data_1D90 # _entry.id 1D90 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 1D90 pdb_00001d90 10.2210/pdb1d90/pdb RCSB ADHB17 ? ? WWPDB D_1000172687 ? ? # 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 1993-07-15 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 # _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' # 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 # 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' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1D90 _pdbx_database_status.recvd_initial_deposition_date 1992-10-17 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _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 'Cruse, W.B.T.' 1 'Aymani, J.' 2 'Kennard, O.' 3 'Brown, T.' 4 'Jack, A.G.C.' 5 'Leonard, G.A.' 6 # _citation.id primary _citation.title 'Refined crystal structure of an octanucleotide duplex with I.T. mismatched base pairs.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 17 _citation.page_first 55 _citation.page_last 72 _citation.year 1989 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 2911488 _citation.pdbx_database_id_DOI 10.1093/nar/17.1.55 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Cruse, W.B.' 1 ? primary 'Aymani, J.' 2 ? primary 'Kennard, O.' 3 ? primary 'Brown, T.' 4 ? primary 'Jack, A.G.' 5 ? primary 'Leonard, G.A.' 6 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*GP*GP*IP*GP*CP*TP*CP*C)-3') ; 2428.590 2 ? ? ? ? 2 water nat water 18.015 81 ? ? ? ? # _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 '(DG)(DG)(DI)(DG)(DC)(DT)(DC)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GGIGCTCC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DG n 1 3 DI n 1 4 DG n 1 5 DC n 1 6 DT n 1 7 DC 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 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 DI 'DNA linking' y "2'-DEOXYINOSINE-5'-MONOPHOSPHATE" ? 'C10 H13 N4 O7 P' 332.207 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 DG 1 1 1 DG G A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DI 3 3 3 DI I A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DC 7 7 7 DC C A . n A 1 8 DC 8 8 8 DC C A . n B 1 1 DG 1 9 9 DG G B . n B 1 2 DG 2 10 10 DG G B . n B 1 3 DI 3 11 11 DI I B . n B 1 4 DG 4 12 12 DG G B . n B 1 5 DC 5 13 13 DC C B . n B 1 6 DT 6 14 14 DT T B . n B 1 7 DC 7 15 15 DC C B . n B 1 8 DC 8 16 16 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 HOH 1 18 18 HOH HOH A . C 2 HOH 2 20 20 HOH HOH A . C 2 HOH 3 22 22 HOH HOH A . C 2 HOH 4 23 23 HOH HOH A . C 2 HOH 5 24 24 HOH HOH A . C 2 HOH 6 26 26 HOH HOH A . C 2 HOH 7 28 28 HOH HOH A . C 2 HOH 8 29 29 HOH HOH A . C 2 HOH 9 30 30 HOH HOH A . C 2 HOH 10 31 31 HOH HOH A . C 2 HOH 11 32 32 HOH HOH A . C 2 HOH 12 33 33 HOH HOH A . C 2 HOH 13 35 35 HOH HOH A . C 2 HOH 14 36 36 HOH HOH A . C 2 HOH 15 38 38 HOH HOH A . C 2 HOH 16 39 39 HOH HOH A . C 2 HOH 17 42 42 HOH HOH A . C 2 HOH 18 43 43 HOH HOH A . C 2 HOH 19 44 44 HOH HOH A . C 2 HOH 20 47 47 HOH HOH A . C 2 HOH 21 48 48 HOH HOH A . C 2 HOH 22 51 51 HOH HOH A . C 2 HOH 23 52 52 HOH HOH A . C 2 HOH 24 