data_284D # _entry.id 284D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 284D pdb_0000284d 10.2210/pdb284d/pdb RCSB UDH052 ? ? WWPDB D_1000177696 ? ? # 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 1997-06-11 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-14 # _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' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' diffrn_source 5 4 'Structure model' pdbx_struct_conn_angle 6 4 'Structure model' struct_conn 7 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' '_diffrn_source.pdbx_synchrotron_site' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_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_comp_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 4 'Structure model' '_pdbx_struct_conn_angle.value' 19 4 'Structure model' '_struct_conn.pdbx_dist_value' 20 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 21 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 22 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 23 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 24 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 25 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 26 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 27 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 28 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 29 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 30 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 31 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 32 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 33 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 34 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 35 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 36 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 37 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 284D _pdbx_database_status.recvd_initial_deposition_date 1996-09-11 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Salisbury, S.A.' 1 'Wilson, S.E.' 2 'Powell, H.R.' 3 'Kennard, O.' 4 'Lubini, P.' 5 'Sheldrick, G.M.' 6 'Escaja, N.' 7 'Alazzouzi, E.' 8 'Grandas, A.' 9 'Pedroso, E.' 10 # _citation.id primary _citation.title 'The bi-loop, a new general four-stranded DNA motif.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 94 _citation.page_first 5515 _citation.page_last 5518 _citation.year 1997 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 9159103 _citation.pdbx_database_id_DOI 10.1073/pnas.94.11.5515 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Salisbury, S.A.' 1 ? primary 'Wilson, S.E.' 2 ? primary 'Powell, H.R.' 3 ? primary 'Kennard, O.' 4 ? primary 'Lubini, P.' 5 ? primary 'Sheldrick, G.M.' 6 ? primary 'Escaja, N.' 7 ? primary 'Alazzouzi, E.' 8 ? primary 'Grandas, A.' 9 ? primary 'Pedroso, E.' 10 ? # 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'-CD(*P*AP*TP*TP*CP*AP*TP*TP*C)-3') ; 2376.591 2 ? ? ? ? 2 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 3 non-polymer syn 'BARIUM ION' 137.327 11 ? ? ? ? 