? 7 AC2 6 DT A 7 ? DT A 107 . ? 1_555 ? 8 AC2 6 DT A 8 ? DT A 108 . ? 1_555 ? 9 AC2 6 DT B 7 ? DT B 219 . ? 1_555 ? 10 AC2 6 DT B 8 ? DT B 220 . ? 1_555 ? 11 AC2 6 HOH I . ? HOH B 441 . ? 1_555 ? 12 AC2 6 HOH I . ? HOH B 450 . ? 1_555 ? 13 AC3 4 DT A 7 ? DT A 107 . ? 1_555 ? 14 AC3 4 HOH H . ? HOH A 409 . ? 3_346 ? 15 AC3 4 HOH H . ? HOH A 419 . ? 3_346 ? 16 AC3 4 HOH H . ? HOH A 443 . ? 1_555 ? 17 AC4 5 DG A 4 ? DG A 104 . ? 1_555 ? 18 AC4 5 DA A 5 ? DA A 105 . ? 1_555 ? 19 AC4 5 DG A 12 ? DG A 112 . ? 2_345 ? 20 AC4 5 HOH H . ? HOH A 484 . ? 1_555 ? 21 AC4 5 HOH H . ? HOH A 519 . ? 1_555 ? 22 AC5 5 DC A 1 ? DC A 101 . ? 2_344 ? 23 AC5 5 HOH H . ? HOH A 440 . ? 4_536 ? 24 AC5 5 DG B 2 ? DG B 214 . ? 1_555 ? 25 AC5 5 DC B 3 ? DC B 215 . ? 1_555 ? 26 AC5 5 HOH I . ? HOH B 533 . ? 1_555 ? # _database_PDB_matrix.entry_id 3OPI _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 3OPI _atom_sites.fract_transf_matrix[1][1] 0.039009 _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] 0.024808 _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] 0.015168 _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 MG N NA 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 DC 1 101 101 DC DC A . n A 1 2 DG 2 102 102 DG DG A . n A 1 3 DC 3 103 103 DC DC A . n A 1 4 DG 4 104 104 DG DG A . n A 1 5 DA 5 105 105 DA DA A . n A 1 6 7DA 6 106 106 7DA 7DA A . n A 1 7 DT 7 107 107 DT DT A . n A 1 8 DT 8 108 108 DT DT A . n A 1 9 DC 9 109 109 DC DC A . n A 1 10 DG 10 110 110 DG DG A . n A 1 11 DC 11 111 111 DC DC A . n A 1 12 DG 12 112 112 DG DG A . n B 1 1 DC 1 213 213 DC DC B . n B 1 2 DG 2 214 214 DG DG B . n B 1 3 DC 3 215 215 DC DC B . n B 1 4 DG 4 216 216 DG DG B . n B 1 5 DA 5 217 217 DA DA B . n B 1 6 7DA 6 218 218 7DA 7DA B . n B 1 7 DT 7 219 219 DT DT B . n B 1 8 DT 8 220 220 DT DT B . n B 1 9 DC 9 221 221 DC DC B . n B 1 10 DG 10 222 222 DG DG B . n B 1 11 DC 11 223 223 DC DC B . n B 1 12 DG 12 224 224 DG DG 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 MG 1 301 301 MG MG A . D 3 NA 1 400 400 NA NA A . E 3 NA 1 401 401 NA NA A . F 3 NA 1 402 402 NA NA A . G 3 NA 1 403 403 NA NA B . H 4 HOH 1 404 404 HOH HOH A . H 4 HOH 2 406 406 HOH HOH A . H 4 HOH 3 407 407 HOH HOH A . H 4 HOH 4 408 408 HOH HOH A . H 4 HOH 5 409 409 HOH HOH A . H 4 HOH 6 410 410 HOH HOH A . H 4 HOH 7 411 411 HOH HOH A . H 4 HOH 8 413 413 HOH HOH A . H 4 HOH 9 418 418 HOH HOH A . H 4 HOH 10 419 419 HOH HOH A . H 4 HOH 11 420 420 HOH HOH A . H 4 HOH 12 422 422 HOH HOH A . H 4 HOH 13 424 424 HOH HOH A . H 4 HOH 14 426 426 HOH HOH A . H 4 HOH 15 427 427 HOH HOH A . H 4 HOH 16 430 430 HOH HOH A . H 4 HOH 17 431 431 HOH HOH A . H 4 HOH 18 432 432 HOH HOH A . H 4 HOH 19 433 433 HOH HOH A . H 4 HOH 20 434 434 HOH HOH A . H 4 HOH 21 438 438 HOH HOH A . H 4 HOH 22 440 440 HOH HOH A . H 4 HOH 23 442 442 HOH HOH A . H 4 HOH 24 443 443 HOH HOH A . H 4 HOH 25 444 444 HOH HOH A . H 4 HOH 26 447 447 HOH HOH A . H 4 HOH 27 449 449 HOH HOH A . H 4 HOH 28 451 451 HOH HOH A . H 4 HOH 29 452 452 HOH HOH A . H 4 HOH 30 453 453 