53 53 HOH HOH A . C 2 HOH 25 54 54 HOH HOH A . C 2 HOH 26 57 57 HOH HOH A . C 2 HOH 27 58 58 HOH HOH A . C 2 HOH 28 59 59 HOH HOH A . C 2 HOH 29 61 61 HOH HOH A . C 2 HOH 30 62 62 HOH HOH A . C 2 HOH 31 66 66 HOH HOH A . C 2 HOH 32 68 68 HOH HOH A . C 2 HOH 33 70 70 HOH HOH A . C 2 HOH 34 74 74 HOH HOH A . C 2 HOH 35 75 75 HOH HOH A . C 2 HOH 36 81 81 HOH HOH A . C 2 HOH 37 84 84 HOH HOH A . C 2 HOH 38 85 85 HOH HOH A . C 2 HOH 39 86 86 HOH HOH A . C 2 HOH 40 90 90 HOH HOH A . C 2 HOH 41 91 91 HOH HOH A . C 2 HOH 42 92 92 HOH HOH A . C 2 HOH 43 95 95 HOH HOH A . C 2 HOH 44 96 96 HOH HOH A . C 2 HOH 45 97 97 HOH HOH A . D 2 HOH 1 17 17 HOH HOH B . D 2 HOH 2 19 19 HOH HOH B . D 2 HOH 3 21 21 HOH HOH B . D 2 HOH 4 25 25 HOH HOH B . D 2 HOH 5 27 27 HOH HOH B . D 2 HOH 6 34 34 HOH HOH B . D 2 HOH 7 37 37 HOH HOH B . D 2 HOH 8 40 40 HOH HOH B . D 2 HOH 9 41 41 HOH HOH B . D 2 HOH 10 45 45 HOH HOH B . D 2 HOH 11 46 46 HOH HOH B . D 2 HOH 12 49 49 HOH HOH B . D 2 HOH 13 50 50 HOH HOH B . D 2 HOH 14 55 55 HOH HOH B . D 2 HOH 15 56 56 HOH HOH B . D 2 HOH 16 60 60 HOH HOH B . D 2 HOH 17 63 63 HOH HOH B . D 2 HOH 18 64 64 HOH HOH B . D 2 HOH 19 65 65 HOH HOH B . D 2 HOH 20 67 67 HOH HOH B . D 2 HOH 21 69 69 HOH HOH B . D 2 HOH 22 71 71 HOH HOH B . D 2 HOH 23 72 72 HOH HOH B . D 2 HOH 24 73 73 HOH HOH B . D 2 HOH 25 76 76 HOH HOH B . D 2 HOH 26 77 77 HOH HOH B . D 2 HOH 27 78 78 HOH HOH B . D 2 HOH 28 79 79 HOH HOH B . D 2 HOH 29 80 80 HOH HOH B . D 2 HOH 30 82 82 HOH HOH B . D 2 HOH 31 83 83 HOH HOH B . D 2 HOH 32 87 87 HOH HOH B . D 2 HOH 33 88 88 HOH HOH B . D 2 HOH 34 89 89 HOH HOH B . D 2 HOH 35 93 93 HOH HOH B . D 2 HOH 36 94 94 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1D90 _cell.length_a 45.070 _cell.length_b 45.070 _cell.length_c 45.490 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D90 _symmetry.space_group_name_H-M 'P 61' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 # _exptl.entry_id 1D90 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.75 _exptl_crystal.density_percent_sol 55.21 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH 6.50 _exptl_crystal_grow.pdbx_details 'pH 6.50, VAPOR DIFFUSION' _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 MGCL2 ? ? ? 1 4 2 WATER ? ? ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details 'ROOM TEMPERATURE' _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'SIEMENS AED2' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _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 ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1D90 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 1.