data_1VT8 # _entry.id 1VT8 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 1VT8 pdb_00001vt8 10.2210/pdb1vt8/pdb NDB ADH029 ? ? RCSB RCSB003032 ? ? WWPDB D_1000003032 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2011-07-13 2 'Structure model' 1 1 2023-12-27 # _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' 'Data collection' 2 2 '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 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 '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 2 'Structure model' '_database_2.pdbx_DOI' 2 2 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1VT8 _pdbx_database_status.recvd_initial_deposition_date 1996-12-02 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Shakked, Z.' 1 'Guerstein-Guzikevich, G.' 2 'Eisenstein, M.' 3 'Frolow, F.' 4 'Rabinovich, D.' 5 # _citation.id primary _citation.title 'The conformation of the DNA double helix in the crystal is dependent on its environment.' _citation.journal_abbrev Nature _citation.journal_volume 342 _citation.page_first 456 _citation.page_last 460 _citation.year 1989 _citation.journal_id_ASTM NATUAS _citation.country UK _citation.journal_id_ISSN 0028-0836 _citation.journal_id_CSD 0006 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 2586615 _citation.pdbx_database_id_DOI 10.1038/342456a0 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Shakked, Z.' 1 ? primary 'Guerstein-Guzikevich, G.' 2 ? primary 'Eisenstein, M.' 3 ? primary 'Frolow, F.' 4 ? primary 'Rabinovich, D.' 5 ? # 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*GP*CP*GP*CP*CP*C)-3') ; 2428.593 2 ? ? ? ? 2 water nat water 18.015 97 ? ? ? ? # _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)(DG)(DC)(DG)(DC)(DC)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GGGCGCCC _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 DG n 1 4 DC n 1 5 DG n 1 6 DC 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 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 DG A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DC 4 4 4 DC DC A . n A 1 5 DG 5 5 5 DG DG A . n A 1 6 DC 6 6 6 DC DC A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DC 8 8 8 DC DC A . n B 1 1 DG 1 9 9 DG DG B . n B 1 2 DG 2 10 10 DG DG B . n B 1 3 DG 3 11 11 DG DG B . n B 1 4 DC 4 12 12 DC DC B . n B 1 5 DG 5 13 13 DG DG B . n B 1 6 DC 6 14 14 DC DC B . n B 1 7 DC 7 15 15 DC DC B . n B 1 8 DC 8 16 16 DC DC 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 21 21 HOH HOH A . C 2 HOH 4 26 26 HOH HOH A . C 2 HOH 5 28 28 HOH HOH A . C 2 HOH 6 31 31 HOH HOH A . C 2 HOH 7 33 33 HOH HOH A . C 2 HOH 8 39 39 HOH HOH A . C 2 HOH 9 42 42 HOH HOH A . C 2 HOH 10 43 43 HOH HOH A . C 2 HOH 11 45 45 HOH HOH A . C 2 HOH 12 48 48 HOH HOH A . C 2 HOH 13 54 54 HOH HOH A . C 2 HOH 14 56 56 HOH HOH A . C 2 HOH 15 57 57 HOH HOH A . C 2 HOH 16 58 58 HOH HOH A . C 2 HOH 17 59 59 HOH HOH