data_1DN4 # _entry.id 1DN4 # _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 1DN4 pdb_00001dn4 10.2210/pdb1dn4/pdb RCSB ZDFB04 ? ? WWPDB D_1000172849 ? ? # 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 1987-04-16 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-04-18 5 'Structure model' 1 4 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 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 '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' diffrn_detector 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_diffrn_detector.detector' 2 5 'Structure model' '_database_2.pdbx_DOI' 3 5 'Structure model' '_database_2.pdbx_database_accession' 4 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1DN4 _pdbx_database_status.recvd_initial_deposition_date 1986-12-01 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site BNL _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chevrier, B.' 1 'Dock, A.C.' 2 'Hartmann, B.' 3 'Leng, M.' 4 'Moras, D.' 5 'Thuong, M.T.' 6 'Westhof, E.' 7 # _citation.id primary _citation.title 'Solvation of the left-handed hexamer d(5BrC-G-5BrC-G-5 BrC-G) in crystals grown at two temperatures.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 188 _citation.page_first 707 _citation.page_last 719 _citation.year 1986 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 3735433 _citation.pdbx_database_id_DOI '10.1016/S0022-2836(86)80016-X' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chevrier, B.' 1 ? primary 'Dock, A.C.' 2 ? primary 'Hartmann, B.' 3 ? primary 'Leng, M.' 4 ? primary 'Moras, D.' 5 ? primary 'Thuong, M.T.' 6 ? primary 'Westhof, E.' 7 ? # 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(*(CBR)P*GP*(CBR)P*GP*(CBR)P*G)-3') ; 2046.893 2 ? ? ? ? 2 water nat water 18.015 61 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(CBR)(DG)(CBR)(DG)(CBR)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGCG _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 CBR n 1 2 DG n 1 3 CBR n 1 4 DG n 1 5 CBR n 1 6 DG 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 CBR 'DNA linking' n "5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 Br N3 O7 P' 386.093 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 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 CBR 1 1 1 CBR C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 CBR 3 3 3 CBR C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 CBR 5 5 5 CBR C A . n A 1 6 DG 6 6 6 DG G A . n B 1 1 CBR 1 7 7 CBR C B . n B 1 2 DG 2 8 8 DG G B . n B 1 3 CBR 3 9 9 CBR C B . n B 1 4 DG 4 10 10 DG G B . n B 1 5 CBR 5 11 11 CBR C B . n B 1 6 DG 6 12 12 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 HOH 1 14 14 HOH HOH A . C 2 HOH 2 16 16 HOH HOH A . C 2 HOH 3 17 17 HOH HOH A . C 2 HOH 4 19 19 HOH HOH A . C 2 HOH 5 20 20 HOH HOH A . C 2 HOH 6 22 22 HOH HOH A . C 2 HOH 7 24 24 HOH HOH A . C 2 HOH 8 25 25 HOH HOH A . C 2 HOH 9 28 28 HOH HOH A . C 2 HOH 10 29 29 HOH HOH A . C 2 HOH 11 30 30 HOH HOH A . C 2 HOH 12 32 32 HOH HOH A . C 2 HOH 13 33 33 HOH HOH A . C 2 HOH 14 35 35 HOH HOH A . C 2 HOH 15 36 36 HOH HOH A . C 2 HOH 16 37 37 HOH HOH A . C 2 HOH 17 38 38 HOH HOH A . C 2 HOH 18 40 40 HOH HOH