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 1.660 _reflns.number_obs 3310 _reflns.number_all 5795 _reflns.percent_possible_obs 57 _reflns.pdbx_Rmerge_I_obs 0.0400000 _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 1D90 _refine.ls_number_reflns_obs 2853 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high 1.700 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1400000 _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 ? _refine.ls_number_restraints ? _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 ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _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 322 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 81 _refine_hist.number_atoms_total 403 _refine_hist.d_res_high 1.700 _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 1D90 _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 1D90 _struct.title 'REFINED CRYSTAL STRUCTURE OF AN OCTANUCLEOTIDE DUPLEX WITH I.T MISMATCHED BASE PAIRS' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1D90 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'A-DNA, DOUBLE HELIX, MODIFIED, MISMATCHED, 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 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1D90 _struct_ref.pdbx_db_accession 1D90 _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 1D90 A 1 ? 8 ? 1D90 1 ? 8 ? 1 8 2 1 1D90 B 1 ? 8 ? 1D90 9 ? 16 ? 9 16 # _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 # _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 hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 2 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 2 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 2 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 5 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 5 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 5 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 52 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 34 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 6_545 _pdbx_validate_symm_contact.dist 2.15 # 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 N1 A DG 1 ? ? C2 A DG 1 ? ? 1.467 1.373 0.094 0.008 N 2 1 C4 A DG 1 ? ? C5 A DG 1 ? ? 1.455 1.379 0.076 0.007 N 3 1 N7 A DG 1 ? ? C8 A DG 1 ? ? 1.358 1.305 0.053 0.006 N 4 1 C8 A DG 1 ? ? N9 A DG 1 ? ? 1.438 1.374 0.064 0.007 N 5 1 C6 A DG 1 ? ? O6 A DG 1 ? ? 1.311 1.237 0.074 0.009 N 6 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 1.601 1.529 0.072 0.010 N 7 1 C2 A DG 2 ? ? N3 A DG 2 ? ? 1.380 1.323 0.057 0.008 N 8 1 N7 A DG 2 ? ? C8 A DG 2 ? ? 1.368 1.305 0.063 0.006 N 9 1 N9 A DG 2 ? ? C4 A DG 2 ? ? 1.427 1.375 0.052 0.008 N 10 1 C6 A DG 2 ? ? O6 A DG 2 ? ? 1.313 1.237 0.076 0.009 N 11 1 "O3'" A DG 2 ? ? P A DI 3 ? ? 1.696 1.607 0.089 0.012 Y 12 1 "C4'" A DI 3 ? ? "C3'" A DI 3 ? ? 1.674 1.524 0.150 0.020 N 13 1 P A DG 4 ? ? "O5'" A DG 4 ? ? 1.656 1.593 0.063 0.010 N 14 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.582 1.512 0.070 0.007 N 15 1 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 1.645 1.529 0.116 0.010 N 16 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.523 1.420 0.103 0.011 N 17 1 N3 A DG 4 ? ? C4 A DG 4 ? ? 1.437 1.350 0.087 0.007 N 18 1 C6 A DG 4 ? ? N1 A DG 4 ? ? 1.447 1.391 0.056 0.007 N 19 1 C5 A DG 4 ? ? N7 A DG 4 ? ? 1.452 1.388 0.064 0.006 N 20 1 N9 A DG 4 ? ? C4 A DG 4 ? ? 1.437 1.375 0.062 0.008 N 21 1 C2 A DG 4 ? ? N2 A DG 4 ? ? 1.406 1.341 0.065 0.010 N 22 1 P A DC 5 ? ? "O5'" A DC 5 ? ? 1.751 1.593 0.158 0.010 N 23 1 "C5'" A DC 5 ? ? "C4'" A DC 5 ? ? 