data_115D # _entry.id 115D # _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 115D pdb_0000115d 10.2210/pdb115d/pdb RCSB ADHB11 ? ? WWPDB D_1000170040 ? ? # 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 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 115D _pdbx_database_status.recvd_initial_deposition_date 1993-02-12 _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kennard, O.' 1 'Cruse, W.B.T.' 2 'Nachman, J.' 3 'Prange, T.' 4 'Shakked, Z.' 5 'Rabinovich, D.' 6 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Ordered water structure in an A-DNA octamer at 1.7 A resolution.' J.Biomol.Struct.Dyn. 3 623 647 1986 JBSDD6 US 0739-1102 0646 ? 3271041 ? 1 'Coexistence of A-and B-Form DNA in a Single Crystal Lattice' Nature 337 190 192 1989 NATUAS UK 0028-0836 0006 ? ? ? 2 'Sequence-Dependent Conformation of an A-DNA Double Helix. The Crystal Structure of the Octamer d(G-G-T-A-T-A-C-C)' J.Mol.Biol. 166 183 201 1983 JMOBAK UK 0022-2836 0070 ? ? ? 3 'Crystalline A-DNA. The X-Ray Analysis of the Fragment d(G-G-T-A-T-A-C-C)' Proc.R.Soc.London,Ser.B 213 479 487 1981 PRLBA4 UK 0080-4649 0338 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kennard, O.' 1 ? primary 'Cruse, W.B.' 2 ? primary 'Nachman, J.' 3 ? primary 'Prange, T.' 4 ? primary 'Shakked, Z.' 5 ? primary 'Rabinovich, D.' 6 ? 1 'Doucet, J.' 7 ? 1 'Benoit, J.-P.' 8 ? 1 'Cruse, W.B.T.' 9 ? 1 'Prange, T.' 10 ? 1 'Kennard, O.' 11 ? 2 'Shakked, Z.' 12 ? 2 'Rabinovich, D.' 13 ? 2 'Kennard, O.' 14 ? 2 'Cruse, W.B.T.' 15 ? 2 'Salisbury, S.A.' 16 ? 2 'Viswamitra, M.A.' 17 ? 3 'Shakked, Z.' 18 ? 3 'Rabinovich, D.' 19 ? 3 'Cruse, W.B.T.' 20 ? 3 'Egert, E.' 21 ? 3 'Kennard, O.' 22 ? 3 'Sala, G.' 23 ? 3 'Salisbury, S.A.' 24 ? 3 'Viswamitra, M.A.' 25 ? # 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*(BRU)P*AP*(BRU)P*AP*CP*C)-3') ; 2556.357 2 ? ? ? ? 2 water nat water 18.015 85 ? ? ? ? # _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 '(DG)(DG)(BRU)(DA)(BRU)(DA)(DC)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GGUAUACC _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 BRU n 1 4 DA n 1 5 BRU n 1 6 DA 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 BRU 'DNA linking' n "5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE" ? 'C9 H12 Br N2 O8 P' 387.078 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 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 BRU 3 3 3 BRU +U A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 BRU 5 5 5 BRU +U A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DC 7 7 7 DC C A . n A 1 8 DC 8 8 8 DC C A . n 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 BRU 3 11 11 BRU +U B . n B 1 4 DA 4 12 12 DA A B . n B 1 5 BRU 5 13 13 BRU +U B . n B 1 6 DA 6 14 14 DA A 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 19 19 HOH HOH A . C 2 HOH 3 20 20 HOH HOH A . C 2 HOH 4 24 24 HOH HOH A . C 2 