data_3R86 # _entry.id 3R86 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 3R86 pdb_00003r86 10.2210/pdb3r86/pdb NDB NA1035 ? ? RCSB RCSB064610 ? ? WWPDB D_1000064610 ? ? # 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 2011-04-06 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2018-02-14 4 'Structure model' 1 3 2024-03-20 5 'Structure model' 1 4 2024-04-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Experimental preparation' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 5 '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' exptl_crystal_grow 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_struct_conn_angle 6 4 'Structure model' struct_conn 7 4 'Structure model' struct_site 8 5 'Structure model' pdbx_initial_refinement_model # 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' '_exptl_crystal_grow.pdbx_details' 2 3 'Structure model' '_exptl_crystal_grow.temp' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 4 'Structure model' '_database_2.pdbx_database_accession' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_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_seq_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.value' 17 4 'Structure model' '_struct_conn.pdbx_dist_value' 18 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 19 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 20 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 21 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 22 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 23 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 24 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 25 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 26 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 27 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 28 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 29 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 30 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 31 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 32 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 33 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3R86 _pdbx_database_status.recvd_initial_deposition_date 2011-03-23 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _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 'Venkadesh, S.' 1 'Mandal, P.K.' 2 'Gautham, N.' 3 # _citation.id primary _citation.title 'Crystal structure of d(CCGGTACCGG)2 as B-DNA duplex' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Venkadesh, S.' 1 ? primary 'Mandal, P.K.' 2 ? primary 'Gautham, N.' 3 ? # 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*CP*GP*GP*TP*AP*CP*CP*GP*G)-3') ; 3045.992 2 ? ? ? ? 2 non-polymer syn 'COBALT (II) ION' 58.933 3 ? ? ? ? 3 water nat water 18.015 11 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DC)(DG)(DG)(DT)(DA)(DC)(DC)(DG)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CCGGTACCGG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'COBALT (II) ION' CO 3 water HOH # 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 DC n 1 3 DG n 1 4 DG n 1 5 DT n 1 6 DA n 1 7 DC n 1 8 DC n 1 9 DG n 1 10 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Chemically synthesized' # 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 CO non-polymer . 'COBALT (II) ION' ? 