1.595 1.512 0.083 0.007 N 24 1 "C2'" A DC 5 ? ? "C1'" A DC 5 ? ? 1.593 1.519 0.074 0.010 N 25 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? 1.493 1.420 0.073 0.011 N 26 1 C2 A DC 5 ? ? O2 A DC 5 ? ? 1.305 1.240 0.065 0.009 N 27 1 N1 A DC 5 ? ? C6 A DC 5 ? ? 1.446 1.367 0.079 0.006 N 28 1 N3 A DC 5 ? ? C4 A DC 5 ? ? 1.417 1.335 0.082 0.007 N 29 1 "C2'" A DT 6 ? ? "C1'" A DT 6 ? ? 1.597 1.519 0.078 0.010 N 30 1 "O3'" A DT 6 ? ? "C3'" A DT 6 ? ? 1.536 1.435 0.101 0.013 N 31 1 C2 A DT 6 ? ? N3 A DT 6 ? ? 1.460 1.373 0.087 0.008 N 32 1 N3 A DT 6 ? ? C4 A DT 6 ? ? 1.438 1.382 0.056 0.008 N 33 1 C5 A DT 6 ? ? C6 A DT 6 ? ? 1.418 1.339 0.079 0.007 N 34 1 C6 A DT 6 ? ? N1 A DT 6 ? ? 1.430 1.378 0.052 0.007 N 35 1 C2 A DT 6 ? ? O2 A DT 6 ? ? 1.268 1.220 0.048 0.008 N 36 1 C4 A DT 6 ? ? O4 A DT 6 ? ? 1.311 1.228 0.083 0.009 N 37 1 C5 A DT 6 ? ? C7 A DT 6 ? ? 1.534 1.496 0.038 0.006 N 38 1 "O4'" A DC 7 ? ? "C4'" A DC 7 ? ? 1.518 1.449 0.069 0.009 N 39 1 "O3'" A DC 7 ? ? "C3'" A DC 7 ? ? 1.549 1.435 0.114 0.013 N 40 1 "C1'" A DC 7 ? ? N1 A DC 7 ? ? 1.569 1.488 0.081 0.013 N 41 1 C4 A DC 7 ? ? N4 A DC 7 ? ? 1.457 1.335 0.122 0.009 N 42 1 C2 A DC 7 ? ? N3 A DC 7 ? ? 1.463 1.353 0.110 0.008 N 43 1 C5 A DC 7 ? ? C6 A DC 7 ? ? 1.435 1.339 0.096 0.008 N 44 1 P A DC 8 ? ? OP1 A DC 8 ? ? 1.607 1.485 0.122 0.017 N 45 1 "C3'" A DC 8 ? ? "C2'" A DC 8 ? ? 1.594 1.518 0.076 0.012 N 46 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? 1.495 1.420 0.075 0.011 N 47 1 "O4'" A DC 8 ? ? "C4'" A DC 8 ? ? 1.515 1.449 0.066 0.009 N 48 1 C4 A DC 8 ? ? N4 A DC 8 ? ? 1.407 1.335 0.072 0.009 N 49 1 N1 A DC 8 ? ? C2 A DC 8 ? ? 1.507 1.397 0.110 0.010 N 50 1 C2 A DC 8 ? ? N3 A DC 8 ? ? 1.403 1.353 0.050 0.008 N 51 1 C4 A DC 8 ? ? C5 A DC 8 ? ? 1.532 1.425 0.107 0.008 N 52 1 "C5'" B DG 9 ? ? "C4'" B DG 9 ? ? 1.607 1.512 0.095 0.007 N 53 1 "C3'" B DG 9 ? ? "C2'" B DG 9 ? ? 1.641 1.518 0.123 0.012 N 54 1 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? 1.562 1.420 0.142 0.011 N 55 1 C2 B DG 9 ? ? N3 B DG 9 ? ? 1.407 1.323 0.084 0.008 N 56 1 N3 B DG 9 ? ? C4 B DG 9 ? ? 1.410 1.350 0.060 0.007 N 57 1 C5 B DG 9 ? ? C6 B DG 9 ? ? 1.502 1.419 0.083 0.010 N 58 1 C6 B DG 9 ? ? N1 B DG 9 ? ? 1.441 1.391 0.050 0.007 N 59 1 C5 B DG 9 ? ? N7 B DG 9 ? ? 1.488 1.388 0.100 0.006 N 60 1 N9 B DG 9 ? ? C4 B DG 9 ? ? 1.472 1.375 0.097 0.008 N 61 1 C2 B DG 9 ? ? N2 B DG 9 ? ? 1.414 1.341 0.073 0.010 N 62 1 P B DG 10 ? ? "O5'" B DG 10 ? ? 1.714 1.593 0.121 0.010 N 63 1 "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? 1.635 1.512 0.123 0.007 N 64 1 "C3'" B DG 10 ? ? "C2'" B DG 10 ? ? 1.631 1.518 0.113 0.012 N 65 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? 1.494 1.420 0.074 0.011 N 66 1 N3 B DG 10 ? ? C4 B DG 10 ? ? 1.460 1.350 0.110 0.007 N 67 1 C6 B DG 10 ? ? N1 B DG 10 ? ? 1.513 1.391 0.122 0.007 N 68 1 C5 B DG 10 ? ? N7 B DG 10 ? ? 1.489 1.388 0.101 0.006 N 69 1 C8 B DG 10 ? ? N9 B DG 10 ? ? 1.454 1.374 0.080 0.007 N 70 1 N9 B DG 10 ? ? C4 B DG 10 ? ? 1.425 1.375 0.050 0.008 N 71 1 C2 B DG 10 ? ? N2 B DG 10 ? ? 