HOH HOH A . H 4 HOH 31 456 456 HOH HOH A . H 4 HOH 32 457 457 HOH HOH A . H 4 HOH 33 459 459 HOH HOH A . H 4 HOH 34 460 460 HOH HOH A . H 4 HOH 35 461 461 HOH HOH A . H 4 HOH 36 462 462 HOH HOH A . H 4 HOH 37 463 463 HOH HOH A . H 4 HOH 38 465 465 HOH HOH A . H 4 HOH 39 468 468 HOH HOH A . H 4 HOH 40 471 471 HOH HOH A . H 4 HOH 41 474 474 HOH HOH A . H 4 HOH 42 475 475 HOH HOH A . H 4 HOH 43 478 478 HOH HOH A . H 4 HOH 44 479 479 HOH HOH A . H 4 HOH 45 483 483 HOH HOH A . H 4 HOH 46 484 484 HOH HOH A . H 4 HOH 47 486 486 HOH HOH A . H 4 HOH 48 488 488 HOH HOH A . H 4 HOH 49 490 490 HOH HOH A . H 4 HOH 50 491 491 HOH HOH A . H 4 HOH 51 493 493 HOH HOH A . H 4 HOH 52 495 495 HOH HOH A . H 4 HOH 53 496 496 HOH HOH A . H 4 HOH 54 498 498 HOH HOH A . H 4 HOH 55 499 499 HOH HOH A . H 4 HOH 56 505 505 HOH HOH A . H 4 HOH 57 508 508 HOH HOH A . H 4 HOH 58 509 509 HOH HOH A . H 4 HOH 59 510 510 HOH HOH A . H 4 HOH 60 511 511 HOH HOH A . H 4 HOH 61 514 514 HOH HOH A . H 4 HOH 62 515 515 HOH HOH A . H 4 HOH 63 518 518 HOH HOH A . H 4 HOH 64 519 519 HOH HOH A . H 4 HOH 65 527 527 HOH HOH A . H 4 HOH 66 528 528 HOH HOH A . H 4 HOH 67 529 529 HOH HOH A . H 4 HOH 68 531 531 HOH HOH A . H 4 HOH 69 532 532 HOH HOH A . H 4 HOH 70 535 535 HOH HOH A . I 4 HOH 1 405 405 HOH HOH B . I 4 HOH 2 412 412 HOH HOH B . I 4 HOH 3 414 414 HOH HOH B . I 4 HOH 4 415 415 HOH HOH B . I 4 HOH 5 416 416 HOH HOH B . I 4 HOH 6 417 417 HOH HOH B . I 4 HOH 7 421 421 HOH HOH B . I 4 HOH 8 423 423 HOH HOH B . I 4 HOH 9 425 425 HOH HOH B . I 4 HOH 10 428 428 HOH HOH B . I 4 HOH 11 429 429 HOH HOH B . I 4 HOH 12 435 435 HOH HOH B . I 4 HOH 13 436 436 HOH HOH B . I 4 HOH 14 437 437 HOH HOH B . I 4 HOH 15 439 439 HOH HOH B . I 4 HOH 16 441 441 HOH HOH B . I 4 HOH 17 445 445 HOH HOH B . I 4 HOH 18 446 446 HOH HOH B . I 4 HOH 19 448 448 HOH HOH B . I 4 HOH 20 450 450 HOH HOH B . I 4 HOH 21 454 454 HOH HOH B . I 4 HOH 22 455 455 HOH HOH B . I 4 HOH 23 458 458 HOH HOH B . I 4 HOH 24 464 464 HOH HOH B . I 4 HOH 25 466 466 HOH HOH B . I 4 HOH 26 467 467 HOH HOH B . I 4 HOH 27 469 469 HOH HOH B . I 4 HOH 28 470 470 HOH HOH B . I 4 HOH 29 472 472 HOH HOH B . I 4 HOH 30 473 473 HOH HOH B . I 4 HOH 31 476 476 HOH HOH B . I 4 HOH 32 477 477 HOH HOH B . I 4 HOH 33 480 480 HOH HOH B . I 4 HOH 34 481 481 HOH HOH B . I 4 HOH 35 482 482 HOH HOH B . I 4 HOH 36 485 485 HOH HOH B . I 4 HOH 37 487 487 HOH HOH B . I 4 HOH 38 489 489 HOH HOH B . I 4 HOH 39 492 492 HOH HOH B . I 4 HOH 40 494 494 HOH HOH B . I 4 HOH 41 497 497 HOH HOH B . I 4 HOH 42 500 500 HOH HOH B . I 4 HOH 43 501 501 HOH HOH B . I 4 HOH 44 502 502 HOH HOH B . I 4 HOH 45 503 503 HOH HOH B . I 4 HOH 46 504 504 HOH HOH B . I 4 HOH 47 506 506 HOH HOH B . I 4 HOH 48 507 507 HOH HOH B . I 4 HOH 49 512 512 HOH HOH B . I 4 HOH 50 513 513 HOH HOH B . I 4 HOH 51 516 516 HOH HOH B . I 4 HOH 52 517 517 HOH HOH B . I 4 HOH 53 520 520 HOH HOH B . I 4 HOH 54 521 521 HOH HOH B . I 4 HOH 55 522 522 HOH HOH B . I 4 HOH 56 523 523 HOH HOH B . I 4 HOH 57 524 524 HOH HOH B . I 4 HOH 58 525 525 HOH HOH B . I 4 HOH 59 526 526 HOH HOH B . I 4 HOH 60 530 530 HOH HOH B . I 4 HOH 61 533 533 HOH HOH B . I 4 HOH 62 534 534 HOH HOH B . I 4 HOH 63 536 536 HOH HOH B . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A 7DA 6 A 7DA 106 ? DA ? 2 B 7DA 6 B 7DA 218 ? DA ? # _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,G,H,I # 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)' 3090 ? 1 MORE -30 ? 1 'SSA (A^2)' 4150 ? # _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_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O2 ? A DT 7 ? A DT 107 ? 1_555 NA ? D NA . ? A NA 400 ? 1_555 O2 ? B DT 7 ? B DT 219 ? 1_555 80.1 ? 2 O2 ? A DT 7 ? A DT 107 ? 1_555 NA ? D NA . ? A NA 400 ? 1_555 O ? I HOH . ? B HOH 441 ? 1_555 113.7 ? 3 O2 ? B DT 7 ? B DT 219 ? 1_555 NA ? D NA . ? A NA 400 ? 1_555 O ? I HOH . ? B HOH 441 ? 1_555 96.6 ? 4 O2 ? A DT 7 ? A DT 107 ? 1_555 NA ? D NA . ? A NA 400 ? 1_555 O ? I HOH . ? B HOH 450 ? 1_555 94.0 ? 5 O2 ? B DT 7 ? B DT 219 ? 1_555 NA ? D NA . ? A NA 400 ? 1_555 O ? I HOH . ? B HOH 450 ? 1_555 109.9 ? 6 O ? I HOH . ? B HOH 441 ? 1_555 NA ? D NA . ? A NA 400 ? 1_555 O ? I HOH . ? B HOH 450 ? 1_555 144.8 ? 7 OP1 ? A DT 7 ? A DT 107 ? 1_555 NA ? E NA . ? A NA 401 ? 1_555 O ? H HOH . ? A HOH 443 ? 1_555 106.6 ? 8 O ? H HOH . ? A HOH 407 ? 1_555 MG ? C MG . ? A MG 301 ? 1_555 O ? H HOH . ? A HOH 408 ? 1_555 87.6 ? 9 O ? H HOH . ? A HOH 407 ? 1_555 MG ? C MG . ? A MG 301 ? 1_555 O ? H HOH . ? A HOH 410 ? 1_555 93.0 ? 10 O ? H HOH . ? A HOH 408 ? 1_555 MG ? C MG . ? A MG 301 ? 1_555 O ? H HOH . ? A HOH 410 ? 1_555 91.4 ? 11 O ? H HOH . ? A HOH 484 ? 1_555 NA ? F NA . ? A NA 402 ? 1_555 O ? H HOH . ? A HOH 519 ? 1_555 103.7 ? 12 OP1 ? B DC 3 ? B DC 215 ? 1_555 NA ? G NA . ? B NA 403 ? 1_555 O ? I HOH . ? B HOH 533 ? 1_555 93.5 ? # 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 2011-08-31 2 'Structure model' 1 1 2011-12-28 3 'Structure model' 1 2 2017-11-08 4 'Structure model' 1 3 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' 'Database references' 2 3 'Structure model' 'Refinement description' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' software 2 4 'Structure model' chem_comp_atom 3 4 'Structure model' chem_comp_bond 4 4 'Structure model' database_2 5 4 'Structure model' pdbx_initial_refinement_model 6 4 'Structure model' pdbx_struct_conn_angle 7 4 'Structure model' struct_conn 8 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_comp_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_atom_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_comp_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 18 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 19 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 20 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 21 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 22 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 23 4 'Structure model' '_pdbx_struct_conn_angle.value' 24 4 'Structure model' '_struct_conn.pdbx_dist_value' 25 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 