'Co 2' 58.933 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 # 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 1 1 DC C A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DT 5 5 5 DT T A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DC 7 7 7 DC C A . n A 1 8 DC 8 8 8 DC C A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DG 10 10 10 DG G A . n B 1 1 DC 1 1 1 DC C B . n B 1 2 DC 2 2 2 DC C B . n B 1 3 DG 3 3 3 DG G B . n B 1 4 DG 4 4 4 DG G B . n B 1 5 DT 5 5 5 DT T B . n B 1 6 DA 6 6 6 DA A B . n B 1 7 DC 7 7 7 DC C B . n B 1 8 DC 8 8 8 DC C B . n B 1 9 DG 9 9 9 DG G B . n B 1 10 DG 10 10 10 DG G 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 CO 1 11 2 CO CO A . D 2 CO 1 11 1 CO CO B . E 2 CO 1 12 3 CO CO B . F 3 HOH 1 12 5 HOH HOH A . F 3 HOH 2 13 6 HOH HOH A . F 3 HOH 3 14 9 HOH HOH A . F 3 HOH 4 15 10 HOH HOH A . G 3 HOH 1 13 1 HOH HOH B . G 3 HOH 2 14 2 HOH HOH B . G 3 HOH 3 15 3 HOH HOH B . G 3 HOH 4 16 4 HOH HOH B . G 3 HOH 5 17 7 HOH HOH B . G 3 HOH 6 18 8 HOH HOH B . G 3 HOH 7 19 11 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal _software.date _software.type _software.location _software.language MxCuBE 'data collection' . ? 1 ? ? ? ? AMoRE phasing . ? 2 ? ? ? ? REFMAC refinement 5.5.0109 ? 3 ? ? ? ? AUTOMAR 'data reduction' . ? 4 ? ? ? ? # _cell.entry_id 3R86 _cell.length_a 32.756 _cell.length_b 32.756 _cell.length_c 93.648 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _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 3R86 _symmetry.space_group_name_H-M 'P 61' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3R86 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.38 _exptl_crystal.density_percent_sol 48.33 _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 7.0 _exptl_crystal_grow.pdbx_details '1mM DNA, 50mM Sodium Cacodylate buffer, 5mM CoCl2,1mM Spermine, 50% MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2010-07-07 _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(111) monochromator' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.604 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE BM14' _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline BM14 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.604 # _reflns.entry_id 3R86 _reflns.observed_criterion_sigma_I 1.0 _reflns.observed_criterion_sigma_F 1.0 _reflns.d_resolution_low 28.4 _reflns.d_resolution_high 2.8 _reflns.number_obs 1382 _reflns.number_all 1410 _reflns.percent_possible_obs 98.0 _reflns.pdbx_Rmerge_I_obs 0.051 _reflns.pdbx_Rsym_value 0.047 _reflns.pdbx_netI_over_sigmaI 3.7 _reflns.B_iso_Wilson_estimate 67.3 _reflns.pdbx_redundancy 5.4 _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_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.803 _reflns_shell.d_res_low 2.873 _reflns_shell.percent_possible_all 99.0 _reflns_shell.Rmerge_I_obs 0.390 _reflns_shell.pdbx_Rsym_value 0.402 _reflns_shell.meanI_over_sigI_obs 1.4 _reflns_shell.pdbx_redundancy 5.5 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 77 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.number_possible ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.meanI_over_sigI_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3R86 _refine.ls_number_reflns_obs 1310 _refine.ls_number_reflns_all 1410 _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 28.37 _refine.ls_d_res_high 2.80 _refine.ls_percent_reflns_obs 97.94 _refine.ls_R_factor_obs 