1.448 1.341 0.107 0.010 N 72 1 "O5'" B DI 11 ? ? "C5'" B DI 11 ? ? 1.536 1.410 0.126 0.020 N 73 1 P B DG 12 ? ? OP2 B DG 12 ? ? 1.608 1.485 0.123 0.017 N 74 1 "O5'" B DG 12 ? ? "C5'" B DG 12 ? ? 1.566 1.440 0.126 0.016 N 75 1 "C1'" B DG 12 ? ? N9 B DG 12 ? ? 1.580 1.488 0.092 0.013 N 76 1 N1 B DG 12 ? ? C2 B DG 12 ? ? 1.487 1.373 0.114 0.008 N 77 1 C4 B DG 12 ? ? C5 B DG 12 ? ? 1.470 1.379 0.091 0.007 N 78 1 N7 B DG 12 ? ? C8 B DG 12 ? ? 1.365 1.305 0.060 0.006 N 79 1 C8 B DG 12 ? ? N9 B DG 12 ? ? 1.452 1.374 0.078 0.007 N 80 1 C6 B DG 12 ? ? O6 B DG 12 ? ? 1.331 1.237 0.094 0.009 N 81 1 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? 1.621 1.529 0.092 0.010 N 82 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? 1.497 1.420 0.077 0.011 N 83 1 C4 B DC 13 ? ? N4 B DC 13 ? ? 1.399 1.335 0.064 0.009 N 84 1 C2 B DC 13 ? ? N3 B DC 13 ? ? 1.423 1.353 0.070 0.008 N 85 1 C5 B DC 13 ? ? C6 B DC 13 ? ? 1.405 1.339 0.066 0.008 N 86 1 "C5'" B DT 14 ? ? "C4'" B DT 14 ? ? 1.566 1.512 0.054 0.007 N 87 1 "C4'" B DT 14 ? ? "C3'" B DT 14 ? ? 1.652 1.529 0.123 0.010 N 88 1 "O4'" B DT 14 ? ? "C1'" B DT 14 ? ? 1.530 1.420 0.110 0.011 N 89 1 N1 B DT 14 ? ? C2 B DT 14 ? ? 1.443 1.376 0.067 0.008 N 90 1 C4 B DT 14 ? ? C5 B DT 14 ? ? 1.509 1.445 0.064 0.009 N 91 1 P B DC 15 ? ? "O5'" B DC 15 ? ? 1.667 1.593 0.074 0.010 N 92 1 "C5'" B DC 15 ? ? "C4'" B DC 15 ? ? 1.582 1.512 0.070 0.007 N 93 1 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? 1.646 1.529 0.117 0.010 N 94 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? 1.538 1.420 0.118 0.011 N 95 1 P B DC 16 ? ? "O5'" B DC 16 ? ? 1.686 1.593 0.093 0.010 N 96 1 "C4'" B DC 16 ? ? "C3'" B DC 16 ? ? 1.606 1.529 0.077 0.010 N 97 1 "O4'" B DC 16 ? ? "C1'" B DC 16 ? ? 1.491 1.420 0.071 0.011 N 98 1 C2 B DC 16 ? ? O2 B DC 16 ? ? 1.296 1.240 0.056 0.009 N 99 1 N1 B DC 16 ? ? C6 B DC 16 ? ? 1.454 1.367 0.087 0.006 N 100 1 N3 B DC 16 ? ? C4 B DC 16 ? ? 1.420 1.335 0.085 0.007 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? "O4'" A DG 1 ? ? 119.45 109.80 9.65 1.10 N 2 1 "C4'" A DG 1 ? ? "C3'" A DG 1 ? ? "C2'" A DG 1 ? ? 95.98 102.20 -6.22 0.70 N 3 1 "C3'" A DG 1 ? ? "C2'" A DG 1 ? ? "C1'" A DG 1 ? ? 97.13 102.40 -5.27 0.80 N 4 1 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 103.77 108.00 -4.23 0.70 N 5 1 C8 A DG 1 ? ? N9 A DG 1 ? ? C4 A DG 1 ? ? 102.85 106.40 -3.55 0.40 N 6 1 "O5'" A DG 2 ? ? "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 104.12 109.40 -5.28 0.80 N 7 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 99.98 104.50 -4.52 0.40 N 8 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.44 108.30 3.14 0.30 N 9 1 C4 A DG 2 ? ? C5 A DG 2 ? ? N7 A DG 2 ? ? 107.38 110.80 -3.42 0.40 N 10 1 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.07 106.40 -3.33 0.40 N 11 1 N9 A DG 2 ? ? C4 A DG 2 ? ? C5 A DG 2 ? ? 109.57 105.40 4.17 0.40 N 12 1 C5 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 132.21 128.60 3.61 0.60 N 13 1 "O5'" A DI 3 ? ? P A DI 3 ? ? OP2 A DI 3 ? ? 