26 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 27 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 28 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 29 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 30 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 31 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 32 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 33 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 34 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 35 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 36 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 37 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 38 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 39 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 40 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 41 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 42 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MAR345dtb 'data collection' . ? 1 MOLREP phasing . ? 2 REFMAC refinement 5.0 ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 OP2 _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 7DA _pdbx_validate_close_contact.auth_seq_id_1 106 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 A _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 465 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.90 # 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 "O3'" A DG 102 ? ? P A DC 103 ? ? 1.500 1.607 -0.107 0.012 Y 2 1 "O3'" A DC 103 ? A "C3'" A DC 103 ? ? 1.371 1.419 -0.048 0.006 N 3 1 N3 A DG 104 ? A C4 A DG 104 ? A 1.405 1.350 0.055 0.007 N 4 1 C4 A DG 104 ? A C5 A DG 104 ? A 1.328 1.379 -0.051 0.007 N 5 1 C5 A DG 104 ? B C6 A DG 104 ? B 1.485 1.419 0.066 0.010 N 6 1 C6 A DG 104 ? A N1 A DG 104 ? A 1.454 1.391 0.063 0.007 N 7 1 C5 A DG 104 ? A N7 A DG 104 ? A 1.433 1.388 0.045 0.006 N 8 1 C2 A DG 104 ? A N2 A DG 104 ? A 1.406 1.341 0.065 0.010 N 9 1 C6 A DA 105 ? A N1 A DA 105 ? A 1.307 1.351 -0.044 0.007 N 10 1 "O3'" A DA 105 ? A P A 7DA 106 ? A 1.723 1.607 0.116 0.012 Y 11 1 "O3'" A 7DA 106 ? B P A DT 107 ? ? 1.511 1.607 -0.096 0.012 Y 12 1 "C5'" A DG 112 ? ? "C4'" A DG 112 ? ? 1.591 1.512 0.079 0.007 N # 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 "O5'" A DG 104 ? A "C5'" A DG 104 ? A "C4'" A DG 104 ? A 102.95 109.40 -6.45 0.80 N 2 1 C8 A DG 104 ? A N9 A DG 104 ? A C4 A DG 104 ? A 108.85 106.40 2.45 0.40 N 3 1 C8 A DG 104 ? B N9 A DG 104 ? B C4 A DG 104 ? B 103.72 106.40 -2.68 0.40 N 4 1 C5 A DG 104 ? A C6 A DG 104 ? A O6 A DG 104 ? A 124.65 128.60 -3.95 0.60 N 5 1 "C3'" A DA 105 ? A "O3'" A DA 105 ? A P A 7DA 106 ? A 101.02 119.70 -18.68 1.20 Y 6 1 "O3'" A DA 105 ? A P A 7DA 106 ? A OP2 A 7DA 106 ? A 126.13 110.50 15.63 1.10 Y 7 1 "C3'" A 7DA 106 ? B "O3'" A 7DA 106 ? B P A DT 107 ? ? 134.12 119.70 14.42 1.20 Y 8 1 "O4'" A DG 110 ? ? "C1'" A DG 110 ? ? N9 A DG 110 ? ? 110.13 108.30 1.83 0.30 N 9 1 "O4'" B DG 216 ? ? "C1'" B DG 216 ? ? N9 B DG 216 ? ? 