A . C 2 HOH 19 41 41 HOH HOH A . C 2 HOH 20 42 42 HOH HOH A . C 2 HOH 21 43 43 HOH HOH A . C 2 HOH 22 44 44 HOH HOH A . C 2 HOH 23 45 45 HOH HOH A . C 2 HOH 24 46 46 HOH HOH A . C 2 HOH 25 47 47 HOH HOH A . C 2 HOH 26 48 48 HOH HOH A . C 2 HOH 27 49 49 HOH HOH A . C 2 HOH 28 51 51 HOH HOH A . C 2 HOH 29 52 52 HOH HOH A . C 2 HOH 30 53 53 HOH HOH A . C 2 HOH 31 56 56 HOH HOH A . C 2 HOH 32 58 58 HOH HOH A . C 2 HOH 33 59 59 HOH HOH A . C 2 HOH 34 61 61 HOH HOH A . C 2 HOH 35 63 63 HOH HOH A . C 2 HOH 36 64 64 HOH HOH A . C 2 HOH 37 65 65 HOH HOH A . C 2 HOH 38 67 67 HOH HOH A . C 2 HOH 39 68 68 HOH HOH A . C 2 HOH 40 70 70 HOH HOH A . C 2 HOH 41 71 71 HOH HOH A . D 2 HOH 1 13 13 HOH HOH B . D 2 HOH 2 15 15 HOH HOH B . D 2 HOH 3 18 18 HOH HOH B . D 2 HOH 4 21 21 HOH HOH B . D 2 HOH 5 23 23 HOH HOH B . D 2 HOH 6 26 26 HOH HOH B . D 2 HOH 7 27 27 HOH HOH B . D 2 HOH 8 31 31 HOH HOH B . D 2 HOH 9 34 34 HOH HOH B . D 2 HOH 10 39 39 HOH HOH B . D 2 HOH 11 50 50 HOH HOH B . D 2 HOH 12 54 54 HOH HOH B . D 2 HOH 13 55 55 HOH HOH B . D 2 HOH 14 57 57 HOH HOH B . D 2 HOH 15 60 60 HOH HOH B . D 2 HOH 16 62 62 HOH HOH B . D 2 HOH 17 66 66 HOH HOH B . D 2 HOH 18 69 69 HOH HOH B . D 2 HOH 19 72 72 HOH HOH B . D 2 HOH 20 73 73 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1DN4 _cell.length_a 18.010 _cell.length_b 30.880 _cell.length_c 44.760 _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 1DN4 _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 1DN4 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 291.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details 'VAPOR DIFFUSION, temperature 291.00K' _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 MPD ? ? ? 1 3 1 NACL ? ? ? 1 4 1 'NA CACODYLATE' ? ? ? 1 5 2 WATER ? ? ? 1 6 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 291.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'ENRAF-NONIUS CAD4' _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 1DN4 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 3.000 _reflns.d_resolution_low 10.000 _reflns.d_resolution_high 1.600 _reflns.number_obs 2919 _reflns.number_all 3195 _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs ? _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 1DN4 _refine.ls_number_reflns_obs 3195 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 3.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 10.000 _refine.ls_d_res_high 1.600 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1327 _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 0.44 _refine.occupancy_max 1.0 _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 240 _refine_hist.pdbx_number_atoms_ligand 6 _refine_hist.number_atoms_solvent 61 _refine_hist.number_atoms_total 307 _refine_hist.d_res_high 1.600 _refine_hist.d_res_low 10.000 # _database_PDB_matrix.entry_id 1DN4 _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 1DN4 _struct.title 'SOLVATION OF THE LEFT-HANDED HEXAMER D(5BRC-G-5BRC-G-5BRC-G) IN CRYSTALS GROWN AT TWO TEMPERATURES' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1DN4 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DOUBLE HELIX, MODIFIED, 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 1DN4 _struct_ref.pdbx_db_accession 1DN4 _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 1DN4 A 1 ? 