99.89 105.70 -5.81 0.90 N 14 1 "O4'" A DG 4 ? ? "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 101.11 104.50 -3.39 0.40 N 15 1 "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? "C1'" A DG 4 ? ? 95.17 102.40 -7.23 0.80 N 16 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? "C2'" A DG 4 ? ? 110.82 106.80 4.02 0.50 N 17 1 N3 A DC 5 ? ? C4 A DC 5 ? ? N4 A DC 5 ? ? 122.21 118.00 4.21 0.70 N 18 1 C5 A DC 5 ? ? C4 A DC 5 ? ? N4 A DC 5 ? ? 115.06 120.20 -5.14 0.70 N 19 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 110.27 108.30 1.97 0.30 N 20 1 N3 A DT 6 ? ? C4 A DT 6 ? ? O4 A DT 6 ? ? 123.78 119.90 3.88 0.60 N 21 1 "O5'" A DC 7 ? ? P A DC 7 ? ? OP1 A DC 7 ? ? 98.34 105.70 -7.36 0.90 N 22 1 N3 A DC 7 ? ? C4 A DC 7 ? ? C5 A DC 7 ? ? 119.11 121.90 -2.79 0.40 N 23 1 C4 A DC 7 ? ? C5 A DC 7 ? ? C6 A DC 7 ? ? 120.93 117.40 3.53 0.50 N 24 1 N1 A DC 7 ? ? C2 A DC 7 ? ? O2 A DC 7 ? ? 115.00 118.90 -3.90 0.60 N 25 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 111.60 108.30 3.30 0.30 N 26 1 C2 A DC 8 ? ? N3 A DC 8 ? ? C4 A DC 8 ? ? 116.70 119.90 -3.20 0.50 N 27 1 C4 A DC 8 ? ? C5 A DC 8 ? ? C6 A DC 8 ? ? 122.46 117.40 5.06 0.50 N 28 1 C5 A DC 8 ? ? C6 A DC 8 ? ? N1 A DC 8 ? ? 116.78 121.00 -4.22 0.50 N 29 1 "O4'" B DG 9 ? ? "C4'" B DG 9 ? ? "C3'" B DG 9 ? ? 99.82 104.50 -4.68 0.40 N 30 1 "C5'" B DG 9 ? ? "C4'" B DG 9 ? ? "O4'" B DG 9 ? ? 122.22 109.80 12.42 1.10 N 31 1 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 110.62 108.30 2.32 0.30 N 32 1 C2 B DG 9 ? ? N3 B DG 9 ? ? C4 B DG 9 ? ? 115.80 111.90 3.90 0.50 N 33 1 C5 B DG 9 ? ? N7 B DG 9 ? ? C8 B DG 9 ? ? 107.36 104.30 3.06 0.50 N 34 1 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 110.07 113.10 -3.03 0.50 N 35 1 "O4'" B DG 10 ? ? "C4'" B DG 10 ? ? "C3'" B DG 10 ? ? 100.79 104.50 -3.71 0.40 N 36 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 103.10 108.00 -4.90 0.70 N 37 1 C4 B DG 10 ? ? C5 B DG 10 ? ? N7 B DG 10 ? ? 114.06 110.80 3.26 0.40 N 38 1 C8 B DG 10 ? ? N9 B DG 10 ? ? C4 B DG 10 ? ? 110.93 106.40 4.53 0.40 N 39 1 N9 B DG 10 ? ? C4 B DG 10 ? ? C5 B DG 10 ? ? 100.29 105.40 -5.11 0.40 N 40 1 C5 B DG 10 ? ? C6 B DG 10 ? ? O6 B DG 10 ? ? 124.63 128.60 -3.97 0.60 N 41 1 C2 B DG 12 ? ? N3 B DG 12 ? ? C4 B DG 12 ? ? 107.47 111.90 -4.43 0.50 N 42 1 C5 B DG 12 ? ? C6 B DG 12 ? ? N1 B DG 12 ? ? 108.21 111.50 -3.29 0.50 N 43 1 N7 B DG 12 ? ? C8 B DG 12 ? ? N9 B DG 12 ? ? 116.12 113.10 3.02 0.50 N 44 1 C8 B DG 12 ? ? N9 B DG 12 ? ? C4 B DG 12 ? ? 103.63 106.40 -2.77 0.40 N 45 1 C6 B DG 12 ? ? C5 B DG 12 ? ? N7 B DG 12 ? ? 126.71 130.40 -3.69 0.60 N 46 1 "O4'" B DC 13 ? ? "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? 101.19 104.50 -3.31 0.40 N 47 1 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 96.34 102.20 -5.86 0.70 N 48 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? N1 B DC 13 ? ? 113.21 108.30 4.91 0.30 N 49 1 "O5'" B DT 14 ? ? "C5'" B DT 14 ? ? "C4'" B DT 14 ? ? 103.99 109.40 -5.41 0.80 N 50 1 "O4'" B DT 14 ? ? "C4'" B DT 14 ? ? "C3'" B DT 14 ? ? 100.21 104.50 -4.29 0.40 N 51 1 "O4'" B DT 14 ? ? "C1'" B DT 14 ? ? "C2'" B DT 14 ? ? 110.10 106.80 3.30 0.50 N 52 1 C5 B DT 14 ? ? C6 B DT 14 ? ? N1 B DT 14 ? ? 