112.39 108.30 4.09 0.30 N 10 1 "C3'" B 7DA 218 ? ? "O3'" B 7DA 218 ? ? P B DT 219 ? ? 129.12 119.70 9.42 1.20 Y # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DC A 109 ? ? 0.063 'SIDE CHAIN' 2 1 DC B 223 ? ? 0.092 'SIDE CHAIN' # 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 7DA P P N N 1 7DA OP1 O N N 2 7DA OP2 O N N 3 7DA "O5'" O N N 4 7DA N9 N Y N 5 7DA C4 C Y N 6 7DA N3 N Y N 7 7DA C2 C Y N 8 7DA N1 N Y N 9 7DA C6 C Y N 10 7DA N6 N N N 11 7DA C5 C Y N 12 7DA C7 C Y N 13 7DA C8 C Y N 14 7DA "C2'" C N N 15 7DA "C5'" C N N 16 7DA "C4'" C N R 17 7DA "O4'" O N N 18 7DA "C1'" C N R 19 7DA "C3'" C N S 20 7DA "O3'" O N N 21 7DA OP3 O N N 22 7DA HOP2 H N N 23 7DA H2 H N N 24 7DA HN61 H N N 25 7DA HN62 H N N 26 7DA H7 H N N 27 7DA H8 H N N 28 7DA "H2'" H N N 29 7DA "H2''" H N N 30 7DA "H5'" H N N 31 7DA "H5''" H N N 32 7DA "H4'" H N N 33 7DA "H1'" H N N 34 7DA H1 H N N 35 7DA "HO3'" H N N 36 7DA HOP3 H N N 37 DA OP3 O N N 38 DA P P N N 39 DA OP1 O N N 40 DA OP2 O N N 41 DA "O5'" O N N 42 DA "C5'" C N N 43 DA "C4'" C N R 44 DA "O4'" O N N 45 DA "C3'" C N S 46 DA "O3'" O N N 47 DA "C2'" C N N 48 DA "C1'" C N R 49 DA N9 N Y N 50 DA C8 C Y N 51 DA N7 N Y N 52 DA C5 C Y N 53 DA C6 C Y N 54 DA N6 N N N 55 DA N1 N Y N 56 DA C2 C Y N 57 DA N3 N Y N 58 DA C4 C Y N 59 DA HOP3 H N N 60 DA HOP2 H N N 61 DA "H5'" H N N 62 DA "H5''" H N N 63 DA "H4'" H N N 64 DA "H3'" H N N 65 DA "HO3'" H N N 66 DA "H2'" H N N 67 DA "H2''" H N N 68 DA "H1'" H N N 69 DA H8 H N N 70 DA H61 H N N 71 DA H62 H N N 72 DA H2 H N N 73 DC OP3 O N N 74 DC P P N N 75 DC OP1 O N N 76 DC OP2 O N N 77 DC "O5'" O N N 78 DC "C5'" C N N 79 DC "C4'" C N R 80 DC "O4'" O N N 81 DC "C3'" C N S 82 DC "O3'" O N N 83 DC "C2'" C N N 84 DC "C1'" C N R 85 DC N1 N N N 86 DC C2 C N N 87 DC O2 O N N 88 DC N3 N N N 89 DC C4 C N N 90 DC N4 N N N 91 DC C5 C N N 92 DC C6 C N N 93 DC HOP3 H N N 94 DC HOP2 H N N 95 DC "H5'" H N N 96 DC "H5''" H N N 97 DC "H4'" H N N 98 DC "H3'" H N N 99 DC "HO3'" H N N 100 DC "H2'" H N N 101 DC "H2''" H N N 102 DC "H1'" H N N 103 DC H41 H N N 104 DC H42 H N N 105 DC H5 H N N 106 DC H6 H N N 107 DG OP3 O N N 108 DG P P N N 109 DG OP1 O N N 110 DG OP2 O N N 111 DG "O5'" O N N 112 DG "C5'" C N N 113 DG "C4'" C N R 114 DG "O4'" O N N 115 DG "C3'" C N S 116 DG "O3'" O N N 117 DG "C2'" C N N 118 DG "C1'" C N R 119 DG N9 N Y N 120 DG C8 C Y N 121 DG N7 N Y N 122 DG C5 C Y N 123 DG C6 C N N 124 DG O6 O N N 125 DG N1 N N N 126 DG C2 C N N 127 DG N2 N N N 128 DG N3 N N N 129 DG C4 C Y N 130 DG HOP3 H N N 131 DG HOP2 H N N 132 DG "H5'" H N N 133 DG "H5''" H N N 134 DG "H4'" H N N 135 DG "H3'" H N N 136 DG "HO3'" H N N 137 DG "H2'" H N N 138 DG "H2''" H N N 139 DG "H1'" H N N 140 DG H8 H N N 141 DG H1 H N N 142 DG H21 H N N 143 DG H22 H N N 144 DT OP3 O N N 145 DT P P N N 146 DT OP1 O N N 147 DT OP2 O N N 148 DT "O5'" O N N 149 DT "C5'" C N N 150 DT "C4'" C N R 151 DT "O4'" O N N 152 DT "C3'" C N S 153 DT "O3'" O N N 154 DT "C2'" C N N 155 DT "C1'" C N R 156 DT N1 N N N 157 DT C2 C N N 158 DT O2 O N N 159 DT N3 N N N 160 DT C4 C N N 161 DT O4 