0.27561 _refine.ls_R_factor_all 0.27561 _refine.ls_R_factor_R_work 0.26004 _refine.ls_R_factor_R_free 0.27001 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.2 _refine.ls_number_reflns_R_free 72 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.950 _refine.correlation_coeff_Fo_to_Fc_free 0.934 _refine.B_iso_mean 45.978 _refine.aniso_B[1][1] -7.96 _refine.aniso_B[2][2] -7.96 _refine.aniso_B[3][3] 15.92 _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 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 'B-DNA fiber model' _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_Free 0.105 _refine.overall_SU_ML 0.384 _refine.overall_SU_B 21.376 _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_overall_ESU_R ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 404 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 11 _refine_hist.number_atoms_total 418 _refine_hist.d_res_high 2.80 _refine_hist.d_res_low 28.37 # 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_restraint_function _refine_ls_restr.pdbx_refine_id r_bond_refined_d 0.029 0.021 ? 452 ? 'X-RAY DIFFRACTION' r_angle_refined_deg 3.900 3.000 ? 694 ? 'X-RAY DIFFRACTION' r_chiral_restr 0.183 0.200 ? 78 ? 'X-RAY DIFFRACTION' r_gen_planes_refined 0.013 0.020 ? 210 ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.803 _refine_ls_shell.d_res_low 2.875 _refine_ls_shell.number_reflns_R_work 77 _refine_ls_shell.R_factor_R_work 0.655 _refine_ls_shell.percent_reflns_obs 84.85 _refine_ls_shell.R_factor_R_free 0.892 _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 77 _refine_ls_shell.redundancy_reflns_obs ? # _database_PDB_matrix.entry_id 3R86 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 3R86 _struct.title 'Crystal structure of d(CCGGTACCGG)2 as B-DNA duplex grown with 5 mM CoCl2' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3R86 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Duplex, 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 2 ? E N N 2 ? F N N 3 ? G N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3R86 _struct_ref.pdbx_db_accession 3R86 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3R86 A 1 ? 10 ? 3R86 1 ? 10 ? 1 10 2 1 3R86 B 1 ? 10 ? 3R86 1 ? 10 ? 1 10 # _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 # 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)' 920 ? 1 MORE -3 ? 1 'SSA (A^2)' 3810 ? # _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 # _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_ _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 metalc1 metalc ? ? A DG 3 C8 ? ? ? 1_555 C CO . CO ? ? A DG 3 A CO 11 1_555 ? ? ? ? ? ? ? 2.787 ? ? metalc2 metalc ? ? C CO . CO ? ? ? 1_555 F HOH . O ? ? A CO 11 A HOH 13 1_555 ? ? ? ? ? ? ? 2.225 ? ? metalc3 metalc ? ? B DG 3 N7 ? ? ? 1_555 D CO . CO ? ? B DG 3 B CO 11 1_555 ? ? ? ? ? ? ? 2.520 ? ? metalc4 metalc ? ? B DG 9 N7 ? ? ? 1_555 E CO . CO ? ? B DG 9 B CO 12 1_555 ? ? ? ? ? ? ? 2.560 ? ? metalc5 metalc ? ? D CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 11 B HOH 14 1_555 ? ? ? ? ? ? ? 2.382 ? ? metalc6 metalc ? ? E CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 12 B HOH 15 1_555 ? ? ? ? ? ? ? 