119.99 123.70 -3.71 0.60 N 53 1 "O4'" B DC 15 ? ? "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? 100.21 104.50 -4.29 0.40 N 54 1 "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? "C1'" B DC 15 ? ? 96.59 102.40 -5.81 0.80 N 55 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? "C2'" B DC 15 ? ? 110.24 106.80 3.44 0.50 N 56 1 "C3'" B DC 15 ? ? "O3'" B DC 15 ? ? P B DC 16 ? ? 128.75 119.70 9.05 1.20 Y 57 1 "O4'" B DC 16 ? ? "C4'" B DC 16 ? ? "C3'" B DC 16 ? ? 111.00 106.00 5.00 0.60 N 58 1 "O4'" B DC 16 ? ? "C1'" B DC 16 ? ? "C2'" B DC 16 ? ? 111.99 106.80 5.19 0.50 N 59 1 "O4'" B DC 16 ? ? "C1'" B DC 16 ? ? N1 B DC 16 ? ? 102.41 108.00 -5.59 0.70 N # _refine_B_iso.class 'ALL ATOMS' _refine_B_iso.details TR _refine_B_iso.treatment isotropic _refine_B_iso.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_occupancy.class 'ALL ATOMS' _refine_occupancy.treatment fix _refine_occupancy.pdbx_refine_id '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 DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 DI OP3 O N N 72 DI P P N N 73 DI OP1 O N N 74 DI OP2 O N N 75 DI "O5'" O N N 76 DI "C5'" C N N 77 DI "C4'" C N R 78 DI "O4'" O N N 79 DI "C3'" C N S 80 DI "O3'" O N N 81 DI "C2'" C N N 82 DI "C1'" C N R 83 DI N9 N Y N 84 DI C8 C Y N 85 DI N7 N Y N 86 DI C5 C Y N 87 DI C6 C N N 88 DI O6 O N N 89 DI N1 N N N 90 DI C2 C N N 91 DI N3 N N N 92 DI C4 C Y N 93 DI HOP3 H N N 94 DI HOP2 H N N 95 DI "H5'" H N N 96 DI "H5''" H N N 97 DI "H4'" H N N 98 DI "H3'" H N N 99 DI "HO3'" H N N 100 DI "H2'" H N N 101 DI "H2''" H N N 102 DI "H1'" H N N 103 DI H8 H N N 104 DI H1 H N N 105 DI H2 H N N 106 DT OP3 O N N 107 DT P P N N 108 DT OP1 O N N 109 DT OP2 O N N 110 DT "O5'" O N N 111 DT "C5'" C N N 112 DT "C4'" C N R 113 DT "O4'" O N N 114 DT "C3'" C N S 115 DT "O3'" O N N 116 DT "C2'" C N N 117 DT "C1'" C N R 118 DT N1 N N N 119 DT C2 C N N 120 DT O2 O N N 121 DT N3 N N N 122 DT C4 C N N 123 DT O4 O N N 124 DT C5 C N N 125 DT C7 C N N 126 DT C6 C N N 127 DT HOP3 H N N 128 DT HOP2 H N N 129 DT "H5'" H N N 130 DT "H5''" H N N 131 DT "H4'" H N N 132 DT "H3'" H N N 133 DT "HO3'" H N N 134 DT "H2'" H N N 135 DT "H2''" H N N 136 DT "H1'" H N N 137 DT H3 H N N 138 DT H71 H N N 139 DT H72 H N N 140 DT H73 H N N 141 DT H6 H N N 142 HOH O O N N 143 HOH H1 H N N 144 HOH H2 H N N 145 # 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 DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 DI OP3 P sing N N 75 DI OP3 HOP3 sing N N 76 DI P OP1 doub N N 77 DI P OP2 sing N N 78 DI P "O5'" sing N N 79 DI OP2 HOP2 sing N N 80 DI "O5'" "C5'" sing N N 81 DI "C5'" "C4'" sing N N 82 DI "C5'" "H5'" sing N N 83 DI "C5'" "H5''" sing N N 84 DI "C4'" "O4'" sing N N 85 DI "C4'" "C3'" sing N N 86 DI "C4'" "H4'" sing N N 87 DI "O4'" "C1'" sing N N 88 DI "C3'" "O3'" sing N N 89 DI "C3'" "C2'" sing N N 90 DI "C3'" "H3'" sing N N 91 DI "O3'" "HO3'" sing N N 92 DI "C2'" "C1'" sing N N 93 DI "C2'" "H2'" sing N N 94 DI "C2'" "H2''" sing N N 95 DI "C1'" N9 sing N N 96 DI "C1'" "H1'" sing N N 97 DI N9 C8 sing Y N 98 DI N9 C4 sing Y N 99 DI