O N N 162 DT C5 C N N 163 DT C7 C N N 164 DT C6 C N N 165 DT HOP3 H N N 166 DT HOP2 H N N 167 DT "H5'" H N N 168 DT "H5''" H N N 169 DT "H4'" H N N 170 DT "H3'" H N N 171 DT "HO3'" H N N 172 DT "H2'" H N N 173 DT "H2''" H N N 174 DT "H1'" H N N 175 DT H3 H N N 176 DT H71 H N N 177 DT H72 H N N 178 DT H73 H N N 179 DT H6 H N N 180 HOH O O N N 181 HOH H1 H N N 182 HOH H2 H N N 183 MG MG MG N N 184 NA NA NA N N 185 # 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 7DA P OP1 doub N N 1 7DA P OP2 sing N N 2 7DA P "O5'" sing N N 3 7DA P OP3 sing N N 4 7DA OP2 HOP2 sing N N 5 7DA "O5'" "C5'" sing N N 6 7DA N9 C4 sing Y N 7 7DA N9 C8 sing Y N 8 7DA N9 "C1'" sing N N 9 7DA C4 N3 sing Y N 10 7DA C4 C5 doub Y N 11 7DA N3 C2 doub Y N 12 7DA C2 N1 sing Y N 13 7DA C2 H2 sing N N 14 7DA N1 C6 doub Y N 15 7DA C6 N6 sing N N 16 7DA C6 C5 sing Y N 17 7DA N6 HN61 sing N N 18 7DA N6 HN62 sing N N 19 7DA C5 C7 sing Y N 20 7DA C7 C8 doub Y N 21 7DA C7 H7 sing N N 22 7DA C8 H8 sing N N 23 7DA "C2'" "C1'" sing N N 24 7DA "C2'" "C3'" sing N N 25 7DA "C2'" "H2'" sing N N 26 7DA "C2'" "H2''" sing N N 27 7DA "C5'" "C4'" sing N N 28 7DA "C5'" "H5'" sing N N 29 7DA "C5'" "H5''" sing N N 30 7DA "C4'" "O4'" sing N N 31 7DA "C4'" "C3'" sing N N 32 7DA "C4'" "H4'" sing N N 33 7DA "O4'" "C1'" sing N N 34 7DA "C1'" "H1'" sing N N 35 7DA "C3'" "O3'" sing N N 36 7DA "C3'" H1 sing N N 37 7DA "O3'" "HO3'" sing N N 38 7DA OP3 HOP3 sing N N 39 DA OP3 P sing N N 40 DA OP3 HOP3 sing N N 41 DA P OP1 doub N N 42 DA P OP2 sing N N 43 DA P "O5'" sing N N 44 DA OP2 HOP2 sing N N 45 DA "O5'" "C5'" sing N N 46 DA "C5'" "C4'" sing N N 47 DA "C5'" "H5'" sing N N 48 DA "C5'" "H5''" sing N N 49 DA "C4'" "O4'" sing N N 50 DA "C4'" "C3'" sing N N 51 DA "C4'" "H4'" sing N N 52 DA "O4'" "C1'" sing N N 53 DA "C3'" "O3'" sing N N 54 DA "C3'" "C2'" sing N N 55 DA "C3'" "H3'" sing N N 56 DA "O3'" "HO3'" sing N N 57 DA "C2'" "C1'" sing N N 58 DA "C2'" "H2'" sing N N 59 DA "C2'" "H2''" sing N N 60 DA "C1'" N9 sing N N 61 DA "C1'" "H1'" sing N N 62 DA N9 C8 sing Y N 63 DA N9 C4 sing Y N 64 DA C8 N7 doub Y N 65 DA C8 H8 sing N N 66 DA N7 C5 sing Y N 67 DA C5 C6 sing Y N 68 DA C5 C4 doub Y N 69 DA C6 N6 sing N N 70 DA C6 N1 doub Y N 71 DA N6 H61 sing N N 72 DA N6 H62 sing N N 73 DA N1 C2 sing Y N 74 DA C2 N3 doub Y N 75 DA C2 H2 sing N N 76 DA N3 C4 sing Y N 77 DC OP3 P sing N N 78 DC OP3 HOP3 sing N N 79 DC P OP1 doub N N 80 DC P OP2 sing N N 81 DC P "O5'" sing N N 82 DC OP2 HOP2 sing N N 83 DC "O5'" "C5'" sing N N 84 DC "C5'" "C4'" sing N N 85 DC "C5'" "H5'" sing N N 86 DC "C5'" "H5''" sing N N 87 DC "C4'" "O4'" sing N N 88 DC "C4'" "C3'" sing N N 89 DC "C4'" "H4'" sing N N 90 DC "O4'" "C1'" sing N N 91 DC "C3'" "O3'" sing N N 92 DC "C3'" "C2'" sing N N 93 DC "C3'" "H3'" sing N N 94 DC "O3'" "HO3'" sing N N 95 DC "C2'" "C1'" sing N N 96 DC "C2'" "H2'" sing N N 97 DC "C2'" "H2''" sing N N 98 DC "C1'" N1 sing N N 99 DC "C1'" "H1'" sing N N 100 DC N1 C2 sing N N 101 DC N1 C6 sing N N 102 DC C2 O2 doub N N 103 DC C2 N3 sing N N 104 DC N3 C4 