A . C 2 HOH 18 62 62 HOH HOH A . C 2 HOH 19 64 64 HOH HOH A . C 2 HOH 20 67 67 HOH HOH A . C 2 HOH 21 69 69 HOH HOH A . C 2 HOH 22 72 72 HOH HOH A . C 2 HOH 23 73 73 HOH HOH A . C 2 HOH 24 74 74 HOH HOH A . C 2 HOH 25 80 80 HOH HOH A . C 2 HOH 26 81 81 HOH HOH A . C 2 HOH 27 83 83 HOH HOH A . C 2 HOH 28 85 85 HOH HOH A . C 2 HOH 29 87 87 HOH HOH A . C 2 HOH 30 89 89 HOH HOH A . C 2 HOH 31 93 93 HOH HOH A . C 2 HOH 32 97 97 HOH HOH A . C 2 HOH 33 100 100 HOH HOH A . C 2 HOH 34 103 103 HOH HOH A . C 2 HOH 35 106 106 HOH HOH A . C 2 HOH 36 107 107 HOH HOH A . C 2 HOH 37 108 108 HOH HOH A . C 2 HOH 38 111 111 HOH HOH A . C 2 HOH 39 113 113 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 22 22 HOH HOH B . D 2 HOH 4 23 23 HOH HOH B . D 2 HOH 5 24 24 HOH HOH B . D 2 HOH 6 25 25 HOH HOH B . D 2 HOH 7 27 27 HOH HOH B . D 2 HOH 8 29 29 HOH HOH B . D 2 HOH 9 30 30 HOH HOH B . D 2 HOH 10 32 32 HOH HOH B . D 2 HOH 11 34 34 HOH HOH B . D 2 HOH 12 35 35 HOH HOH B . D 2 HOH 13 36 36 HOH HOH B . D 2 HOH 14 37 37 HOH HOH B . D 2 HOH 15 38 38 HOH HOH B . D 2 HOH 16 40 40 HOH HOH B . D 2 HOH 17 41 41 HOH HOH B . D 2 HOH 18 44 44 HOH HOH B . D 2 HOH 19 46 46 HOH HOH B . D 2 HOH 20 47 47 HOH HOH B . D 2 HOH 21 49 49 HOH HOH B . D 2 HOH 22 50 50 HOH HOH B . D 2 HOH 23 51 51 HOH HOH B . D 2 HOH 24 52 52 HOH HOH B . D 2 HOH 25 53 53 HOH HOH B . D 2 HOH 26 55 55 HOH HOH B . D 2 HOH 27 60 60 HOH HOH B . D 2 HOH 28 61 61 HOH HOH B . D 2 HOH 29 63 63 HOH HOH B . D 2 HOH 30 65 65 HOH HOH B . D 2 HOH 31 66 66 HOH HOH B . D 2 HOH 32 68 68 HOH HOH B . D 2 HOH 33 70 70 HOH HOH B . D 2 HOH 34 71 71 HOH HOH B . D 2 HOH 35 75 75 HOH HOH B . D 2 HOH 36 76 76 HOH HOH B . D 2 HOH 37 77 77 HOH HOH B . D 2 HOH 38 78 78 HOH HOH B . D 2 HOH 39 79 79 HOH HOH B . D 2 HOH 40 82 82 HOH HOH B . D 2 HOH 41 84 84 HOH HOH B . D 2 HOH 42 86 86 HOH HOH B . D 2 HOH 43 88 88 HOH HOH B . D 2 HOH 44 90 90 HOH HOH B . D 2 HOH 45 91 91 HOH HOH B . D 2 HOH 46 92 92 HOH HOH B . D 2 HOH 47 94 94 HOH HOH B . D 2 HOH 48 95 95 HOH HOH B . D 2 HOH 49 96 96 HOH HOH B . D 2 HOH 50 98 98 HOH HOH B . D 2 HOH 51 99 99 HOH HOH B . D 2 HOH 52 101 101 HOH HOH B . D 2 HOH 53 102 102 HOH HOH B . D 2 HOH 54 104 104 HOH HOH B . D 2 HOH 55 105 105 HOH HOH B . D 2 HOH 56 109 109 HOH HOH B . D 2 HOH 57 110 110 HOH HOH B . D 2 HOH 58 112 112 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1VT8 _cell.length_a 43.620 _cell.length_b 43.620 _cell.length_c 41.490 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 1VT8 _symmetry.space_group_name_H-M 'P 61' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1VT8 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 47.57 _exptl_crystal.density_Matthews 2.35 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 292 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details 'MPD, Sodium Cacodylate, spermine, MgCl2, temperature 292K' _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 3 1 2 1 MPD 4 5 6 1 3 1 MGCL2 7 8 9 1 4 1 SPERMINE_HCL 10 11 12 1 5 1 'NA CACODYLATE' 13 14 15 1 6 2 WATER 16 17 18 1 7 2 MPD 19 20 21 # _diffrn.id 1 _diffrn.ambient_temp 100.