C8 N7 doub Y N 100 DI C8 H8 sing N N 101 DI N7 C5 sing Y N 102 DI C5 C6 sing N N 103 DI C5 C4 doub Y N 104 DI C6 O6 doub N N 105 DI C6 N1 sing N N 106 DI N1 C2 sing N N 107 DI N1 H1 sing N N 108 DI C2 N3 doub N N 109 DI C2 H2 sing N N 110 DI N3 C4 sing N N 111 DT OP3 P sing N N 112 DT OP3 HOP3 sing N N 113 DT P OP1 doub N N 114 DT P OP2 sing N N 115 DT P "O5'" sing N N 116 DT OP2 HOP2 sing N N 117 DT "O5'" "C5'" sing N N 118 DT "C5'" "C4'" sing N N 119 DT "C5'" "H5'" sing N N 120 DT "C5'" "H5''" sing N N 121 DT "C4'" "O4'" sing N N 122 DT "C4'" "C3'" sing N N 123 DT "C4'" "H4'" sing N N 124 DT "O4'" "C1'" sing N N 125 DT "C3'" "O3'" sing N N 126 DT "C3'" "C2'" sing N N 127 DT "C3'" "H3'" sing N N 128 DT "O3'" "HO3'" sing N N 129 DT "C2'" "C1'" sing N N 130 DT "C2'" "H2'" sing N N 131 DT "C2'" "H2''" sing N N 132 DT "C1'" N1 sing N N 133 DT "C1'" "H1'" sing N N 134 DT N1 C2 sing N N 135 DT N1 C6 sing N N 136 DT C2 O2 doub N N 137 DT C2 N3 sing N N 138 DT N3 C4 sing N N 139 DT N3 H3 sing N N 140 DT C4 O4 doub N N 141 DT C4 C5 sing N N 142 DT C5 C7 sing N N 143 DT C5 C6 doub N N 144 DT C7 H71 sing N N 145 DT C7 H72 sing N N 146 DT C7 H73 sing N N 147 DT C6 H6 sing N N 148 HOH O H1 sing N N 149 HOH O H2 sing N N 150 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1D90 'double helix' 1D90 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DG 1 1_555 B DC 8 1_555 -0.707 0.059 -0.569 -11.462 2.930 -0.414 1 A_DG1:DC16_B A 1 ? B 16 ? 19 1 1 A DG 2 1_555 B DC 7 1_555 -0.373 0.061 -0.360 -6.319 -9.969 4.141 2 A_DG2:DC15_B A 2 ? B 15 ? 19 1 1 A DG 4 1_555 B DC 5 1_555 -0.301 0.052 0.048 -0.538 -6.013 2.248 3 A_DG4:DC13_B A 4 ? B 13 ? 19 1 1 A DC 5 1_555 B DG 4 1_555 0.409 -0.084 0.020 0.701 -14.806 -1.463 4 A_DC5:DG12_B A 5 ? B 12 ? 19 1 1 A DC 7 1_555 B DG 2 1_555 0.442 0.032 -0.169 12.800 -13.917 1.890 5 A_DC7:DG10_B A 7 ? B 10 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.445 0.354 -0.130 7.481 -4.011 -1.215 6 A_DC8:DG9_B A 8 ? B 9 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 1 1_555 B DC 8 1_555 A DG 2 1_555 B DC 7 1_555 0.805 -2.069 3.426 -0.627 9.501 31.875 -5.139 -1.509 2.699 16.836 1.112 33.231 1 AA_DG1DG2:DC15DC16_BB A 1 ? B 16 ? A 2 ? B 15 ? 1 A DG 4 1_555 B DC 5 1_555 A DC 5 1_555 B DG 4 1_555 -0.894 -1.350 3.435 -0.676 8.444 34.603 -3.444 1.364 3.048 13.938 1.115 35.594 2 AA_DG4DC5:DG12DC13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A DC 5 1_555 B DG 4 1_555 A DC 7 1_555 B DG 2 1_555 0.380 -2.613 6.355 2.858 11.433 64.965 -3.276 -0.130 5.885 10.554 -2.638 65.910 3 AA_DC5DC7:DG10DG12_BB A 5 ? B 12 ? A 7 ? B 10 ? 1 A DC 7 1_555 B DG 2 1_555 A DC 8 1_555 B DG 1 1_555 -0.293 -1.692 3.539 -1.116 9.188 32.740 -4.386 0.320 2.977 15.907 1.932 33.989 4 AA_DC7DC8:DG9DG10_BB A 7 ? B 10 ? A 8 ? B 9 ? # _atom_sites.entry_id 1D90 _atom_sites.fract_transf_matrix[1][1] 0.022188 _atom_sites.fract_transf_matrix[1][2] 0.012810 _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] 0.025620 _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] 0.021983 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_