2.771 ? ? hydrog1 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 1 B DG 9 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 1 B DG 10 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog3 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 9 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog4 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 3 B DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 3 B DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 3 B DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 4 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 4 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 4 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 5 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 5 B DA 6 1_555 ? ? ? ? ? ? 'DT-DA PAIR' ? ? ? hydrog11 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 5 N3 ? ? A DA 6 B DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 5 O4 ? ? A DA 6 B DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 8 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 8 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 8 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog20 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # 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 C8 ? A DG 3 ? A DG 3 ? 1_555 CO ? C CO . ? A CO 11 ? 1_555 O ? F HOH . ? A HOH 13 ? 1_555 78.1 ? 2 N7 ? B DG 3 ? B DG 3 ? 1_555 CO ? D CO . ? B CO 11 ? 1_555 O ? G HOH . ? B HOH 14 ? 1_555 78.4 ? 3 N7 ? B DG 9 ? B DG 9 ? 1_555 CO ? E CO . ? B CO 12 ? 1_555 O ? G HOH . ? B HOH 15 ? 1_555 57.1 ? # 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 CO 11 ? 2 'BINDING SITE FOR RESIDUE CO A 11' AC2 Software B CO 11 ? 2 'BINDING SITE FOR RESIDUE CO B 11' AC3 Software B CO 12 ? 2 'BINDING SITE FOR RESIDUE CO B 12' # 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 2 DG A 3 ? DG A 3 . ? 1_555 ? 2 AC1 2 HOH F . ? HOH A 13 . ? 1_555 ? 3 AC2 2 DG B 3 ? DG B 3 . ? 1_555 ? 4 AC2 2 HOH G . ? HOH B 14 . ? 1_555 ? 5 AC3 2 DG B 9 ? DG B 9 . ? 1_555 ? 6 AC3 2 HOH G . ? HOH B 15 . ? 1_555 ? # 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 "C5'" A DC 2 ? ? "C4'" A DC 2 ? ? 1.562 1.512 0.050 0.007 N 2 1 N1 A DC 2 ? ? C2 A DC 2 ? ? 1.494 1.397 0.097 0.010 N 3 1 C2 A DC 2 ? ? N3 A DC 2 ? ? 1.411 1.353 0.058 0.008 N 4 1 N3 A DC 2 ? ? C4 A DC 2 ? ? 1.383 1.335 0.048 0.007 N 5 1 C4 A DC 2 ? ? C5 A DC 2 ? ? 1.482 1.425 0.057 0.008 N 6 1 "O3'" A DG 3 ? ? "C3'" A DG 3 ? ? 1.589 1.435 0.154 0.013 N 7 1 C2 A DG 3 ? ? N3 A DG 3 ? ? 1.378 1.323 0.055 0.008 N 8 1 C5 A DG 3 ? ? N7 A DG 3 ? ? 1.431 1.388 0.043 0.006 N 9 1 N7 A DG 3 ? ? C8 A DG 3 ? ? 1.343 1.305 0.038 0.006 N 10 1 N9 A DG 3 ? ? C4 A DG 3 ? ? 1.428 1.375 0.053 0.008 N 11 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.558 1.512 0.046 0.007 N 12 1 N9 A DG 4 ? ? C4 A DG 4 ? ? 1.429 1.375 0.054 0.008 N 13 1 "C5'" A DT 5 ? ? "C4'" A DT 5 ? ? 1.571 1.512 0.059 0.007 N 14 1 P A DG 10 ? ? "O5'" A DG 10 ? ? 1.660 1.593 0.067 0.010 N 15 1 C6 B DG 3 ? ? N1 B DG 3 ? ? 1.434 1.391 0.043 0.007 N 16 1 "O3'" B DT 5 ? ? "C3'" B DT 5 ? ? 1.362 1.419 -0.057 0.006 N 17 1 "O3'" B DT 5 ? ? P B DA 6 ? ? 1.400 1.607 -0.207 0.012 Y 18 1 P B DA 6 ? ? "O5'" B DA 6 ? ? 1.431 1.593 -0.162 0.010 N 19 1 "C5'" B DC 7 ? ? "C4'" B DC 7 ? ? 1.558 1.512 0.046 0.007 N 20 1 N1 B DC 7 ? ? C2 B DC 7 ? ? 1.473 1.397 0.076 0.010 N 21 1 N3 B DC 7 ? ? C4 B DC 7 ? ? 1.398 1.335 0.063 0.007 N 22 1 C4 B DC 7 ? ? C5 B DC 7 ? ? 1.487 1.425 0.062 0.008 N 23 1 P B DC 8 ? ? "O5'" B DC 8 ? ? 1.655 1.593 0.062 0.010 N 24 1 "C5'" B DC 8 ? ? "C4'" B DC 8 ? ? 