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'RIGAKU AFC-5' _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 M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _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 'ROTATING ANODE' _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 1VT8 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 1.900 _reflns.number_obs 2827 _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.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _refine.entry_id 1VT8 _refine.ls_number_reflns_obs 2827 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.900 _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 1.900 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1600000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1600000 _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_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_phase_error ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 322 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 97 _refine_hist.number_atoms_total 419 _refine_hist.d_res_high 1.900 _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 1VT8 _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 1VT8 _struct.title 'Crystal structure of D(GGGCGCCC)-hexagonal form' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1VT8 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'A-DNA, DOUBLE HELIX, 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.db_name PDB _struct_ref.db_code 1VT8 _struct_ref.pdbx_db_accession 1VT8 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_seq_one_letter_code GGGCGCCC _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1VT8 A 1 ? 8 ? 1VT8 1 ? 8 ? 1 8 2 1 1VT8 B 1 ? 8 ? 1VT8 9 ? 16 ? 9 16 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 780 ? 1 MORE -6 ? 1 'SSA (A^2)' 3060 ? # _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 _struct_biol.details ? # 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 3 N1 ? ? ? 1_555 B DC 6 N3 ? ? A DG 3 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 6 O2 ? ? A DG 3 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 6 N4 ? ? A DG 3 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 4 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 4 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 4 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 5 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 5 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 5 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 6 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 6 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 6 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 7 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 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 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O B HOH 27 ? ? O B HOH 29 ? ? 