6 ? 1DN4 1 ? 6 ? 1 6 2 1 1DN4 B 1 ? 6 ? 1DN4 7 ? 12 ? 7 12 # _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 covale1 covale both ? A CBR 1 "O3'" ? ? ? 1_555 A DG 2 P ? ? A CBR 1 A DG 2 1_555 ? ? ? ? ? ? ? 1.724 ? ? covale2 covale both ? A DG 2 "O3'" ? ? ? 1_555 A CBR 3 P ? ? A DG 2 A CBR 3 1_555 ? ? ? ? ? ? ? 1.582 ? ? covale3 covale both ? A CBR 3 "O3'" ? ? ? 1_555 A DG 4 P ? ? A CBR 3 A DG 4 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale4 covale both ? A DG 4 "O3'" ? ? ? 1_555 A CBR 5 P ? ? A DG 4 A CBR 5 1_555 ? ? ? ? ? ? ? 1.636 ? ? covale5 covale both ? A CBR 5 "O3'" ? ? ? 1_555 A DG 6 P ? ? A CBR 5 A DG 6 1_555 ? ? ? ? ? ? ? 1.567 ? ? covale6 covale both ? B CBR 1 "O3'" ? ? ? 1_555 B DG 2 P ? ? B CBR 7 B DG 8 1_555 ? ? ? ? ? ? ? 1.651 ? ? covale7 covale both ? B DG 2 "O3'" ? ? ? 1_555 B CBR 3 P ? ? B DG 8 B CBR 9 1_555 ? ? ? ? ? ? ? 1.631 ? ? covale8 covale both ? B CBR 3 "O3'" ? ? ? 1_555 B DG 4 P ? ? B CBR 9 B DG 10 1_555 ? ? ? ? ? ? ? 1.502 ? ? covale9 covale both ? B DG 4 "O3'" ? ? ? 1_555 B CBR 5 P ? ? B DG 10 B CBR 11 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale10 covale both ? B CBR 5 "O3'" ? ? ? 1_555 B DG 6 P ? ? B CBR 11 B DG 12 1_555 ? ? ? ? ? ? ? 1.632 ? ? hydrog1 hydrog ? ? A CBR 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A CBR 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A CBR 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A CBR 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A CBR 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A CBR 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B CBR 5 N3 ? ? A DG 2 B CBR 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B CBR 5 O2 ? ? A DG 2 B CBR 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B CBR 5 N4 ? ? A DG 2 B CBR 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A CBR 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A CBR 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A CBR 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A CBR 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A CBR 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A CBR 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B CBR 3 N3 ? ? A DG 4 B CBR 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B CBR 3 O2 ? ? A DG 4 B CBR 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B CBR 3 N4 ? ? A DG 4 B CBR 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A CBR 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A CBR 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A CBR 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A CBR 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A CBR 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A CBR 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B CBR 1 N3 ? ? A DG 6 B CBR 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B CBR 1 O2 ? ? A DG 6 B CBR 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B CBR 1 N4 ? ? A DG 6 B CBR 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" A CBR 1 ? ? P A DG 2 ? ? 