1.581 1.512 0.069 0.007 N 25 1 "C1'" B DC 8 ? ? N1 B DC 8 ? ? 1.614 1.488 0.126 0.013 N 26 1 C2 B DC 8 ? ? O2 B DC 8 ? ? 1.309 1.240 0.069 0.009 N 27 1 N1 B DC 8 ? ? C2 B DC 8 ? ? 1.457 1.397 0.060 0.010 N 28 1 N1 B DC 8 ? ? C6 B DC 8 ? ? 1.424 1.367 0.057 0.006 N 29 1 C2 B DC 8 ? ? N3 B DC 8 ? ? 1.423 1.353 0.070 0.008 N 30 1 N3 B DC 8 ? ? C4 B DC 8 ? ? 1.392 1.335 0.057 0.007 N 31 1 "O3'" B DG 9 ? ? "C3'" B DG 9 ? ? 1.548 1.435 0.113 0.013 N 32 1 N9 B DG 10 ? ? C4 B DG 10 ? ? 1.426 1.375 0.051 0.008 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 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 113.86 108.30 5.56 0.30 N 2 1 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 119.44 121.90 -2.46 0.40 N 3 1 "O4'" A DC 2 ? ? "C4'" A DC 2 ? ? "C3'" A DC 2 ? ? 99.66 104.50 -4.84 0.40 N 4 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? "C2'" A DC 2 ? ? 98.44 105.90 -7.46 0.80 N 5 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 99.41 108.00 -8.59 0.70 N 6 1 N1 A DC 2 ? ? C2 A DC 2 ? ? O2 A DC 2 ? ? 127.50 118.90 8.60 0.60 N 7 1 N3 A DC 2 ? ? C2 A DC 2 ? ? O2 A DC 2 ? ? 113.68 121.90 -8.22 0.70 N 8 1 C6 A DC 2 ? ? N1 A DC 2 ? ? "C1'" A DC 2 ? ? 108.17 120.80 -12.63 1.20 N 9 1 C2 A DC 2 ? ? N1 A DC 2 ? ? "C1'" A DC 2 ? ? 131.93 118.80 13.13 1.10 N 10 1 "C3'" A DC 2 ? ? "O3'" A DC 2 ? ? P A DG 3 ? ? 131.43 119.70 11.73 1.20 Y 11 1 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9 A DG 3 ? ? 113.85 108.30 5.55 0.30 N 12 1 N3 A DG 3 ? ? C4 A DG 3 ? ? C5 A DG 3 ? ? 125.24 128.60 -3.36 0.50 N 13 1 N7 A DG 3 ? ? C8 A DG 3 ? ? N9 A DG 3 ? ? 116.46 113.10 3.36 0.50 N 14 1 C8 A DG 3 ? ? N9 A DG 3 ? ? C4 A DG 3 ? ? 103.17 106.40 -3.23 0.40 N 15 1 N1 A DG 3 ? ? C2 A DG 3 ? ? N2 A DG 3 ? ? 110.36 116.20 -5.84 0.90 N 16 1 N3 A DG 3 ? ? C2 A DG 3 ? ? N2 A DG 3 ? ? 125.23 119.90 5.33 0.70 N 17 1 N1 A DG 3 ? ? C6 A DG 3 ? ? O6 A DG 3 ? ? 112.32 119.90 -7.58 0.60 N 18 1 C5 A DG 3 ? ? C6 A DG 3 ? ? O6 A DG 3 ? ? 133.67 128.60 5.07 0.60 N 19 1 "C3'" A DG 3 ? ? "O3'" A DG 3 ? ? P A DG 4 ? ? 133.21 119.70 13.51 1.20 Y 20 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 116.18 108.30 7.88 0.30 N 21 1 N3 A DG 4 ? ? C4 A DG 4 ? ? C5 A DG 4 ? ? 124.44 128.60 -4.16 0.50 N 22 1 N3 A DG 4 ? ? C4 A DG 4 ? ? N9 A DG 4 ? ? 130.94 126.00 4.94 0.60 N 23 1 C6 A DG 4 ? ? C5 A DG 4 ? ? N7 A DG 4 ? ? 126.11 130.40 -4.29 0.60 N 24 1 N1 A DG 4 ? ? C2 A DG 4 ? ? N2 A DG 4 ? ? 107.26 116.20 -8.94 0.90 N 25 1 N3 A DG 4 ? ? C2 A DG 4 ? ? N2 A DG 4 ? ? 125.99 119.90 6.09 0.70 N 26 1 "C3'" A DT 5 ? ? "C2'" A DT 5 ? ? "C1'" A DT 5 ? ? 91.04 102.40 -11.36 0.80 N 27 1 N1 A DT 5 ? ? "C1'" A DT 5 ? ? "C2'" A DT 5 ? ? 125.53 114.30 11.23 1.40 N 28 1 "O4'" A DT 5 ? ? "C1'" A DT 5 ? ? N1 A DT 5 ? ? 110.68 108.30 2.38 0.30 N 29 1 "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? "C1'" A DA 6 ? ? 97.07 102.40 -5.33 0.80 N 30 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 99.76 108.00 -8.24 0.70 N 31 1 "O4'" A DC 7 ? ? "C4'" A DC 7 ? ? "C3'" A DC 7 ? ? 101.34 104.50 -3.16 0.40 N 32 1 C2 A DC 7 ? ? N3 A DC 7 ? ? C4 A DC 7 ? ? 116.73 119.90 -3.17 0.50 N 33 1 "C3'" A DC 7 ? ? "O3'" A DC 7 ? ? P A DC 8 ? ? 129.34 119.70 9.64 1.20 Y 34 1 "O4'" A DC 8 ? ? "C4'" A DC 8 ? ? "C3'" A DC 8 ? ? 99.46 104.50 -5.04 0.40 N 35 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 111.22 108.30 2.92 0.30 N 36 1 C2 A DC 8 ? ? N1 A DC 8 ? ? "C1'" A DC 8 ? ? 