2.11 2 1 O B HOH 24 ? ? O B HOH 29 ? ? 2.13 # 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 DG 1 ? ? P A DG 2 ? ? 1.521 1.607 -0.086 0.012 Y 2 1 "O3'" A DG 5 ? ? P A DC 6 ? ? 1.533 1.607 -0.074 0.012 Y # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DG 1 ? ? "C4'" A DG 1 ? ? "C3'" A DG 1 ? ? 100.99 104.50 -3.51 0.40 N 2 1 "C5'" A DG 1 ? ? "C4'" A DG 1 ? ? "O4'" A DG 1 ? ? 117.36 109.80 7.56 1.10 N 3 1 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 114.40 108.30 6.10 0.30 N 4 1 C2 A DG 1 ? ? N3 A DG 1 ? ? C4 A DG 1 ? ? 114.99 111.90 3.09 0.50 N 5 1 N3 A DG 1 ? ? C4 A DG 1 ? ? C5 A DG 1 ? ? 125.57 128.60 -3.03 0.50 N 6 1 N1 A DG 1 ? ? C2 A DG 1 ? ? N2 A DG 1 ? ? 127.24 116.20 11.04 0.90 N 7 1 N3 A DG 1 ? ? C2 A DG 1 ? ? N2 A DG 1 ? ? 111.28 119.90 -8.62 0.70 N 8 1 C5 A DG 1 ? ? C6 A DG 1 ? ? O6 A DG 1 ? ? 123.74 128.60 -4.86 0.60 N 9 1 "C3'" A DG 1 ? ? "O3'" A DG 1 ? ? P A DG 2 ? ? 130.77 119.70 11.07 1.20 Y 10 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.79 108.30 2.49 0.30 N 11 1 N3 A DG 2 ? ? C4 A DG 2 ? ? C5 A DG 2 ? ? 125.31 128.60 -3.29 0.50 N 12 1 N3 A DG 2 ? ? C4 A DG 2 ? ? N9 A DG 2 ? ? 129.64 126.00 3.64 0.60 N 13 1 N1 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 122.48 116.20 6.28 0.90 N 14 1 N3 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 112.41 119.90 -7.49 0.70 N 15 1 C5 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 124.47 128.60 -4.13 0.60 N 16 1 "O5'" A DG 3 ? ? P A DG 3 ? ? OP2 A DG 3 ? ? 120.85 110.70 10.15 1.20 N 17 1 N1 A DG 3 ? ? C2 A DG 3 ? ? N2 A DG 3 ? ? 121.94 116.20 5.74 0.90 N 18 1 N3 A DG 3 ? ? C2 A DG 3 ? ? N2 A DG 3 ? ? 115.07 119.90 -4.83 0.70 N 19 1 C5 A DG 3 ? ? C6 A DG 3 ? ? O6 A DG 3 ? ? 124.70 128.60 -3.90 0.60 N 20 1 "C3'" A DG 3 ? ? "O3'" A DG 3 ? ? P A DC 4 ? ? 111.91 119.70 -7.79 1.20 Y 21 1 "O5'" A DC 4 ? ? "C5'" A DC 4 ? ? "C4'" A DC 4 ? ? 104.46 109.40 -4.94 0.80 N 22 1 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 112.01 108.30 3.71 0.30 N 23 1 C5 A DC 4 ? ? C6 A DC 4 ? ? N1 A DC 4 ? ? 117.73 121.00 -3.27 0.50 N 24 1 N3 A DC 4 ? ? C2 A DC 4 ? ? O2 A DC 4 ? ? 126.26 121.90 4.36 0.70 N 25 1 N3 A DC 4 ? ? C4 A DC 4 ? ? N4 A DC 4 ? ? 125.64 118.00 7.64 0.70 N 26 1 C5 A DC 4 ? ? C4 A DC 4 ? ? N4 A DC 4 ? ? 113.28 120.20 -6.92 0.70 N 27 1 "O5'" A DG 5 ? ? "C5'" A DG 5 ? ? "C4'" A DG 5 ? ? 102.26 109.40 -7.14 0.80 N 28 1 "O4'" A DG 5 ? ? "C1'" A DG 5 ? ? N9 A DG 5 ? ? 115.54 108.30 7.24 0.30 N 29 1 N3 A DG 5 ? ? C2 A DG 5 ? ? N2 A DG 5 ? ? 114.77 119.90 -5.13 0.70 N 30 1 N1 A DG 5 ? ? C6 A DG 5 ? ? O6 A DG 5 ? ? 129.31 119.90 9.41 0.60 N 31 1 C5 A DG 5 ? ? C6 A DG 5 ? ? O6 A DG 5 ? ? 