1.724 1.607 0.117 0.012 Y 2 1 "O4'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.347 1.446 -0.099 0.010 N 3 1 C6 A DG 4 ? ? N1 A DG 4 ? ? 1.347 1.391 -0.044 0.007 N 4 1 P A DG 6 ? ? OP1 A DG 6 ? ? 1.355 1.485 -0.130 0.017 N 5 1 P A DG 6 ? ? OP2 A DG 6 ? ? 1.628 1.485 0.143 0.017 N 6 1 P A DG 6 ? ? "O5'" A DG 6 ? ? 1.728 1.593 0.135 0.010 N 7 1 N7 A DG 6 ? ? C8 A DG 6 ? ? 1.254 1.305 -0.051 0.006 N 8 1 "O4'" B DG 8 ? ? "C4'" B DG 8 ? ? 1.345 1.446 -0.101 0.010 N 9 1 C2 B DG 8 ? ? N3 B DG 8 ? ? 1.379 1.323 0.056 0.008 N 10 1 N7 B DG 8 ? ? C8 B DG 8 ? ? 1.250 1.305 -0.055 0.006 N 11 1 "O3'" B CBR 9 ? ? P B DG 10 ? ? 1.502 1.607 -0.105 0.012 Y 12 1 P B DG 10 ? ? OP2 B DG 10 ? ? 1.381 1.485 -0.104 0.017 N 13 1 P B DG 10 ? ? "O5'" B DG 10 ? ? 1.689 1.593 0.096 0.010 N 14 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? 1.495 1.420 0.075 0.011 N 15 1 N3 B DG 10 ? ? C4 B DG 10 ? ? 1.395 1.350 0.045 0.007 N 16 1 C6 B DG 10 ? ? N1 B DG 10 ? ? 1.345 1.391 -0.046 0.007 N 17 1 C5 B DG 10 ? ? N7 B DG 10 ? ? 1.431 1.388 0.043 0.006 N 18 1 N7 B DG 10 ? ? C8 B DG 10 ? ? 1.250 1.305 -0.055 0.006 N 19 1 P B DG 12 ? ? OP2 B DG 12 ? ? 1.358 1.485 -0.127 0.017 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O5'" A DG 2 ? ? P A DG 2 ? ? OP1 A DG 2 ? ? 95.56 105.70 -10.14 0.90 N 2 1 "O5'" A DG 2 ? ? P A DG 2 ? ? OP2 A DG 2 ? ? 118.41 110.70 7.71 1.20 N 3 1 C6 A DG 2 ? ? N1 A DG 2 ? ? C2 A DG 2 ? ? 120.04 125.10 -5.06 0.60 N 4 1 C2 A DG 2 ? ? N3 A DG 2 ? ? C4 A DG 2 ? ? 116.17 111.90 4.27 0.50 N 5 1 C5 A DG 2 ? ? C6 A DG 2 ? ? N1 A DG 2 ? ? 115.35 111.50 3.85 0.50 N 6 1 C4 A DG 2 ? ? C5 A DG 2 ? ? N7 A DG 2 ? ? 107.84 110.80 -2.96 0.40 N 7 1 N3 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 124.22 119.90 4.32 0.70 N 8 1 N1 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 114.19 119.90 -5.71 0.60 N 9 1 "C3'" A CBR 3 ? ? "O3'" A CBR 3 ? ? P A DG 4 ? ? 128.97 119.70 9.27 1.20 Y 10 1 N1 A DG 4 ? ? C2 A DG 4 ? ? N3 A DG 4 ? ? 117.69 123.90 -6.21 0.60 N 11 1 C2 A DG 4 ? ? N3 A DG 4 ? ? C4 A DG 4 ? ? 119.61 111.90 7.71 0.50 N 12 1 N3 A DG 4 ? ? C4 A DG 4 ? ? C5 A DG 4 ? ? 123.94 128.60 -4.66 0.50 N 13 1 C5 A DG 4 ? ? C6 A DG 4 ? ? N1 A DG 4 ? ? 114.90 111.50 3.40 0.50 N 14 1 N3 A DG 4 ? ? C4 A DG 4 ? ? N9 A DG 4 ? ? 131.93 126.00 5.93 0.60 N 15 1 C5 A DG 4 ? ? C6 A DG 4 ? ? O6 A DG 4 ? ? 123.45 128.60 -5.15 0.60 N 16 1 "O3'" A CBR 5 ? ? P A DG 6 ? ? OP1 A DG 6 ? ? 129.23 110.50 18.73 1.10 Y 17 1 "O5'" A DG 6 ? ? P A DG 6 ? ? OP2 A DG 6 ? ? 96.95 105.70 -8.75 0.90 N 18 1 "O5'" A DG 6 ? ? "C5'" A DG 6 ? ? "C4'" A DG 6 ? ? 99.81 109.40 -9.59 0.80 N 19 1 "O4'" A DG 6 ? ? "C4'" A DG 6 ? ? "C3'" A DG 6 ? ? 114.02 106.00 8.02 0.60 N 20 1 "C1'" A DG 6 ? ? "O4'" A DG 6 ? ? "C4'" A DG 6 ? ? 100.84 110.10 -9.26 1.00 N 21 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? "C2'" A DG 6 ? ? 112.04 106.80 5.24 0.50 N 22 1 C6 A DG 6 ? ? N1 A DG 6 ? ? C2 A DG 6 ? ? 117.98 125.10 -7.12 0.60 N 23 1 N1 A DG 6 ? ? C2 A DG 6 ? ? N3 A DG 6 ? ? 127.99 123.90 4.09 0.60 N 24 1 N3 A DG 6 ? ? C4 A DG 6 ? ? C5 A DG 6 ? ? 124.90 128.60 -3.70 0.50 N 25 1 C5 A DG 6 ? ? C6 A DG 6 ? ? N1 A DG 6 ? ? 114.79 111.50 3.29 0.50 N 26 1 N3 A DG 6 ? ? C4 A DG 6 ? ? N9 A DG 6 ? ? 