4 water nat water 18.015 105 ? ? ? ? # _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 '(DA)(DT)(DT)(DC)(DA)(DT)(DT)(DC)' _entity_poly.pdbx_seq_one_letter_code_can ATTCATTC _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 'SODIUM ION' NA 3 'BARIUM ION' BA 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DA n 1 2 DT n 1 3 DT n 1 4 DC n 1 5 DA n 1 6 DT n 1 7 DT n 1 8 DC n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 # 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 DA 1 1 1 DA A A . n A 1 2 DT 2 2 2 DT T A . n A 1 3 DT 3 3 3 DT T A . n A 1 4 DC 4 4 4 DC C A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DC 8 8 8 DC C A . n B 1 1 DA 1 11 11 DA A B . n B 1 2 DT 2 12 12 DT T B . n B 1 3 DT 3 13 13 DT T B . n B 1 4 DC 4 14 14 DC C B . n B 1 5 DA 5 15 15 DA A B . n B 1 6 DT 6 16 16 DT T B . n B 1 7 DT 7 17 17 DT T B . n B 1 8 DC 8 18 18 DC C B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 NA 1 19 19 NA NA A . D 3 BA 1 28 28 BA BA A . E 3 BA 1 29 29 BA BA A . F 3 BA 1 30 30 BA BA A . G 3 BA 1 20 20 BA BA B . H 3 BA 1 21 21 BA BA B . I 3 BA 1 22 22 BA BA B . J 3 BA 1 23 23 BA BA B . K 3 BA 1 24 24 BA BA B . L 3 BA 1 25 25 BA BA B . M 3 BA 1 26 26 BA BA B . N 3 BA 1 27 27 BA BA B . O 4 HOH 1 31 31 HOH HOH A . O 4 HOH 2 34 34 HOH HOH A . O 4 HOH 3 39 39 HOH HOH A . O 4 HOH 4 47 47 HOH HOH A . O 4 HOH 5 50 50 HOH HOH A . O 4 HOH 6 54 54 HOH HOH A . O 4 HOH 7 57 57 HOH HOH A . O 4 HOH 8 58 58 HOH HOH A . O 4 HOH 9 60 60 HOH HOH A . O 4 HOH 10 62 62 HOH HOH A . O 4 HOH 11 64 64 HOH HOH A . O 4 HOH 12 65 65 HOH HOH A . O 4 HOH 13 66 66 HOH HOH A . O 4 HOH 14 67 67 HOH HOH A . O 4 HOH 15 76 76 HOH HOH A . O 4 HOH 16 77 77 HOH HOH A . O 4 HOH 17 78 78 HOH HOH A . O 4 HOH 18 84 84 HOH HOH A . O 4 HOH 19 85 85 HOH HOH A . O 4 HOH 20 88 88 HOH HOH A . O 4 HOH 21 89 89 HOH HOH A . O 4 HOH 22 90 90 HOH HOH A . O 4 HOH 23 107 107 HOH HOH A . O 4 HOH 24 128 128 HOH HOH A . O 4 HOH 25 130 130 HOH HOH A . O 4 HOH 26 134 134 HOH HOH A . O 4 HOH 27 135 135 HOH HOH A . P 4 HOH 1 32 32 HOH HOH B . P 4 HOH 2 33 33 HOH HOH B . P 4 HOH 3 35 35 HOH HOH B . P 4 HOH 4 36 36 HOH HOH B . P 4 HOH 5 37 37 HOH HOH B . P 4 HOH 6 38 38 HOH HOH B . P 4 HOH 7 40 40 HOH HOH B . P 4 HOH 8 41 41 HOH HOH B . P 4 HOH 9 42 42 HOH HOH B . P 4 HOH 10 43 43 HOH HOH B . P 4 HOH 11 44 44 HOH HOH B . P 4 HOH 12 45 45 HOH HOH B . P 4 HOH 13 46 46 HOH HOH B . P 4 HOH 14 48 48 HOH HOH B . P 4 HOH 15 49 49 HOH HOH B . P 4 HOH 16 51 51 HOH HOH B . P 4 HOH 17 52 52 HOH HOH B . P 4 HOH 18 53 53 HOH HOH B . P 4 HOH 19 55 55 HOH HOH B . P 4 HOH 20 56 56 HOH HOH B . P 4 HOH 21 59 59 HOH HOH B . P 4 HOH 22 61 61 HOH HOH B . P 4 HOH 23 63 63 HOH HOH B . P 4 HOH 24 68 68 HOH HOH B . P 4 HOH 25 69 69 HOH HOH B . P 4 HOH 26 70 70 HOH HOH B . P 4 HOH 27 71 71 HOH HOH B . P 4 HOH 28 72 72 HOH HOH B . P 4 HOH 29 73 73 HOH HOH B . P 4 HOH 30 74 74 HOH HOH B . P 4 HOH 31 75 75 HOH HOH B . P 4 HOH 32 79 79 HOH HOH B . P 4 HOH 33 80 80 HOH HOH B . P 4 HOH 34 81 81 HOH HOH B . P 4 HOH 35 82 82 HOH HOH B . P 4 HOH 36 83 83 HOH HOH B . P 4 HOH 37 86 86 HOH HOH B . P 4 HOH 38 87 87 HOH HOH B . P 4 HOH 39 91 91 HOH HOH B . P 4 HOH 40 92 92 HOH HOH B . P 4 HOH 41 93 93 HOH HOH B . P 4 HOH 42 94 94 HOH HOH B . P 4 HOH 43 95 95 HOH HOH B . P 4 HOH 44 96 96 HOH HOH B . P 4 HOH 45 97 97 HOH HOH B . P 4 HOH 46 98 98 HOH HOH B . P 4 HOH 47 99 