118.44 128.60 -10.16 0.60 N 32 1 "O3'" A DG 5 ? ? P A DC 6 ? ? "O5'" A DC 6 ? ? 117.41 104.00 13.41 1.90 Y 33 1 "O3'" A DG 5 ? ? P A DC 6 ? ? OP2 A DC 6 ? ? 122.98 110.50 12.48 1.10 Y 34 1 OP1 A DC 6 ? ? P A DC 6 ? ? OP2 A DC 6 ? ? 97.87 119.60 -21.73 1.50 N 35 1 "O5'" A DC 6 ? ? "C5'" A DC 6 ? ? "C4'" A DC 6 ? ? 103.56 109.40 -5.84 0.80 N 36 1 "O4'" A DC 6 ? ? "C4'" A DC 6 ? ? "C3'" A DC 6 ? ? 99.79 104.50 -4.71 0.40 N 37 1 "O4'" A DC 6 ? ? "C1'" A DC 6 ? ? N1 A DC 6 ? ? 110.47 108.30 2.17 0.30 N 38 1 C4 A DC 6 ? ? C5 A DC 6 ? ? C6 A DC 6 ? ? 121.16 117.40 3.76 0.50 N 39 1 C5 A DC 6 ? ? C6 A DC 6 ? ? N1 A DC 6 ? ? 117.39 121.00 -3.61 0.50 N 40 1 N1 A DC 6 ? ? C2 A DC 6 ? ? O2 A DC 6 ? ? 115.07 118.90 -3.83 0.60 N 41 1 N3 A DC 6 ? ? C4 A DC 6 ? ? N4 A DC 6 ? ? 125.55 118.00 7.55 0.70 N 42 1 C5 A DC 6 ? ? C4 A DC 6 ? ? N4 A DC 6 ? ? 114.03 120.20 -6.17 0.70 N 43 1 "O4'" A DC 7 ? ? "C4'" A DC 7 ? ? "C3'" A DC 7 ? ? 101.57 104.50 -2.93 0.40 N 44 1 N1 A DC 7 ? ? C2 A DC 7 ? ? O2 A DC 7 ? ? 114.61 118.90 -4.29 0.60 N 45 1 N3 A DC 7 ? ? C4 A DC 7 ? ? N4 A DC 7 ? ? 125.42 118.00 7.42 0.70 N 46 1 C5 A DC 7 ? ? C4 A DC 7 ? ? N4 A DC 7 ? ? 112.54 120.20 -7.66 0.70 N 47 1 "O5'" A DC 8 ? ? P A DC 8 ? ? OP2 A DC 8 ? ? 123.24 110.70 12.54 1.20 N 48 1 N1 A DC 8 ? ? C2 A DC 8 ? ? O2 A DC 8 ? ? 113.31 118.90 -5.59 0.60 N 49 1 N3 A DC 8 ? ? C2 A DC 8 ? ? O2 A DC 8 ? ? 128.44 121.90 6.54 0.70 N 50 1 N3 A DC 8 ? ? C4 A DC 8 ? ? N4 A DC 8 ? ? 123.69 118.00 5.69 0.70 N 51 1 C5 A DC 8 ? ? C4 A DC 8 ? ? N4 A DC 8 ? ? 114.02 120.20 -6.18 0.70 N 52 1 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 113.17 108.30 4.87 0.30 N 53 1 N3 B DG 9 ? ? C2 B DG 9 ? ? N2 B DG 9 ? ? 115.35 119.90 -4.55 0.70 N 54 1 N1 B DG 9 ? ? C6 B DG 9 ? ? O6 B DG 9 ? ? 124.58 119.90 4.68 0.60 N 55 1 C5 B DG 9 ? ? C6 B DG 9 ? ? O6 B DG 9 ? ? 124.05 128.60 -4.55 0.60 N 56 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 113.15 108.30 4.85 0.30 N 57 1 N1 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 123.76 116.20 7.56 0.90 N 58 1 N3 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 111.11 119.90 -8.79 0.70 N 59 1 P B DC 12 ? ? "O5'" B DC 12 ? ? "C5'" B DC 12 ? ? 139.19 120.90 18.29 1.60 N 60 1 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? N1 B DC 12 ? ? 112.99 108.30 4.69 0.30 N 61 1 N1 B DC 12 ? ? C2 B DC 12 ? ? O2 B DC 12 ? ? 110.63 118.90 -8.27 0.60 N 62 1 N3 B DC 12 ? ? C2 B DC 12 ? ? O2 B DC 12 ? ? 128.56 121.90 6.66 0.70 N 63 1 N3 B DC 12 ? ? C4 B DC 12 ? ? N4 B DC 12 ? ? 122.79 118.00 4.79 0.70 N 64 1 C5 B DC 12 ? ? C4 B DC 12 ? ? N4 B DC 12 ? ? 114.22 120.20 -5.98 0.70 N 65 1 "O5'" B DG 13 ? ? P B DG 13 ? ? OP2 B DG 13 ? ? 121.27 110.70 10.57 1.20 N 66 1 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 111.46 108.30 3.16 0.30 N 67 1 N1 B DG 13 ? ? C2 B DG 13 ? ? N2 B DG 13 ? ? 124.84 116.20 8.64 0.90 N 68 1 N3 B DG 13 ? ? C2 B DG 13 ? ? N2 B DG 13 ? ? 