doub N N 105 DC C4 N4 sing N N 106 DC C4 C5 sing N N 107 DC N4 H41 sing N N 108 DC N4 H42 sing N N 109 DC C5 C6 doub N N 110 DC C5 H5 sing N N 111 DC C6 H6 sing N N 112 DG OP3 P sing N N 113 DG OP3 HOP3 sing N N 114 DG P OP1 doub N N 115 DG P OP2 sing N N 116 DG P "O5'" sing N N 117 DG OP2 HOP2 sing N N 118 DG "O5'" "C5'" sing N N 119 DG "C5'" "C4'" sing N N 120 DG "C5'" "H5'" sing N N 121 DG "C5'" "H5''" sing N N 122 DG "C4'" "O4'" sing N N 123 DG "C4'" "C3'" sing N N 124 DG "C4'" "H4'" sing N N 125 DG "O4'" "C1'" sing N N 126 DG "C3'" "O3'" sing N N 127 DG "C3'" "C2'" sing N N 128 DG "C3'" "H3'" sing N N 129 DG "O3'" "HO3'" sing N N 130 DG "C2'" "C1'" sing N N 131 DG "C2'" "H2'" sing N N 132 DG "C2'" "H2''" sing N N 133 DG "C1'" N9 sing N N 134 DG "C1'" "H1'" sing N N 135 DG N9 C8 sing Y N 136 DG N9 C4 sing Y N 137 DG C8 N7 doub Y N 138 DG C8 H8 sing N N 139 DG N7 C5 sing Y N 140 DG C5 C6 sing N N 141 DG C5 C4 doub Y N 142 DG C6 O6 doub N N 143 DG C6 N1 sing N N 144 DG N1 C2 sing N N 145 DG N1 H1 sing N N 146 DG C2 N2 sing N N 147 DG C2 N3 doub N N 148 DG N2 H21 sing N N 149 DG N2 H22 sing N N 150 DG N3 C4 sing N N 151 DT OP3 P sing N N 152 DT OP3 HOP3 sing N N 153 DT P OP1 doub N N 154 DT P OP2 sing N N 155 DT P "O5'" sing N N 156 DT OP2 HOP2 sing N N 157 DT "O5'" "C5'" sing N N 158 DT "C5'" "C4'" sing N N 159 DT "C5'" "H5'" sing N N 160 DT "C5'" "H5''" sing N N 161 DT "C4'" "O4'" sing N N 162 DT "C4'" "C3'" sing N N 163 DT "C4'" "H4'" sing N N 164 DT "O4'" "C1'" sing N N 165 DT "C3'" "O3'" sing N N 166 DT "C3'" "C2'" sing N N 167 DT "C3'" "H3'" sing N N 168 DT "O3'" "HO3'" sing N N 169 DT "C2'" "C1'" sing N N 170 DT "C2'" "H2'" sing N N 171 DT "C2'" "H2''" sing N N 172 DT "C1'" N1 sing N N 173 DT "C1'" "H1'" sing N N 174 DT N1 C2 sing N N 175 DT N1 C6 sing N N 176 DT C2 O2 doub N N 177 DT C2 N3 sing N N 178 DT N3 C4 sing N N 179 DT N3 H3 sing N N 180 DT C4 O4 doub N N 181 DT C4 C5 sing N N 182 DT C5 C7 sing N N 183 DT C5 C6 doub N N 184 DT C7 H71 sing N N 185 DT C7 H72 sing N N 186 DT C7 H73 sing N N 187 DT C6 H6 sing N N 188 HOH O H1 sing N N 189 HOH O H2 sing N N 190 # _ndb_struct_conf_na.entry_id 3OPI _ndb_struct_conf_na.feature 'b-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 DC 1 1_555 B DG 12 1_555 0.274 -0.145 0.059 5.118 -15.612 -0.284 1 A_DC101:DG224_B A 101 ? B 224 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.233 -0.200 0.420 6.356 -15.185 -2.205 2 A_DG102:DC223_B A 102 ? B 223 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.175 -0.149 0.087 -2.709 -5.941 -0.342 3 A_DC103:DG222_B A 103 ? B 222 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.477 -0.227 0.010 12.007 -8.337 -6.251 4 A_DG104:DC221_B A 104 ? B 221 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.322 -0.223 0.046 5.961 -16.855 2.905 5 A_DA105:DT220_B A 105 ? B 220 ? 20 1 1 A 7DA 6 1_555 B DT 7 1_555 0.223 -0.077 0.116 1.973 -17.651 7.957 6 A_7DA106:DT219_B A 106 ? B 219 ? 