HOH 5 27 27 HOH HOH A . C 2 HOH 6 29 29 HOH HOH A . C 2 HOH 7 30 30 HOH HOH A . C 2 HOH 8 31 31 HOH HOH A . C 2 HOH 9 33 33 HOH HOH A . C 2 HOH 10 34 34 HOH HOH A . C 2 HOH 11 35 35 HOH HOH A . C 2 HOH 12 36 36 HOH HOH A . C 2 HOH 13 38 38 HOH HOH A . C 2 HOH 14 39 39 HOH HOH A . C 2 HOH 15 40 40 HOH HOH A . C 2 HOH 16 43 43 HOH HOH A . C 2 HOH 17 44 44 HOH HOH A . C 2 HOH 18 46 46 HOH HOH A . C 2 HOH 19 49 49 HOH HOH A . C 2 HOH 20 56 56 HOH HOH A . C 2 HOH 21 57 57 HOH HOH A . C 2 HOH 22 58 58 HOH HOH A . C 2 HOH 23 60 60 HOH HOH A . C 2 HOH 24 61 61 HOH HOH A . C 2 HOH 25 66 66 HOH HOH A . C 2 HOH 26 70 70 HOH HOH A . C 2 HOH 27 72 72 HOH HOH A . C 2 HOH 28 79 79 HOH HOH A . C 2 HOH 29 80 80 HOH HOH A . C 2 HOH 30 81 81 HOH HOH A . C 2 HOH 31 82 82 HOH HOH A . C 2 HOH 32 83 83 HOH HOH A . C 2 HOH 33 84 84 HOH HOH A . C 2 HOH 34 86 86 HOH HOH A . C 2 HOH 35 87 87 HOH HOH A . C 2 HOH 36 89 89 HOH HOH A . C 2 HOH 37 90 90 HOH HOH A . C 2 HOH 38 91 91 HOH HOH A . C 2 HOH 39 92 92 HOH HOH A . C 2 HOH 40 93 93 HOH HOH A . C 2 HOH 41 94 94 HOH HOH A . C 2 HOH 42 96 96 HOH HOH A . C 2 HOH 43 98 98 HOH HOH A . C 2 HOH 44 100 100 HOH HOH A . C 2 HOH 45 101 101 HOH HOH A . D 2 HOH 1 17 17 HOH HOH B . D 2 HOH 2 21 21 HOH HOH B . D 2 HOH 3 22 22 HOH HOH B . D 2 HOH 4 23 23 HOH HOH B . D 2 HOH 5 25 25 HOH HOH B . D 2 HOH 6 26 26 HOH HOH B . D 2 HOH 7 28 28 HOH HOH B . D 2 HOH 8 32 32 HOH HOH B . D 2 HOH 9 37 37 HOH HOH B . D 2 HOH 10 41 41 HOH HOH B . D 2 HOH 11 42 42 HOH HOH B . D 2 HOH 12 45 45 HOH HOH B . D 2 HOH 13 47 47 HOH HOH B . D 2 HOH 14 48 48 HOH HOH B . D 2 HOH 15 50 50 HOH HOH B . D 2 HOH 16 51 51 HOH HOH B . D 2 HOH 17 52 52 HOH HOH B . D 2 HOH 18 53 53 HOH HOH B . D 2 HOH 19 54 54 HOH HOH B . D 2 HOH 20 55 55 HOH HOH B . D 2 HOH 21 59 59 HOH HOH B . D 2 HOH 22 62 62 HOH HOH B . D 2 HOH 23 63 63 HOH HOH B . D 2 HOH 24 64 64 HOH HOH B . D 2 HOH 25 65 65 HOH HOH B . D 2 HOH 26 67 67 HOH HOH B . D 2 HOH 27 68 68 HOH HOH B . D 2 HOH 28 69 69 HOH HOH B . D 2 HOH 29 71 71 HOH HOH B . D 2 HOH 30 73 73 HOH HOH B . D 2 HOH 31 74 74 HOH HOH B . D 2 HOH 32 75 75 HOH HOH B . D 2 HOH 33 76 76 HOH HOH B . D 2 HOH 34 77 77 HOH HOH B . D 2 HOH 35 78 78 HOH HOH B . D 2 HOH 36 85 85 HOH HOH B . D 2 HOH 37 88 88 HOH HOH B . D 2 HOH 38 95 95 HOH HOH B . D 2 HOH 39 97 97 HOH HOH B . D 2 HOH 40 99 99 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 115D _cell.length_a 45.084 _cell.length_b 45.084 _cell.length_c 41.720 _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 115D _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 115D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.39 _exptl_crystal.density_percent_sol 48.62 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _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' _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 'MG ACETATE' ? ? ? 1 4 1 SPERMINE_HCL ? ? ? 