130.39 126.00 4.39 0.60 N 27 1 C5 A DG 6 ? ? C6 A DG 6 ? ? O6 A DG 6 ? ? 124.63 128.60 -3.97 0.60 N 28 1 "O5'" B DG 8 ? ? P B DG 8 ? ? OP2 B DG 8 ? ? 118.32 110.70 7.62 1.20 N 29 1 N1 B DG 8 ? ? C2 B DG 8 ? ? N3 B DG 8 ? ? 120.00 123.90 -3.90 0.60 N 30 1 N9 B DG 8 ? ? C4 B DG 8 ? ? C5 B DG 8 ? ? 101.73 105.40 -3.67 0.40 N 31 1 N3 B DG 8 ? ? C4 B DG 8 ? ? N9 B DG 8 ? ? 131.15 126.00 5.15 0.60 N 32 1 N1 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 124.68 119.90 4.78 0.60 N 33 1 C5 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 123.34 128.60 -5.26 0.60 N 34 1 "C3'" B DG 8 ? ? "O3'" B DG 8 ? ? P B CBR 9 ? ? 134.07 119.70 14.37 1.20 Y 35 1 OP1 B DG 10 ? ? P B DG 10 ? ? OP2 B DG 10 ? ? 109.25 119.60 -10.35 1.50 N 36 1 "O5'" B DG 10 ? ? "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? 103.09 109.40 -6.31 0.80 N 37 1 C2 B DG 10 ? ? N3 B DG 10 ? ? C4 B DG 10 ? ? 107.18 111.90 -4.72 0.50 N 38 1 N7 B DG 10 ? ? C8 B DG 10 ? ? N9 B DG 10 ? ? 117.95 113.10 4.85 0.50 N 39 1 C8 B DG 10 ? ? N9 B DG 10 ? ? C4 B DG 10 ? ? 102.35 106.40 -4.05 0.40 N 40 1 N1 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 123.58 116.20 7.38 0.90 N 41 1 N3 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 109.55 119.90 -10.35 0.70 N 42 1 "C3'" B DG 10 ? ? "O3'" B DG 10 ? ? P B CBR 11 ? ? 134.22 119.70 14.52 1.20 Y 43 1 "C3'" B CBR 11 ? ? "O3'" B CBR 11 ? ? P B DG 12 ? ? 108.34 119.70 -11.36 1.20 Y 44 1 OP1 B DG 12 ? ? P B DG 12 ? ? OP2 B DG 12 ? ? 135.44 119.60 15.84 1.50 N 45 1 P B DG 12 ? ? "O5'" B DG 12 ? ? "C5'" B DG 12 ? ? 107.62 120.90 -13.28 1.60 N 46 1 C4 B DG 12 ? ? C5 B DG 12 ? ? N7 B DG 12 ? ? 105.07 110.80 -5.73 0.40 N 47 1 C5 B DG 12 ? ? N7 B DG 12 ? ? C8 B DG 12 ? ? 110.27 104.30 5.97 0.50 N 48 1 N7 B DG 12 ? ? C8 B DG 12 ? ? N9 B DG 12 ? ? 107.54 113.10 -5.56 0.50 N 49 1 C8 B DG 12 ? ? N9 B DG 12 ? ? C4 B DG 12 ? ? 109.13 106.40 2.73 0.40 N # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A CBR 1 A CBR 1 ? DC ? 2 A CBR 3 A CBR 3 ? DC ? 3 A CBR 5 A CBR 5 ? DC ? 4 B CBR 1 B CBR 7 ? DC ? 5 B CBR 3 B CBR 9 ? DC ? 6 B CBR 5 B CBR 11 ? DC ? # loop_ _refine_B_iso.class _refine_B_iso.details _refine_B_iso.treatment _refine_B_iso.pdbx_refine_id 'ALL ATOMS' TR isotropic 'X-RAY DIFFRACTION' 'ALL SOLVENTS' TR isotropic 'X-RAY DIFFRACTION' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL SOLVENTS' ref '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 CBR BR BR N N 1 CBR P P N N 2 CBR OP1 O N N 3 CBR OP2 O N N 4 CBR "O5'" O N N 5 CBR N1 N N N 6 CBR C6 C N N 7 CBR C2 C N N 8 CBR O2 O N N 9 CBR N3 N N N 10 CBR C4 C N N 11 CBR N4 N N N 12 CBR C5 C N N 13 CBR "C2'" C N N 14 CBR "C5'" C N N 15 CBR "C4'" C N R 16 CBR "O4'" O N N 17 CBR "C1'" C N R 18 CBR "C3'" C N S 19 CBR "O3'" O N N 20 CBR OP3 O N N 21 CBR HOP2 H N N 22 CBR H6 H N N 23 CBR H41 H N N 24 CBR H42 H N N 25 CBR "H2'" H N N 26 CBR "H2''" H N N 27 CBR "H5'" H N N 28 CBR "H5''" H N N 29 CBR "H4'" H N N 30 CBR "H1'" H N N 31 CBR "H3'" H N N 32 CBR "HO3'" H N N 33 CBR HOP3 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 HOH O O N N 72 HOH H1 H N N 73 HOH H2 H N N 74 # 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 