20 1 1 A DT 7 1_555 B 7DA 6 1_555 -0.031 -0.078 0.060 0.245 -16.383 4.319 7 A_DT107:7DA218_B A 107 ? B 218 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.041 -0.144 -0.079 -0.650 -12.674 3.991 8 A_DT108:DA217_B A 108 ? B 217 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.216 -0.132 0.049 -12.123 -8.447 -1.583 9 A_DC109:DG216_B A 109 ? B 216 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.108 -0.105 0.188 4.237 -9.776 1.917 10 A_DG110:DC215_B A 110 ? B 215 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.143 -0.182 0.175 1.597 -16.986 -2.036 11 A_DC111:DG214_B A 111 ? B 214 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.305 -0.126 0.209 4.882 -3.400 -1.467 12 A_DG112:DC213_B A 112 ? B 213 ? 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 DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 0.063 0.122 3.240 -2.474 8.174 33.709 -1.039 -0.482 3.170 13.822 4.183 34.744 1 AA_DC101DG102:DC223DG224_BB A 101 ? B 224 ? A 102 ? B 223 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.583 0.649 3.555 2.921 -8.130 43.464 1.677 -0.481 3.416 -10.850 -3.898 44.273 2 AA_DG102DC103:DG222DC223_BB A 102 ? B 223 ? A 103 ? B 222 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.248 0.494 3.040 -0.251 10.071 21.779 -1.958 0.519 2.973 25.004 0.623 23.971 3 AA_DC103DG104:DC221DG222_BB A 103 ? B 222 ? A 104 ? B 221 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 0.160 -0.147 3.436 -0.346 1.872 39.251 -0.452 -0.281 3.424 2.785 0.515 39.295 4 AA_DG104DA105:DT220DC221_BB A 104 ? B 221 ? A 105 ? B 220 ? 1 A DA 5 1_555 B DT 8 1_555 A 7DA 6 1_555 B DT 7 1_555 -0.042 -0.135 3.299 -0.224 1.611 38.649 -0.403 0.035 3.292 2.433 0.338 38.682 5 AA_DA1057DA106:DT219DT220_BB A 105 ? B 220 ? A 106 ? B 219 ? 1 A 7DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B 7DA 6 1_555 -0.005 -0.563 3.254 0.127 -2.287 32.485 -0.605 0.030 3.285 -4.082 -0.227 32.563 6 AA_7DA106DT107:7DA218DT219_BB A 106 ? B 219 ? A 107 ? B 218 ? 1 A DT 7 1_555 B 7DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.116 -0.441 3.227 1.057 -0.770 33.123 -0.646 0.379 3.231 -1.350 -1.852 33.148 7 AA_DT107DT108:DA2177DA218_BB A 107 ? B 218 ? A 108 ? B 217 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.275 -0.306 3.503 -0.078 -1.140 43.049 -0.296 0.366 3.510 -1.553 0.106 43.064 8 AA_DT108DC109:DG216DA217_BB A 108 ? B 217 ? A 109 ? B 216 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 0.566 0.695 3.022 -2.834 4.695 24.943 0.321 -2.035 3.018 10.705 6.461 25.529 9 AA_DC109DG110:DC215DG216_BB A 109 ? B 216 ? A 110 ? B 215 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.243 0.544 3.380 -3.151 -10.243 42.816 1.718 1.351 3.252 -13.775 4.237 44.075 10 AA_DG110DC111:DG214DC215_BB A 110 ? B 215 ? A 111 ? B 214 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 -0.281 0.255 3.175 -1.291 5.853 32.752 -0.511 0.280 3.180 10.272 2.267 33.281 11 AA_DC111DG112:DC213DG214_BB A 111 ? B 214 ? A 112 ? B 213 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 'SODIUM ION' NA 4 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 355D _pdbx_initial_refinement_model.details 'PDB ENTRY 355D' #