1 5 2 WATER ? ? ? 1 6 2 MPD ? ? ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 ? 'ROOM TEMPERATURE' 1 2 ? ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 DIFFRACTOMETER 'ENRAF-NONIUS CAD4' ? ? 2 'OSCILLATION CAMERA' PHILLIPS ? ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M ? ? x-ray 2 2 M ? ? x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 . 1.0 2 . 1.0 # loop_ _diffrn_source.diffrn_id _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 1 'SEALED TUBE' ? ? ? ? ? 2 SYNCHROTRON LURE LURE ? ? ? # _reflns.entry_id 115D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 1.700 _reflns.number_obs 4669 _reflns.number_all ? _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 1,2 _reflns.pdbx_ordinal 1 # _refine.entry_id 115D _refine.ls_number_reflns_obs 4428 _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 10.000 _refine.ls_d_res_high 1.700 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.14 _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 318 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 85 _refine_hist.number_atoms_total 407 _refine_hist.d_res_high 1.700 _refine_hist.d_res_low 10.000 # _database_PDB_matrix.entry_id 115D _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 115D _struct.title 'ORDERED WATER STRUCTURE IN AN A-DNA OCTAMER AT 1.7 ANGSTROMS RESOLUTION' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 115D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'A-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 115D _struct_ref.pdbx_db_accession 115D _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 115D A 1 ? 8 ? 115D 1 ? 8 ? 1 8 2 1 115D B 1 ? 8 ? 115D 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 covale1 covale both ? A DG 2 "O3'" ? ? ? 1_555 A BRU 3 P ? ? A DG 2 A BRU 3 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale2 covale both ? A BRU 3 "O3'" ? ? ? 1_555 A DA 4 P ? ? A BRU 3 A DA 4 1_555 ? ? ? ? ? ? ? 1.586 ? ? covale3 covale both ? A DA 4 "O3'" ? ? ? 1_555 A BRU 5 P ? ? A DA 4 A BRU 5 1_555 ? ? ? ? ? ? ? 1.524 ? ? covale4 covale both ? A BRU 5 "O3'" ? ? ? 1_555 A DA 6 P ? ? A BRU 5 A DA 6 1_555 ? ? ? ? ? ? ? 1.536 ? ? covale5 covale both ? B DG 2 "O3'" ? ? ? 1_555 B BRU 3 P ? ? B DG 10 B BRU 11 1_555 ? ? ? ? ? ? ? 1.540 ? ? covale6 covale both ? B BRU 3 "O3'" ? ? ? 1_555 B DA 4 P ? ? B BRU 11 B DA 12 1_555 ? ? ? ? ? ? ? 1.567 ? ? covale7 covale both ? B DA 4 "O3'" ? ? ? 1_555 B BRU 5 P ? ? B DA 12 B BRU 13 1_555 ? ? ? ? ? ? ? 1.625 ? ? covale8 covale both ? B BRU 5 "O3'" ? ? ? 1_555 B DA 6 P ? ? B BRU 13 B DA 14 1_555 ? ? ? ? ? ? ? 1.658 ? ? 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 BRU 3 N3 ? ? ? 1_555 B DA 6 N1 ? ? A BRU 3 B DA 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A BRU 3 O4 ? ? ? 