99 HOH HOH B . P 4 HOH 48 100 100 HOH HOH B . P 4 HOH 49 101 101 HOH HOH B . P 4 HOH 50 102 102 HOH HOH B . P 4 HOH 51 103 103 HOH HOH B . P 4 HOH 52 104 104 HOH HOH B . P 4 HOH 53 105 105 HOH HOH B . P 4 HOH 54 106 106 HOH HOH B . P 4 HOH 55 108 108 HOH HOH B . P 4 HOH 56 109 109 HOH HOH B . P 4 HOH 57 110 110 HOH HOH B . P 4 HOH 58 111 111 HOH HOH B . P 4 HOH 59 112 112 HOH HOH B . P 4 HOH 60 113 113 HOH HOH B . P 4 HOH 61 114 114 HOH HOH B . P 4 HOH 62 115 115 HOH HOH B . P 4 HOH 63 116 116 HOH HOH B . P 4 HOH 64 117 117 HOH HOH B . P 4 HOH 65 118 118 HOH HOH B . P 4 HOH 66 119 119 HOH HOH B . P 4 HOH 67 120 120 HOH HOH B . P 4 HOH 68 121 121 HOH HOH B . P 4 HOH 69 122 122 HOH HOH B . P 4 HOH 70 123 123 HOH HOH B . P 4 HOH 71 124 124 HOH HOH B . P 4 HOH 72 125 125 HOH HOH B . P 4 HOH 73 126 126 HOH HOH B . P 4 HOH 74 127 127 HOH HOH B . P 4 HOH 75 129 129 HOH HOH B . P 4 HOH 76 131 131 HOH HOH B . P 4 HOH 77 132 132 HOH HOH B . P 4 HOH 78 133 133 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SHELXL-96 refinement . ? 1 DENZO 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 # _cell.entry_id 284D _cell.length_a 22.844 _cell.length_b 27.676 _cell.length_c 55.370 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 284D _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 # _exptl.entry_id 284D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.84 _exptl_crystal.density_percent_sol 36.0000 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'pH 7.00, VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 'NA CACODYLATE' ? ? ? 1 3 1 'BA ACETATE' ? ? ? 1 4 1 'PEG 4000' ? ? ? 1 5 2 WATER ? ? ? 1 6 2 'PEG 4000' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 120.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1995-08-18 _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 ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE X11' _diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG' _diffrn_source.pdbx_synchrotron_beamline X11 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 284D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high 1.100 _reflns.number_obs 19971 _reflns.number_all ? _reflns.percent_possible_obs 100.000 _reflns.pdbx_Rmerge_I_obs 0.0690000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 284D _refine.ls_number_reflns_obs 12662 _refine.ls_number_reflns_all 19924 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 4.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 9.000 _refine.ls_d_res_high 1.100 _refine.ls_percent_reflns_obs 100.000 _refine.ls_R_factor_obs 0.1990000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _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 ? _refine.ls_number_parameters 3484 _refine.ls_number_restraints 4248 _refine.occupancy_min ? _refine.occupancy_max ? _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_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'HEAVY ATOM METHOD' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values SHELXL _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _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 504 _refine_hist.pdbx_number_atoms_ligand 12 _refine_hist.number_atoms_solvent 105 _refine_hist.number_atoms_total 621 _refine_hist.d_res_high 1.100 _refine_hist.d_res_low 9.000 # 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 s_bond_d 0.006 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.006 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes ? ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr ? ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps ? ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 284D _pdbx_refine.R_factor_all_no_cutoff ? _pdbx_refine.R_factor_obs_no_cutoff 0.2280000 _pdbx_refine.free_R_factor_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff ? _pdbx_refine.free_R_val_test_set_ct_no_cutoff ? _pdbx_refine.R_factor_all_4sig_cutoff ? _pdbx_refine.R_factor_obs_4sig_cutoff 0.1990000 _pdbx_refine.free_R_factor_4sig_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff ? _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff ? _pdbx_refine.number_reflns_obs_4sig_cutoff 12662 _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 284D _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 284D _struct.title 'THE BI-LOOP, A NEW GENERAL FOUR-STRANDED DNA MOTIF' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 284D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'CYCLIC B-DNA, QUADRUPLE HELIX, BI-LOOP, 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 3 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 3 ? M N N 3 ? N N N 3 ? O N N 4 ? P N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 284D _struct_ref.pdbx_db_accession 284D _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 284D A 1 ? 8 ? 284D 1 ? 8 ? 1 8 2 1 284D B 1 ? 8 ? 284D 11 ? 18 ? 11 18 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _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,J,K,L,M,N,O,P # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # 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 1 P ? ? ? 1_555 A DC 8 "O3'" ? ? A DA 1 A DC 8 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale2 covale both ? B DA 1 P ? ? ? 1_555 B DC 8 "O3'" ? ? B DA 11 B DC 18 1_555 ? ? ? ? ? ? ? 1.641 ? ? metalc1 metalc ? ? A DT 2 O2 ? ? ? 1_555 C NA . NA ? ? A DT 2 A NA 19 1_555 ? ? ? ? ? ? ? 2.780 ? ? metalc2 metalc ? ? A DT 6 O2 ? ? ? 1_555 C NA . NA ? ? A DT 6 A NA 19 1_555 ? ? ? ? ? ? ? 2.788 ? ? metalc3 metalc ? ? C NA . NA ? ? ? 1_555 O HOH . O ? ? A NA 19 A HOH 31 1_555 ? ? ? ? ? ? ? 2.828 ? ? metalc4 metalc ? ? C NA . NA ? ? ? 1_555 B DT 2 O2 ? ? A NA 19 B DT 12 1_555 ? ? ? ? ? ? ? 2.785 ? ? metalc5 metalc ? ? C NA . NA ? ? ? 1_555 B DT 6 O2 ? ? A NA 19 B DT 16 1_555 ? ? ? ? ? ? ? 2.834 ? ? metalc6 metalc ? ? C NA . NA ? ? ? 1_555 P HOH . O ? ? A NA 19 B HOH 32 1_555 ? ? ? ? ? ? ? 2.800 ? ? hydrog1 hydrog ? ? A DA 1 N1 ? ? ? 1_555 B DT 2 N3 ? ? A DA 1 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 2 O4 ? ? A DA 1 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DT 2 N3 ? ? ? 1_555 B DA 1 N1 ? ? A DT 2 B DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 2 O4 ? ? ? 1_555 B DA 1 N6 ? ? A DT 2 B DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 5 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 5 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? 