CBR BR C5 sing N N 1 CBR P OP1 doub N N 2 CBR P OP2 sing N N 3 CBR P "O5'" sing N N 4 CBR P OP3 sing N N 5 CBR OP2 HOP2 sing N N 6 CBR "O5'" "C5'" sing N N 7 CBR N1 C6 sing N N 8 CBR N1 C2 sing N N 9 CBR N1 "C1'" sing N N 10 CBR C6 C5 doub N N 11 CBR C6 H6 sing N N 12 CBR C2 O2 doub N N 13 CBR C2 N3 sing N N 14 CBR N3 C4 doub N N 15 CBR C4 N4 sing N N 16 CBR C4 C5 sing N N 17 CBR N4 H41 sing N N 18 CBR N4 H42 sing N N 19 CBR "C2'" "C1'" sing N N 20 CBR "C2'" "C3'" sing N N 21 CBR "C2'" "H2'" sing N N 22 CBR "C2'" "H2''" sing N N 23 CBR "C5'" "C4'" sing N N 24 CBR "C5'" "H5'" sing N N 25 CBR "C5'" "H5''" sing N N 26 CBR "C4'" "O4'" sing N N 27 CBR "C4'" "C3'" sing N N 28 CBR "C4'" "H4'" sing N N 29 CBR "O4'" "C1'" sing N N 30 CBR "C1'" "H1'" sing N N 31 CBR "C3'" "O3'" sing N N 32 CBR "C3'" "H3'" sing N N 33 CBR "O3'" "HO3'" sing N N 34 CBR OP3 HOP3 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 HOH O H1 sing N N 75 HOH O H2 sing N N 76 # _ndb_struct_conf_na.entry_id 1DN4 _ndb_struct_conf_na.feature 'z-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 CBR 1 1_555 B DG 6 1_555 -0.175 0.100 -0.190 14.210 2.881 1.617 1 A_CBR1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B CBR 5 1_555 0.368 -0.117 0.570 1.411 3.734 1.933 2 A_DG2:CBR11_B A 2 ? B 11 ? 19 1 1 A CBR 3 1_555 B DG 4 1_555 -0.246 -0.057 -0.010 -2.619 -4.437 1.453 3 A_CBR3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B CBR 3 1_555 0.413 -0.174 -0.088 -12.785 -1.705 0.206 4 A_DG4:CBR9_B A 4 ? B 9 ? 19 1 1 A CBR 5 1_555 B DG 2 1_555 -0.466 -0.106 0.173 6.284 3.421 0.830 5 A_CBR5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B CBR 1 1_555 0.250 -0.219 0.092 -2.341 -3.295 1.085 6 A_DG6:CBR7_B A 6 ? B 7 ? 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 CBR 1 1_555 B DG 6 1_555 A DG 2 1_555 B CBR 5 1_555 0.016 5.711 4.006 -5.043 -0.263 -11.685 -25.387 -7.182 3.804 1.221 -23.392 -12.726 1 AA_CBR1DG2:CBR11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B CBR 5 1_555 A CBR 3 1_555 B DG 4 1_555 -0.019 -1.144 3.633 3.777 -3.225 -48.317 1.664 0.297 3.546 3.928 4.600 -48.556 2 AA_DG2CBR3:DG10CBR11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A CBR 3 1_555 B DG 4 1_555 A DG 4 1_555 B CBR 3 1_555 0.034 5.350 3.658 0.031 -2.312 -8.882 -26.616 0.304 4.885 14.606 0.194 -9.178 3 AA_CBR3DG4:CBR9DG10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DG 4 1_555 B CBR 3 1_555 A CBR 5 1_555 B DG 2 1_555 -0.231 -1.105 3.087 0.401 -4.137 -50.307 1.569 -0.244 2.995 4.856 0.471 -50.467 4 AA_DG4CBR5:DG8CBR9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A CBR 5 1_555 B DG 2 1_555 A DG 6 1_555 B CBR 1 1_555 -0.015 5.544 3.789 1.222 -0.673 -11.668 -25.980 1.923 4.081 3.295 5.981 -11.751 5 AA_CBR5DG6:CBR7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # _atom_sites.entry_id 1DN4 _atom_sites.fract_transf_matrix[1][1] 0.055525 _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] 0.032383 _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] 0.022341 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # _atom_sites_footnote.id 2 _atom_sites_footnote.text 'ATOM HOH 1 IS PROBABLY A SODIUM ION.' # loop_ _atom_type.symbol BR C N O P # loop_