1_555 B DA 6 N6 ? ? A BRU 3 B DA 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B BRU 5 N3 ? ? A DA 4 B BRU 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B BRU 5 O4 ? ? A DA 4 B BRU 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A BRU 5 N3 ? ? ? 1_555 B DA 4 N1 ? ? A BRU 5 B DA 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A BRU 5 O4 ? ? ? 1_555 B DA 4 N6 ? ? A BRU 5 B DA 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B BRU 3 N3 ? ? A DA 6 B BRU 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B BRU 3 O4 ? ? A DA 6 B BRU 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 "C5'" _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 DG _pdbx_validate_close_contact.auth_seq_id_1 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 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 79 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.94 # 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 OP1 B DC 15 ? ? 1_555 O A HOH 83 ? ? 6_655 1.86 2 1 O A HOH 35 ? ? 1_555 O B HOH 88 ? ? 3_664 1.94 3 1 O A HOH 35 ? ? 1_555 O B HOH 26 ? ? 5_564 2.00 # 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 P A DA 4 ? ? "O5'" A DA 4 ? ? 1.657 1.593 0.064 0.010 N 2 1 "O3'" A DA 4 ? ? P A BRU 5 ? ? 1.524 1.607 -0.083 0.012 Y 3 1 P B DC 16 ? ? OP2 B DC 16 ? ? 1.375 1.485 -0.110 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 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? "C3'" A DG 1 ? ? 125.84 115.70 10.14 1.20 N 2 1 OP1 A DG 2 ? ? P A DG 2 ? ? OP2 A DG 2 ? ? 129.29 119.60 9.69 1.50 N 3 1 "O5'" A DG 2 ? ? P A DG 2 ? ? OP1 A DG 2 ? ? 98.13 105.70 -7.57 0.90 N 4 1 "O4'" A DA 4 ? ? "C4'" A DA 4 ? ? "C3'" A DA 4 ? ? 101.84 104.50 -2.66 0.40 N 5 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 103.05 108.00 -4.95 0.70 N 6 1 "O3'" A BRU 5 ? ? P A DA 6 ? ? OP2 A DA 6 ? ? 120.32 110.50 9.82 1.10 Y 7 1 "O3'" A DA 6 ? ? P A DC 7 ? ? OP2 A DC 7 ? ? 119.37 110.50 8.87 1.10 Y 8 1 "O4'" A DC 7 ? ? "C1'" A DC 7 ? ? N1 A DC 7 ? ? 110.21 108.30 1.91 0.30 N 9 1 "O4'" A DC 8 ? ? "C4'" A DC 8 ? ? "C3'" A DC 8 ? ? 99.78 104.50 -4.72 0.40 N 10 1 "C5'" B DG 9 ? ? "C4'" B DG 9 ? ? "O4'" B DG 9 ? ? 117.01 109.80 7.21 1.10 N 11 1 "C4'" B DG 9 ? ? "C3'" B DG 9 ? ? "C2'" B DG 9 ? ? 97.73 102.20 -4.47 0.70 N 12 1 C5 B DG 9 ? ? C6 B DG 9 ? ? N1 B DG 9 ? ? 114.75 111.50 3.25 0.50 N 13 1 "O3'" B BRU 11 ? ? P B DA 12 ? ? OP2 B DA 12 ? ? 117.33 110.50 6.83 1.10 Y 14 1 "O5'" B DA 12 ? ? P B DA 12 ? ? OP2 B DA 12 ? ? 99.82 105.70 -5.88 0.90 N 15 1 "O4'" B DA 14 ? ? "C4'" B DA 14 ? ? "C3'" B DA 14 ? ? 101.62 104.50 -2.88 0.40 N 16 1 OP1 B DC 16 ? ? P B DC 16 ? ? OP2 B DC 16 ? ? 136.80 119.60 17.20 1.50 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 BRU 3 A BRU 3 ? DU ? 2 A BRU 5 A BRU 5 ? DU ? 3 B BRU 3 B BRU 11 ? DU ? 