125.94 118.80 7.14 1.10 N 37 1 "C5'" A DG 9 ? ? "C4'" A DG 9 ? ? "O4'" A DG 9 ? ? 120.32 109.80 10.52 1.10 N 38 1 "C1'" A DG 9 ? ? "O4'" A DG 9 ? ? "C4'" A DG 9 ? ? 103.73 110.10 -6.37 1.00 N 39 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 117.28 108.30 8.98 0.30 N 40 1 C4 A DG 9 ? ? C5 A DG 9 ? ? N7 A DG 9 ? ? 113.43 110.80 2.63 0.40 N 41 1 C8 A DG 9 ? ? N9 A DG 9 ? ? C4 A DG 9 ? ? 109.58 106.40 3.18 0.40 N 42 1 N9 A DG 9 ? ? C4 A DG 9 ? ? C5 A DG 9 ? ? 101.97 105.40 -3.43 0.40 N 43 1 N3 A DG 9 ? ? C2 A DG 9 ? ? N2 A DG 9 ? ? 125.66 119.90 5.76 0.70 N 44 1 "O4'" B DC 1 ? ? "C4'" B DC 1 ? ? "C3'" B DC 1 ? ? 101.74 104.50 -2.76 0.40 N 45 1 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 102.32 108.00 -5.68 0.70 N 46 1 "O4'" B DC 2 ? ? "C1'" B DC 2 ? ? N1 B DC 2 ? ? 111.46 108.30 3.16 0.30 N 47 1 N1 B DC 2 ? ? C2 B DC 2 ? ? O2 B DC 2 ? ? 123.86 118.90 4.96 0.60 N 48 1 C6 B DC 2 ? ? N1 B DC 2 ? ? "C1'" B DC 2 ? ? 109.37 120.80 -11.43 1.20 N 49 1 C2 B DC 2 ? ? N1 B DC 2 ? ? "C1'" B DC 2 ? ? 128.57 118.80 9.77 1.10 N 50 1 "C4'" B DG 3 ? ? "C3'" B DG 3 ? ? "C2'" B DG 3 ? ? 97.83 102.20 -4.37 0.70 N 51 1 "O4'" B DG 3 ? ? "C1'" B DG 3 ? ? N9 B DG 3 ? ? 103.22 108.00 -4.78 0.70 N 52 1 C2 B DG 3 ? ? N3 B DG 3 ? ? C4 B DG 3 ? ? 115.50 111.90 3.60 0.50 N 53 1 C5 B DG 3 ? ? C6 B DG 3 ? ? N1 B DG 3 ? ? 114.56 111.50 3.06 0.50 N 54 1 "C3'" B DG 3 ? ? "O3'" B DG 3 ? ? P B DG 4 ? ? 128.14 119.70 8.44 1.20 Y 55 1 C5 B DG 4 ? ? C6 B DG 4 ? ? O6 B DG 4 ? ? 124.72 128.60 -3.88 0.60 N 56 1 "O4'" B DT 5 ? ? "C4'" B DT 5 ? ? "C3'" B DT 5 ? ? 95.77 104.50 -8.73 0.40 N 57 1 "C1'" B DT 5 ? ? "O4'" B DT 5 ? ? "C4'" B DT 5 ? ? 103.91 110.10 -6.19 1.00 N 58 1 "C4'" B DT 5 ? ? "C3'" B DT 5 ? ? "O3'" B DT 5 ? ? 132.47 112.30 20.17 2.00 N 59 1 "C4'" B DT 5 ? ? "C3'" B DT 5 ? ? "C2'" B DT 5 ? ? 109.11 103.10 6.01 0.90 N 60 1 "C3'" B DT 5 ? ? "C2'" B DT 5 ? ? "C1'" B DT 5 ? ? 96.40 102.40 -6.00 0.80 N 61 1 C5 B DT 5 ? ? C4 B DT 5 ? ? O4 B DT 5 ? ? 120.05 124.90 -4.85 0.70 N 62 1 "O5'" B DA 6 ? ? P B DA 6 ? ? OP1 B DA 6 ? ? 119.43 110.70 8.73 1.20 N 63 1 P B DA 6 ? ? "O5'" B DA 6 ? ? "C5'" B DA 6 ? ? 130.89 120.90 9.99 1.60 N 64 1 "O4'" B DA 6 ? ? "C4'" B DA 6 ? ? "C3'" B DA 6 ? ? 101.27 104.50 -3.23 0.40 N 65 1 C2 B DC 7 ? ? N3 B DC 7 ? ? C4 B DC 7 ? ? 115.39 119.90 -4.51 0.50 N 66 1 N3 B DC 7 ? ? C4 B DC 7 ? ? C5 B DC 7 ? ? 125.07 121.90 3.17 0.40 N 67 1 C6 B DC 7 ? ? N1 B DC 7 ? ? "C1'" B DC 7 ? ? 109.92 120.80 -10.88 1.20 N 68 1 C2 B DC 7 ? ? N1 B DC 7 ? ? "C1'" B DC 7 ? ? 129.20 118.80 10.40 1.10 N 69 1 "C3'" B DC 7 ? ? "O3'" B DC 7 ? ? P B DC 8 ? ? 127.28 119.70 7.58 1.20 Y 70 1 P B DC 8 ? ? "O5'" B DC 8 ? ? "C5'" B DC 8 ? ? 131.59 120.90 10.69 1.60 N 71 1 "C3'" B DC 8 ? ? "C2'" B DC 8 ? ? "C1'" B DC 8 ? ? 96.64 102.40 -5.76 0.80 N 72 1 "O4'" B DC 8 ? ? "C1'" B DC 8 ? ? N1 B DC 8 ? ? 115.68 108.30 7.38 0.30 N 73 1 N1 B DC 8 ? ? C2 B DC 8 ? ? O2 B DC 8 ? ? 125.04 118.90 6.14 0.60 N 74 1 N3 B DC 8 ? ? C2 B DC 8 ? ? O2 B DC 8 ? ? 117.03 121.90 -4.87 0.70 N 75 1 "C1'" B DG 9 ? ? "O4'" B DG 9 ? ? "C4'" B DG 9 ? ? 104.04 110.10 -6.06 1.00 N 76 1 N9 B DG 9 ? ? "C1'" B DG 9 ? ? "C2'" B DG 9 ? ? 125.25 114.30 10.95 1.40 N 77 1 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 115.47 108.30 7.17 0.30 N 78 1 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.79 106.40 -2.61 0.40 N 79 1 N3 B DG 9 ? ? C2 B DG 9 ? ? N2 B DG 9 ? ? 