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 O2 ? A DT 2 ? A DT 2 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? A DT 6 ? A DT 6 ? 1_555 137.3 ? 2 O2 ? A DT 2 ? A DT 2 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? O HOH . ? A HOH 31 ? 1_555 68.2 ? 3 O2 ? A DT 6 ? A DT 6 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? O HOH . ? A HOH 31 ? 1_555 69.4 ? 4 O2 ? A DT 2 ? A DT 2 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 2 ? B DT 12 ? 1_555 105.5 ? 5 O2 ? A DT 6 ? A DT 6 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 2 ? B DT 12 ? 1_555 93.8 ? 6 O ? O HOH . ? A HOH 31 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 2 ? B DT 12 ? 1_555 110.6 ? 7 O2 ? A DT 2 ? A DT 2 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 6 ? B DT 16 ? 1_555 83.7 ? 8 O2 ? A DT 6 ? A DT 6 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 6 ? B DT 16 ? 1_555 106.4 ? 9 O ? O HOH . ? A HOH 31 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 6 ? B DT 16 ? 1_555 110.2 ? 10 O2 ? B DT 2 ? B DT 12 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O2 ? B DT 6 ? B DT 16 ? 1_555 138.7 ? 11 O2 ? A DT 2 ? A DT 2 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? P HOH . ? B HOH 32 ? 1_555 110.9 ? 12 O2 ? A DT 6 ? A DT 6 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? P HOH . ? B HOH 32 ? 1_555 111.5 ? 13 O ? O HOH . ? A HOH 31 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? P HOH . ? B HOH 32 ? 1_555 178.8 ? 14 O2 ? B DT 2 ? B DT 12 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? P HOH . ? B HOH 32 ? 1_555 70.3 ? 15 O2 ? B DT 6 ? B DT 16 ? 1_555 NA ? C NA . ? A NA 19 ? 1_555 O ? P HOH . ? B HOH 32 ? 1_555 68.9 ? # 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 NA 19 ? 6 'BINDING SITE FOR RESIDUE NA A 19' AC2 Software B BA 20 ? 10 'BINDING SITE FOR RESIDUE BA B 20' AC3 Software B BA 21 ? 5 'BINDING SITE FOR RESIDUE BA B 21' AC4 Software B BA 22 ? 7 'BINDING SITE FOR RESIDUE BA B 22' AC5 Software B BA 23 ? 5 'BINDING SITE FOR RESIDUE BA B 23' AC6 Software B BA 24 ? 4 'BINDING SITE FOR RESIDUE BA B 24' AC7 Software B BA 25 ? 8 'BINDING SITE FOR RESIDUE BA B 25' AC8 Software B BA 26 ? 9 'BINDING SITE FOR RESIDUE BA B 26' AC9 Software B BA 27 ? 7 'BINDING SITE FOR RESIDUE BA B 27' BC1 Software A BA 28 ? 3 'BINDING SITE FOR RESIDUE BA A 28' BC2 Software A BA 29 ? 2 'BINDING SITE FOR RESIDUE BA A 29' BC3 Software A BA 30 ? 4 'BINDING SITE FOR RESIDUE BA A 30' # 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 DT A 2 ? DT A 2 . ? 1_555 ? 2 AC1 6 DT A 6 ? DT A 6 . ? 1_555 ? 3 AC1 6 HOH O . ? HOH A 31 . ? 1_555 ? 4 AC1 6 DT B 2 ? DT B 12 . ? 1_555 ? 5 AC1 6 DT B 6 ? DT B 16 . ? 1_555 ? 6 AC1 6 HOH P . ? HOH B 32 . ? 1_555 ? 7 AC2 10 DC B 4 ? DC B 14 . ? 1_555 ? 8 AC2 10 DA B 5 ? DA B 15 . ? 1_555 ? 9 AC2 10 HOH P . ? HOH B 35 . ? 1_555 ? 10 AC2 10 HOH P . ? HOH B 36 . ? 1_555 ? 11 AC2 10 HOH P . ? HOH B 38 . ? 1_555 ? 12 AC2 10 HOH P . ? HOH B 68 . ? 1_555 ? 13 AC2 10 HOH P . ? HOH B 92 . ? 1_555 ? 14 AC2 10 HOH P . ? HOH B 93 . ? 1_555 ? 15 AC2 10 HOH P . ? HOH B 94 . ? 1_555 ? 16 AC2 10 HOH P . ? HOH B 95 . ? 1_555 ? 17 AC3 5 DA B 1 ? DA B 11 . ? 1_555 ? 18 AC3 5 DC B 8 ? DC B 18 . ? 1_555 ? 