4 B BRU 5 B BRU 13 ? DU ? # 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 WATERS' TR isotropic '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 BRU N1 N N N 1 BRU C2 C N N 2 BRU N3 N N N 3 BRU C4 C N N 4 BRU C5 C N N 5 BRU C6 C N N 6 BRU O2 O N N 7 BRU O4 O N N 8 BRU BR BR N N 9 BRU "C1'" C N R 10 BRU "C2'" C N N 11 BRU "C3'" C N S 12 BRU "C4'" C N R 13 BRU "O3'" O N N 14 BRU "O4'" O N N 15 BRU "C5'" C N N 16 BRU "O5'" O N N 17 BRU P P N N 18 BRU OP1 O N N 19 BRU OP2 O N N 20 BRU OP3 O N N 21 BRU HN3 H N N 22 BRU H6 H N N 23 BRU "H1'" H N N 24 BRU "H2'" H N N 25 BRU "H2''" H N N 26 BRU "H3'" H N N 27 BRU "H4'" H N N 28 BRU "HO3'" H N N 29 BRU "H5'" H N N 30 BRU "H5''" H N N 31 BRU HOP2 H N N 32 BRU HOP3 H N N 33 DA OP3 O N N 34 DA P P N N 35 DA OP1 O N N 36 DA OP2 O N N 37 DA "O5'" O N N 38 DA "C5'" C N N 39 DA "C4'" C N R 40 DA "O4'" O N N 41 DA "C3'" C N S 42 DA "O3'" O N N 43 DA "C2'" C N N 44 DA "C1'" C N R 45 DA N9 N Y N 46 DA C8 C Y N 47 DA N7 N Y N 48 DA C5 C Y N 49 DA C6 C Y N 50 DA N6 N N N 51 DA N1 N Y N 52 DA C2 C Y N 53 DA N3 N Y N 54 DA C4 C Y N 55 DA HOP3 H N N 56 DA HOP2 H N N 57 DA "H5'" H N N 58 DA "H5''" H N N 59 DA "H4'" H N N 60 DA "H3'" H N N 61 DA "HO3'" H N N 62 DA "H2'" H N N 63 DA "H2''" H N N 64 DA "H1'" H N N 65 DA H8 H N N 66 DA H61 H N N 67 DA H62 H N N 68 DA H2 H N N 69 DC OP3 O N N 70 DC P P N N 71 DC OP1 O N N 72 DC OP2 O N N 73 DC "O5'" O N N 74 DC "C5'" C N N 75 DC "C4'" C N R 76 DC "O4'" O N N 77 DC "C3'" C N S 78 DC "O3'" O N N 79 DC "C2'" C N N 80 DC "C1'" C N R 81 DC N1 N N N 82 DC C2 C N N 83 DC O2 O N N 84 DC N3 N N N 85 DC C4 C N N 86 DC N4 N N N 87 DC C5 C N N 88 DC C6 C N N 89 DC HOP3 H N N 90 DC HOP2 H N N 91 DC "H5'" H N N 92 DC "H5''" H N N 93 DC "H4'" H N N 94 DC "H3'" H N N 95 DC "HO3'" H N N 96 DC "H2'" H N N 97 DC "H2''" H N N 98 DC "H1'" H N N 99 DC H41 H N N 100 DC H42 H N N 101 DC H5 H N N 102 DC H6 H N N 103 DG OP3 O N N 104 DG P P N N 105 DG OP1 O N N 106 DG OP2 O N N 107 DG "O5'" O N N 108 DG "C5'" C N N 109 DG "C4'" C N R 110 DG "O4'" O N N 111 DG "C3'" C N S 112 DG "O3'" O N N 113 DG "C2'" C N N 114 DG "C1'" C N R 115 DG N9 N Y N 116 DG C8 C Y N 117 DG N7 N Y N 118 DG C5 C Y N 119 DG C6 C N N 120 DG O6 O N N 121 DG N1 N N N 122 DG C2 C N N 123 DG N2 N N N 124 DG N3 N N N 125 DG C4 C Y N 126 DG HOP3 H N N 127 DG HOP2 H N N 128 DG "H5'" H N N 129 DG "H5''" H N N 130 DG "H4'" H N N 131 DG "H3'" H N N 132 DG "HO3'" H N N 133 DG "H2'" H N N 134 DG "H2''" H N N 135 DG "H1'" H N N 136 DG H8 H N N 137 DG H1 H N N 138 DG H21 H N N 139 DG H22 H N N 140 HOH O O N N 141 HOH H1 H N N 142 HOH H2 H N N 143 # 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 BRU N1 C2 sing N N 1 BRU N1 C6 sing N N 2 BRU N1 "C1'" sing N N 3 BRU C2 N3 sing N N 4 BRU C2 O2 doub N N 5 BRU N3 C4 sing N N 6 BRU N3 HN3 sing N N 7 BRU C4 C5 sing N N 8 BRU C4 O4 doub N N 9 BRU C5 C6 doub N N 10 BRU C5 BR sing N N 11 BRU C6 H6 sing N N 12 BRU "C1'" "C2'" sing N N 13 BRU "C1'" "O4'" sing N N 14 BRU "C1'" "H1'" sing N N 15 BRU "C2'" "C3'" sing N N 16 BRU "C2'" "H2'" sing N N 17 BRU "C2'" "H2''" sing N N 18 BRU "C3'" "C4'" sing N N 19 BRU "C3'" "O3'" sing N N 20 BRU "C3'" "H3'" sing N N 21 BRU "C4'" "O4'" sing N N 22 BRU "C4'" "C5'" sing N N 23 BRU "C4'" "H4'" sing N N 24 BRU "O3'" "HO3'" sing N N 25 BRU "C5'" "O5'" sing N N 26 BRU "C5'" "H5'" sing N N 27 BRU "C5'" "H5''" sing N N 28 BRU "O5'" P sing N N 29 BRU P OP1 doub N N 30 BRU P OP2 sing N N 31 BRU P OP3 sing N N 32 BRU OP2 HOP2 sing N N 33 BRU OP3 HOP3 sing N N 34 DA OP3 P sing N N 35 DA OP3 HOP3 sing N N 36 DA P OP1 doub N N 37 DA P OP2 sing N N 38 DA P "O5'" sing N N 39 DA OP2 HOP2 sing N N 40 DA "O5'" "C5'" sing N N 41 DA "C5'" "C4'" sing N N 42 DA "C5'" "H5'" sing N N 43 DA "C5'" "H5''" sing N N 44 DA "C4'" "O4'" sing N N 45 DA "C4'" "C3'" sing N N 46 DA "C4'" "H4'" sing N N 47 DA "O4'" "C1'" sing N N 48 DA "C3'" "O3'" sing N N 49 DA "C3'" "C2'" sing N N 50 DA "C3'" "H3'" sing N N 51 DA "O3'" "HO3'" sing N N 52 DA "C2'" "C1'" sing N N 53 DA "C2'" "H2'" sing N N 54 DA "C2'" "H2''" sing N N 55 DA "C1'" N9 sing N N 56 DA "C1'" "H1'" sing N N 57 DA N9 C8 sing Y N 58 DA N9 C4 sing Y N 59 DA C8 N7 doub Y N 60 DA C8 H8 sing N N 61 DA N7 C5 sing Y N 62 DA C5 C6 sing Y N 63 DA C5 C4 doub Y N 64 DA C6 N6 sing N N 65 DA C6 N1 doub Y N 66 DA N6 H61 sing N N 67 DA N6 H62 sing N N 68 DA N1 C2 sing Y N 69 DA C2 N3 doub Y N 70 DA C2 H2 sing N N 71 DA N3 C4 sing Y N 72 DC OP3 P sing N N 73 DC OP3 HOP3 sing N N 74 DC P OP1 doub N N 75 DC P OP2 sing N N 76 DC P "O5'" sing N N 77 DC OP2 HOP2 sing N N 78 DC "O5'" "C5'" sing N N 79 DC "C5'" "C4'" sing N N 80 DC "C5'" "H5'" sing N N 81 DC "C5'" "H5''" sing N N 82 DC "C4'" "O4'" sing N N 83 DC "C4'" "C3'" sing N N 84 DC "C4'" "H4'" sing N N 85 DC "O4'" "C1'" sing N N 86 DC "C3'" "O3'" sing N N 87 DC "C3'" "C2'" sing N N 88 DC "C3'" "H3'" sing N N 89 DC "O3'" "HO3'" sing N N 90 DC "C2'" "C1'" sing N N 91 DC "C2'" "H2'" sing N N 92 DC "C2'" "H2''" sing N N 93 DC "C1'" N1 sing N N 94 DC "C1'" "H1'" sing N N 95 DC N1 C2 sing N N 96 DC N1 C6 sing N N 97 DC C2 O2 doub N N 98 DC C2 N3 sing N N 99 DC N3 C4 doub N N 100 DC C4 N4 sing N N 101 DC C4 C5 sing N N 102 DC N4 H41 sing N N 103 DC N4 H42 sing N N 104 DC C5 C6 doub N N 105 DC C5 H5 sing N N 106 DC C6 H6 sing N N 107 DG OP3 P sing N N 108 DG OP3 HOP3 sing N N 109 DG P OP1 doub N N 110 DG P OP2 sing N N 111 DG P "O5'" sing N N 112 DG OP2 HOP2 sing N N 113 DG "O5'" "C5'" sing N N 114 DG "C5'" "C4'" sing N N 115 DG "C5'" "H5'" sing N N 116 DG "C5'" "H5''" sing N N 117 DG "C4'" "O4'" sing N N 118 DG "C4'" "C3'" sing N N 119 DG "C4'" "H4'" sing N N 120 DG "O4'" "C1'" sing N N 121 DG "C3'" "O3'" sing N N 122 DG "C3'" "C2'" sing N N 123 DG "C3'" "H3'" sing N N 124 DG "O3'" "HO3'" sing N N 125 DG "C2'" "C1'" sing N N 126 DG "C2'" "H2'" sing N N 127 DG "C2'" "H2''" sing N N 128 DG "C1'" N9 sing N N 129 DG "C1'" "H1'" sing N N 130 DG N9 C8 sing Y N 131 DG N9 C4 sing Y N 132 DG C8 N7 doub Y N 133 DG C8 H8 sing N N 134 