115.24 119.90 -4.66 0.70 N 80 1 C5 B DG 9 ? ? C6 B DG 9 ? ? O6 B DG 9 ? ? 124.98 128.60 -3.62 0.60 N 81 1 "C3'" B DG 9 ? ? "O3'" B DG 9 ? ? P B DG 10 ? ? 131.44 119.70 11.74 1.20 Y 82 1 "O4'" B DG 10 ? ? "C4'" B DG 10 ? ? "C3'" B DG 10 ? ? 100.11 104.50 -4.39 0.40 N 83 1 "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? "O4'" B DG 10 ? ? 118.71 109.80 8.91 1.10 N 84 1 C2 B DG 10 ? ? N3 B DG 10 ? ? C4 B DG 10 ? ? 115.74 111.90 3.84 0.50 N 85 1 N3 B DG 10 ? ? C4 B DG 10 ? ? C5 B DG 10 ? ? 123.87 128.60 -4.73 0.50 N 86 1 C8 B DG 10 ? ? N9 B DG 10 ? ? C4 B DG 10 ? ? 103.65 106.40 -2.75 0.40 N 87 1 N3 B DG 10 ? ? C4 B DG 10 ? ? N9 B DG 10 ? ? 129.96 126.00 3.96 0.60 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 CO CO CO N N 1 DA OP3 O N N 2 DA P P N N 3 DA OP1 O N N 4 DA OP2 O N N 5 DA "O5'" O N N 6 DA "C5'" C N N 7 DA "C4'" C N R 8 DA "O4'" O N N 9 DA "C3'" C N S 10 DA "O3'" O N N 11 DA "C2'" C N N 12 DA "C1'" C N R 13 DA N9 N Y N 14 DA C8 C Y N 15 DA N7 N Y N 16 DA C5 C Y N 17 DA C6 C Y N 18 DA N6 N N N 19 DA N1 N Y N 20 DA C2 C Y N 21 DA N3 N Y N 22 DA C4 C Y N 23 DA HOP3 H N N 24 DA HOP2 H N N 25 DA "H5'" H N N 26 DA "H5''" H N N 27 DA "H4'" H N N 28 DA "H3'" H N N 29 DA "HO3'" H N N 30 DA "H2'" H N N 31 DA "H2''" H N N 32 DA "H1'" H N N 33 DA H8 H N N 34 DA H61 H N N 35 DA H62 H N N 36 DA H2 H N N 37 DC OP3 O N N 38 DC P P N N 39 DC OP1 O N N 40 DC OP2 O N N 41 DC "O5'" O N N 42 DC "C5'" C N N 43 DC "C4'" C N R 44 DC "O4'" O N N 45 DC "C3'" C N S 46 DC "O3'" O N N 47 DC "C2'" C N N 48 DC "C1'" C N R 49 DC N1 N N N 50 DC C2 C N N 51 DC O2 O N N 52 DC N3 N N N 53 DC C4 C N N 54 DC N4 N N N 55 DC C5 C N N 56 DC C6 C N N 57 DC HOP3 H N N 58 DC HOP2 H N N 59 DC "H5'" H N N 60 DC "H5''" H N N 61 DC "H4'" H N N 62 DC "H3'" H N N 63 DC "HO3'" H N N 64 DC "H2'" H N N 65 DC "H2''" H N N 66 DC "H1'" H N N 67 DC H41 H N N 68 DC H42 H N N 69 DC H5 H N N 70 DC H6 H N N 71 DG OP3 O N N 72 DG P P N N 73 DG OP1 O N N 74 DG OP2 O N N 75 DG "O5'" O N N 76 DG "C5'" C N N 77 DG "C4'" C N R 78 DG "O4'" O N N 79 DG "C3'" C N S 80 DG "O3'" O N N 81 DG "C2'" C N N 82 DG "C1'" C N R 83 DG N9 N Y N 84 DG C8 C Y N 85 DG N7 N Y N 86 DG C5 C Y N 87 DG C6 C N N 88 DG O6 O N N 89 DG N1 N N N 90 DG C2 C N N 91 DG N2 N N N 92 DG N3 N N N 93 DG C4 C Y N 94 DG HOP3 H N N 95 DG HOP2 H N N 96 DG "H5'" H N N 97 DG "H5''" H N N 98 DG "H4'" H N N 99 DG "H3'" H N N 100 DG "HO3'" H N N 101 DG "H2'" H N N 102 DG "H2''" H N N 103 DG "H1'" H N N 104 DG H8 H N N 105 DG H1 H N N 106 DG H21 H N N 107 DG H22 H N N 108 DT OP3 O N N 109 DT P P N N 110 DT OP1 O N N 111 DT OP2 O N N 112 DT "O5'" O N N 113 DT "C5'" C N N 114 DT "C4'" C N R 115 DT "O4'" O N N 116 DT "C3'" C N S 117 DT "O3'" O N N 118 DT "C2'" C N N 119 DT "C1'" C N R 120 DT N1 N N N 121 DT C2 C N N 122 DT O2 O N N 123 DT N3 N N N 124 DT C4 C N N 125 DT O4 O N N 126 DT C5 C N N 127 DT C7 C N N 128 DT C6 C N N 129 DT HOP3 H N N 130 DT HOP2 H N N 131 DT "H5'" H N N 132 DT "H5''" H N N 133 DT "H4'" H N N 134 DT "H3'" H N N 135 DT "HO3'" H N N 136 DT "H2'" H N N 137 DT "H2''" H N N 138 DT "H1'" H N N 139 DT H3 H N N 140 DT H71 H N N 141 DT H72 H N N 142 DT H73 H N N 143 DT H6 H N N 144 HOH O O N N 145 HOH H1 H N N 146 HOH H2 H N N 147 # 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 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3R86 'double helix' 3R86 '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 10 1_555 -1.152 0.143 0.500 -7.190 -0.164 -14.323 1 A_DC1:DG10_B A 1 ? B 10 ? ? 