19 AC3 5 HOH P . ? HOH B 98 . ? 1_555 ? 20 AC3 5 HOH P . ? HOH B 99 . ? 1_555 ? 21 AC3 5 HOH P . ? HOH B 124 . ? 1_555 ? 22 AC4 7 BA J . ? BA B 23 . ? 1_555 ? 23 AC4 7 BA K . ? BA B 24 . ? 1_555 ? 24 AC4 7 HOH P . ? HOH B 40 . ? 1_555 ? 25 AC4 7 HOH P . ? HOH B 49 . ? 1_555 ? 26 AC4 7 HOH P . ? HOH B 56 . ? 1_555 ? 27 AC4 7 HOH P . ? HOH B 101 . ? 1_555 ? 28 AC4 7 HOH P . ? HOH B 117 . ? 1_555 ? 29 AC5 5 BA I . ? BA B 22 . ? 1_555 ? 30 AC5 5 BA K . ? BA B 24 . ? 1_555 ? 31 AC5 5 HOH P . ? HOH B 40 . ? 1_555 ? 32 AC5 5 HOH P . ? HOH B 49 . ? 1_555 ? 33 AC5 5 HOH P . ? HOH B 102 . ? 1_555 ? 34 AC6 4 BA I . ? BA B 22 . ? 1_555 ? 35 AC6 4 BA J . ? BA B 23 . ? 1_555 ? 36 AC6 4 HOH P . ? HOH B 40 . ? 1_555 ? 37 AC6 4 HOH P . ? HOH B 49 . ? 1_555 ? 38 AC7 8 HOH O . ? HOH A 107 . ? 1_555 ? 39 AC7 8 BA M . ? BA B 26 . ? 1_555 ? 40 AC7 8 BA N . ? BA B 27 . ? 1_555 ? 41 AC7 8 HOH P . ? HOH B 53 . ? 1_555 ? 42 AC7 8 HOH P . ? HOH B 70 . ? 1_555 ? 43 AC7 8 HOH P . ? HOH B 71 . ? 1_555 ? 44 AC7 8 HOH P . ? HOH B 104 . ? 1_555 ? 45 AC7 8 HOH P . ? HOH B 106 . ? 1_555 ? 46 AC8 9 BA L . ? BA B 25 . ? 1_555 ? 47 AC8 9 BA N . ? BA B 27 . ? 1_555 ? 48 AC8 9 HOH P . ? HOH B 37 . ? 4_455 ? 49 AC8 9 HOH P . ? HOH B 53 . ? 1_555 ? 50 AC8 9 HOH P . ? HOH B 71 . ? 1_555 ? 51 AC8 9 HOH P . ? HOH B 74 . ? 1_555 ? 52 AC8 9 HOH P . ? HOH B 104 . ? 1_555 ? 53 AC8 9 HOH P . ? HOH B 105 . ? 1_555 ? 54 AC8 9 HOH P . ? HOH B 106 . ? 1_555 ? 55 AC9 7 DC B 4 ? DC B 14 . ? 4_455 ? 56 AC9 7 BA L . ? BA B 25 . ? 1_555 ? 57 AC9 7 BA M . ? BA B 26 . ? 1_555 ? 58 AC9 7 HOH P . ? HOH B 46 . ? 4_455 ? 59 AC9 7 HOH P . ? HOH B 106 . ? 1_555 ? 60 AC9 7 HOH P . ? HOH B 121 . ? 1_555 ? 61 AC9 7 HOH P . ? HOH B 123 . ? 1_555 ? 62 BC1 3 DT A 3 ? DT A 3 . ? 1_555 ? 63 BC1 3 BA F . ? BA A 30 . ? 1_555 ? 64 BC1 3 HOH O . ? HOH A 134 . ? 1_555 ? 65 BC2 2 BA F . ? BA A 30 . ? 1_555 ? 66 BC2 2 HOH P . ? HOH B 91 . ? 4_555 ? 67 BC3 4 DT A 3 ? DT A 3 . ? 1_555 ? 68 BC3 4 BA D . ? BA A 28 . ? 1_555 ? 69 BC3 4 BA E . ? BA A 29 . ? 1_555 ? 70 BC3 4 DC B 4 ? DC B 14 . ? 4_555 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 67 ? ? O B HOH 125 ? ? 1.45 2 1 BA B BA 26 ? ? O B HOH 106 ? ? 1.46 3 1 O B HOH 36 ? ? O B HOH 95 ? ? 1.60 4 1 O B HOH 126 ? ? O B HOH 127 ? ? 1.88 5 1 O B HOH 93 ? ? O B HOH 95 ? ? 1.88 6 1 O B HOH 71 ? ? O B HOH 115 ? ? 1.98 7 1 O B HOH 86 ? ? O B HOH 116 ? ? 2.12 8 1 O A HOH 64 ? ? O B HOH 115 ? ? 2.17 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 O B HOH 37 ? ? 1_555 O B HOH 74 ? ? 4_555 1.06 2 1 O B HOH 46 ? ? 1_555 O B HOH 120 ? ? 4_555 1.33 3 1 O B HOH 46 ? ? 1_555 O B HOH 121 ? ? 4_555 1.70 4 1 O B HOH 116 ? ? 1_555 O B HOH 120 ? ? 1_655 1.73 5 1 O B HOH 86 ? ? 1_555 O B HOH 120 ? ? 1_655 1.92 6 1 O B HOH 87 ? ? 1_555 O B HOH 122 ? ? 1_655 2.12 7 1 O B HOH 42 ? ? 1_555 O B HOH 104 ? ? 4_555 2.17 8 1 O A HOH 85 ? ? 1_555 O B HOH 108 ? ? 1_655 2.17 # 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 OP1 A DA 1 ? ? P A DA 1 ? ? OP2 A DA 1 ? ? 110.58 119.60 -9.02 1.50 N 2 1 "C3'" A DA 1 ? ? "O3'" A DA 1 ? ? P A DT 2 ? ? 128.27 119.70 8.57 1.20 Y 3 1 "C3'" A DA 5 ? ? "O3'" A DA 5 ? ? P A DT 6 ? ? 