DG N7 C5 sing Y N 135 DG C5 C6 sing N N 136 DG C5 C4 doub Y N 137 DG C6 O6 doub N N 138 DG C6 N1 sing N N 139 DG N1 C2 sing N N 140 DG N1 H1 sing N N 141 DG C2 N2 sing N N 142 DG C2 N3 doub N N 143 DG N2 H21 sing N N 144 DG N2 H22 sing N N 145 DG N3 C4 sing N N 146 HOH O H1 sing N N 147 HOH O H2 sing N N 148 # _ndb_struct_conf_na.entry_id 115D _ndb_struct_conf_na.feature 'a-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 DG 1 1_555 B DC 8 1_555 -0.362 -0.169 -0.143 -7.835 -5.405 -1.602 1 A_DG1:DC16_B A 1 ? B 16 ? 19 1 1 A DG 2 1_555 B DC 7 1_555 -0.287 -0.071 -0.154 -11.372 -9.608 1.223 2 A_DG2:DC15_B A 2 ? B 15 ? 19 1 1 A BRU 3 1_555 B DA 6 1_555 -0.051 -0.088 -0.022 -6.810 -9.201 -2.419 3 A_BRU3:DA14_B A 3 ? B 14 ? 20 1 1 A DA 4 1_555 B BRU 5 1_555 0.096 -0.074 0.245 0.193 -7.217 1.580 4 A_DA4:BRU13_B A 4 ? B 13 ? 20 1 1 A BRU 5 1_555 B DA 4 1_555 -0.099 -0.077 0.054 7.768 -9.279 4.237 5 A_BRU5:DA12_B A 5 ? B 12 ? 20 1 1 A DA 6 1_555 B BRU 3 1_555 0.023 -0.097 -0.060 8.299 -13.438 0.947 6 A_DA6:BRU11_B A 6 ? B 11 ? 20 1 1 A DC 7 1_555 B DG 2 1_555 0.385 -0.059 -0.106 8.276 -13.947 3.192 7 A_DC7:DG10_B A 7 ? B 10 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.266 -0.099 -0.094 6.726 -1.093 -1.053 8 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 0.149 -1.834 3.465 -0.138 7.466 33.570 -4.270 -0.273 3.000 12.731 0.235 34.367 1 AA_DG1DG2:DC15DC16_BB A 1 ? B 16 ? A 2 ? B 15 ? 1 A DG 2 1_555 B DC 7 1_555 A BRU 3 1_555 B DA 6 1_555 -0.592 -1.237 3.302 0.044 0.826 33.143 -2.308 1.045 3.270 1.447 -0.076 33.153 2 AA_DG2BRU3:DA14DC15_BB A 2 ? B 15 ? A 3 ? B 14 ? 1 A BRU 3 1_555 B DA 6 1_555 A DA 4 1_555 B BRU 5 1_555 0.248 -1.220 3.103 -2.276 10.280 30.220 -3.868 -0.817 2.537 19.007 4.208 31.961 3 AA_BRU3DA4:BRU13DA14_BB A 3 ? B 14 ? A 4 ? B 13 ? 1 A DA 4 1_555 B BRU 5 1_555 A BRU 5 1_555 B DA 4 1_555 0.364 -1.087 3.238 1.376 3.399 30.229 -2.732 -0.425 3.113 6.487 -2.627 30.446 4 AA_DA4BRU5:DA12BRU13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A BRU 5 1_555 B DA 4 1_555 A DA 6 1_555 B BRU 3 1_555 -0.506 -1.295 3.270 0.147 11.528 31.067 -4.089 0.912 2.633 20.653 -0.263 33.088 5 AA_BRU5DA6:BRU11DA12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A DA 6 1_555 B BRU 3 1_555 A DC 7 1_555 B DG 2 1_555 0.641 -1.403 3.333 0.484 4.697 33.548 -3.158 -1.023 3.123 8.088 -0.834 33.869 6 AA_DA6DC7:DG10BRU11_BB A 6 ? B 11 ? 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 -0.299 -1.887 3.398 -0.443 9.706 30.311 -5.138 0.468 2.685 17.990 0.822 31.796 7 AA_DC7DC8:DG9DG10_BB A 7 ? B 10 ? A 8 ? B 9 ? # _atom_sites.entry_id 115D _atom_sites.fract_transf_matrix[1][1] 0.022181 _atom_sites.fract_transf_matrix[1][2] 0.012806 _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] 0.025612 _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] 0.023969 _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 BR C N O P # loop_