1 1 A DC 2 1_555 B DG 9 1_555 -0.593 0.339 1.216 -7.803 -7.148 -10.441 2 A_DC2:DG9_B A 2 ? B 9 ? ? 1 1 A DG 3 1_555 B DC 8 1_555 0.257 0.208 0.881 15.149 -12.235 -11.147 3 A_DG3:DC8_B A 3 ? B 8 ? 19 1 1 A DG 4 1_555 B DC 7 1_555 0.386 0.013 0.753 16.694 9.562 -9.993 4 A_DG4:DC7_B A 4 ? B 7 ? 19 1 1 A DT 5 1_555 B DA 6 1_555 0.005 0.716 0.102 16.987 -10.925 -18.625 5 A_DT5:DA6_B A 5 ? B 6 ? ? ? 1 A DA 6 1_555 B DT 5 1_555 0.647 -0.541 0.889 16.951 -10.778 -7.250 6 A_DA6:DT5_B A 6 ? B 5 ? 20 1 1 A DC 7 1_555 B DG 4 1_555 -0.392 -0.551 0.123 -2.139 5.865 -2.600 7 A_DC7:DG4_B A 7 ? B 4 ? 19 1 1 A DC 8 1_555 B DG 3 1_555 -0.354 -0.394 0.698 -6.748 0.900 -13.817 8 A_DC8:DG3_B A 8 ? B 3 ? 19 1 1 A DG 9 1_555 B DC 2 1_555 0.232 0.176 0.407 1.937 -2.365 -22.959 9 A_DG9:DC2_B A 9 ? B 2 ? ? 1 1 A DG 10 1_555 B DC 1 1_555 0.376 -0.500 0.288 -6.882 -7.311 -7.818 10 A_DG10:DC1_B A 10 ? B 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 DC 1 1_555 B DG 10 1_555 A DC 2 1_555 B DG 9 1_555 1.944 -0.910 3.090 -4.525 11.430 52.569 -1.640 -2.397 2.689 12.709 5.031 53.888 1 AA_DC1DC2:DG9DG10_BB A 1 ? B 10 ? A 2 ? B 9 ? 1 A DC 2 1_555 B DG 9 1_555 A DG 3 1_555 B DC 8 1_555 -0.972 0.760 2.567 -1.741 5.355 26.661 0.519 1.707 2.721 11.450 3.724 27.239 2 AA_DC2DG3:DC8DG9_BB A 2 ? B 9 ? A 3 ? B 8 ? 1 A DG 3 1_555 B DC 8 1_555 A DG 4 1_555 B DC 7 1_555 -0.202 0.254 3.428 -7.867 -13.327 35.288 2.122 -0.718 3.112 -20.793 12.274 38.433 3 AA_DG3DG4:DC7DC8_BB A 3 ? B 8 ? A 4 ? B 7 ? 1 A DG 4 1_555 B DC 7 1_555 A DT 5 1_555 B DA 6 1_555 0.298 -0.343 3.451 1.379 -8.024 27.013 1.307 -0.267 3.419 -16.702 -2.870 28.191 4 AA_DG4DT5:DA6DC7_BB A 4 ? B 7 ? A 5 ? B 6 ? 1 A DT 5 1_555 B DA 6 1_555 A DA 6 1_555 B DT 5 1_555 0.156 -1.182 3.226 -1.024 5.131 42.114 -2.136 -0.317 3.064 7.108 1.418 42.423 5 AA_DT5DA6:DT5DA6_BB A 5 ? B 6 ? A 6 ? B 5 ? 1 A DA 6 1_555 B DT 5 1_555 A DC 7 1_555 B DG 4 1_555 0.393 -1.602 3.664 4.728 -3.592 30.923 -2.176 0.297 3.837 -6.659 -8.767 31.474 6 AA_DA6DC7:DG4DT5_BB A 6 ? B 5 ? A 7 ? B 4 ? 1 A DC 7 1_555 B DG 4 1_555 A DC 8 1_555 B DG 3 1_555 -0.395 0.241 3.383 -0.262 0.577 35.356 0.309 0.610 3.390 0.950 0.431 35.362 7 AA_DC7DC8:DG3DG4_BB A 7 ? B 4 ? A 8 ? B 3 ? 1 A DC 8 1_555 B DG 3 1_555 A DG 9 1_555 B DC 2 1_555 -0.308 0.240 3.272 5.475 -1.484 27.345 0.847 1.929 3.134 -3.097 -11.426 27.916 8 AA_DC8DG9:DC2DG3_BB A 8 ? B 3 ? A 9 ? B 2 ? 1 A DG 9 1_555 B DC 2 1_555 A DG 10 1_555 B DC 1 1_555 0.812 -0.034 3.393 -2.233 4.208 44.095 -0.447 -1.289 3.333 5.585 2.963 44.338 9 AA_DG9DG10:DC1DC2_BB A 9 ? B 2 ? A 10 ? B 1 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type other _pdbx_initial_refinement_model.source_name ? _pdbx_initial_refinement_model.details 'B-DNA fiber model' # loop_ _pdbx_reflns_twin.domain_id _pdbx_reflns_twin.crystal_id _pdbx_reflns_twin.diffrn_id _pdbx_reflns_twin.type _pdbx_reflns_twin.operator _pdbx_reflns_twin.fraction 1 1 1 ? 'H, K, L' 0.485 2 1 1 ? h+k,-k,-l 0.515 # _atom_sites.entry_id 3R86 _atom_sites.fract_transf_matrix[1][1] 0.030529 _atom_sites.fract_transf_matrix[1][2] 0.017626 _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] 0.035252 _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] 0.010678 _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 CO N O P # loop_