126.97 119.70 7.27 1.20 Y # loop_ _refine_B_iso.class _refine_B_iso.details _refine_B_iso.treatment _refine_B_iso.pdbx_refine_id 'ALL ATOMS' TR anisotropic 'X-RAY DIFFRACTION' 'ALL WATERS' TR anisotropic 'X-RAY DIFFRACTION' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL WATERS' fix 'X-RAY DIFFRACTION' # 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 BA BA BA 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 DT OP3 O N N 72 DT P P N N 73 DT OP1 O N N 74 DT OP2 O N N 75 DT "O5'" O N N 76 DT "C5'" C N N 77 DT "C4'" C N R 78 DT "O4'" O N N 79 DT "C3'" C N S 80 DT "O3'" O N N 81 DT "C2'" C N N 82 DT "C1'" C N R 83 DT N1 N N N 84 DT C2 C N N 85 DT O2 O N N 86 DT N3 N N N 87 DT C4 C N N 88 DT O4 O N N 89 DT C5 C N N 90 DT C7 C N N 91 DT C6 C N N 92 DT HOP3 H N N 93 DT HOP2 H N N 94 DT "H5'" H N N 95 DT "H5''" H N N 96 DT "H4'" H N N 97 DT "H3'" H N N 98 DT "HO3'" H N N 99 DT "H2'" H N N 100 DT "H2''" H N N 101 DT "H1'" H N N 102 DT H3 H N N 103 DT H71 H N N 104 DT H72 H N N 105 DT H73 H N N 106 DT H6 H N N 107 HOH O O N N 108 HOH H1 H N N 109 HOH H2 H N N 110 NA NA NA N N 111 # 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 DT OP3 P sing N N 74 DT OP3 HOP3 sing N N 75 DT P OP1 doub N N 76 DT P OP2 sing N N 77 DT P "O5'" sing N N 78 DT OP2 HOP2 sing N N 79 DT "O5'" "C5'" sing N N 80 DT "C5'" "C4'" sing N N 81 DT "C5'" "H5'" sing N N 82 DT "C5'" "H5''" sing N N 83 DT "C4'" "O4'" sing N N 84 DT "C4'" "C3'" sing N N 85 DT "C4'" "H4'" sing N N 86 DT "O4'" "C1'" sing N N 87 DT "C3'" "O3'" sing N N 88 DT "C3'" "C2'" sing N N 89 DT "C3'" "H3'" sing N N 90 DT "O3'" "HO3'" sing N N 91 DT "C2'" "C1'" sing N N 92 DT "C2'" "H2'" sing N N 93 DT "C2'" "H2''" sing N N 94 DT "C1'" N1 sing N N 95 DT "C1'" "H1'" sing N N 96 DT N1 C2 sing N N 97 DT N1 C6 sing N N 98 DT C2 O2 doub N N 99 DT C2 N3 sing N N 100 DT N3 C4 sing N N 101 DT N3 H3 sing N N 102 DT C4 O4 doub N N 103 DT C4 C5 sing N N 104 DT C5 C7 sing N N 105 DT C5 C6 doub N N 106 DT C7 H71 sing N N 107 DT C7 H72 sing N N 108 DT C7 H73 sing N N 109 DT C6 H6 sing N N 110 HOH O H1 sing N N 111 HOH O H2 sing N N 112 # 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 DA 1 1_555 B DT 2 1_555 -0.068 -0.068 -0.154 -9.418 -2.031 3.667 1 A_DA1:DT12_B A 1 ? B 12 ? 20 1 1 A DT 2 1_555 B DA 1 1_555 -0.028 -0.070 -0.077 7.294 -1.755 2.970 2 A_DT2:DA11_B A 2 ? B 11 ? 20 1 1 A DA 5 1_555 B DT 6 1_555 -0.067 -0.123 0.033 -4.907 -3.496 0.992 3 A_DA5:DT16_B A 5 ? B 16 ? 20 1 1 A DT 6 1_555 B DA 5 1_555 0.083 -0.141 -0.075 7.335 -4.189 0.409 4 A_DT6:DA15_B A 6 ? B 15 ? 20 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 DA 1 1_555 B DT 2 1_555 A DT 2 1_555 B DA 1 1_555 -0.314 -0.612 2.929 -1.005 0.013 24.524 -1.444 0.461 2.939 0.030 2.364 24.544 1 AA_DA1DT2:DA11DT12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DA 5 1_555 B DT 6 1_555 A DT 6 1_555 B DA 5 1_555 -0.044 -0.595 3.037 0.270 1.855 26.670 -1.730 0.160 2.989 4.016 -0.584 26.735 2 AA_DA5DT6:DA15DT16_BB A 5 ? B 16 ? A 6 ? B 15 ? # _atom_sites.entry_id 284D _atom_sites.fract_transf_matrix[1][1] 0.043775 _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] 0.036132 _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] 0.018060 _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 BA C H N NA O P # loop_