107.95 119.90 -11.95 0.70 N 69 1 N1 B DG 13 ? ? C6 B DG 13 ? ? O6 B DG 13 ? ? 125.05 119.90 5.15 0.60 N 70 1 C5 B DG 13 ? ? C6 B DG 13 ? ? O6 B DG 13 ? ? 123.31 128.60 -5.29 0.60 N 71 1 "O5'" B DC 14 ? ? P B DC 14 ? ? OP1 B DC 14 ? ? 98.66 105.70 -7.04 0.90 N 72 1 N1 B DC 14 ? ? C2 B DC 14 ? ? O2 B DC 14 ? ? 114.44 118.90 -4.46 0.60 N 73 1 N3 B DC 14 ? ? C2 B DC 14 ? ? O2 B DC 14 ? ? 126.36 121.90 4.46 0.70 N 74 1 N3 B DC 14 ? ? C4 B DC 14 ? ? N4 B DC 14 ? ? 125.16 118.00 7.16 0.70 N 75 1 C5 B DC 14 ? ? C4 B DC 14 ? ? N4 B DC 14 ? ? 112.48 120.20 -7.72 0.70 N 76 1 "O3'" B DC 14 ? ? P B DC 15 ? ? OP2 B DC 15 ? ? 118.85 110.50 8.35 1.10 Y 77 1 "O3'" B DC 14 ? ? P B DC 15 ? ? OP1 B DC 15 ? ? 91.05 105.20 -14.15 2.20 Y 78 1 P B DC 15 ? ? "O5'" B DC 15 ? ? "C5'" B DC 15 ? ? 132.54 120.90 11.64 1.60 N 79 1 "O4'" B DC 15 ? ? "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? 101.68 104.50 -2.82 0.40 N 80 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 111.07 108.30 2.77 0.30 N 81 1 C5 B DC 15 ? ? C6 B DC 15 ? ? N1 B DC 15 ? ? 117.79 121.00 -3.21 0.50 N 82 1 N3 B DC 15 ? ? C4 B DC 15 ? ? N4 B DC 15 ? ? 129.70 118.00 11.70 0.70 N 83 1 C5 B DC 15 ? ? C4 B DC 15 ? ? N4 B DC 15 ? ? 109.07 120.20 -11.13 0.70 N 84 1 "C3'" B DC 15 ? ? "O3'" B DC 15 ? ? P B DC 16 ? ? 128.60 119.70 8.90 1.20 Y 85 1 "O5'" B DC 16 ? ? "C5'" B DC 16 ? ? "C4'" B DC 16 ? ? 103.86 109.40 -5.54 0.80 N 86 1 "O4'" B DC 16 ? ? "C4'" B DC 16 ? ? "C3'" B DC 16 ? ? 100.69 104.50 -3.81 0.40 N 87 1 "O4'" B DC 16 ? ? "C1'" B DC 16 ? ? N1 B DC 16 ? ? 110.40 108.30 2.10 0.30 N 88 1 C4 B DC 16 ? ? C5 B DC 16 ? ? C6 B DC 16 ? ? 120.48 117.40 3.08 0.50 N 89 1 N1 B DC 16 ? ? C2 B DC 16 ? ? O2 B DC 16 ? ? 114.11 118.90 -4.79 0.60 N 90 1 N3 B DC 16 ? ? C4 B DC 16 ? ? N4 B DC 16 ? ? 130.33 118.00 12.33 0.70 N 91 1 C5 B DC 16 ? ? C4 B DC 16 ? ? N4 B DC 16 ? ? 109.18 120.20 -11.02 0.70 N # 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 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 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 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 HOH O H1 sing N N 75 HOH O H2 sing N N 76 # _ndb_struct_conf_na.entry_id 1VT8 _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 -0.122 -0.519 -0.047 -4.523 -0.476 -4.405 1 A_DG1:DC16_B A 1 ? B 16 ? 19 1 1 A DG 2 1_555 B DC 7 1_555 -0.184 -0.441 -0.176 -4.366 -12.796 0.617 2 A_DG2:DC15_B A 2 ? B 15 ? 19 1 1 A DG 3 1_555 B DC 6 1_555 -0.084 -0.452 -0.368 -13.972 -12.880 1.464 3 A_DG3:DC14_B A 3 ? B 14 ? 19 1 1 A DC 4 1_555 B DG 5 1_555 0.039 -0.434 0.052 -6.297 -10.803 0.467 4 A_DC4:DG13_B A 4 ? B 13 ? 19 1 1 A DG 5 1_555 B DC 4 1_555 0.095 -0.447 0.599 5.897 -6.960 0.041 5 A_DG5:DC12_B A 5 ? B 12 ? 19 1 1 A DC 6 1_555 B DG 3 1_555 0.137 -0.485 0.036 7.260 -13.788 -1.525 6 A_DC6:DG11_B A 6 ? B 11 ? 19 1 1 A DC 7 1_555 B DG 2 1_555 0.082 -0.486 0.332 2.012 -12.126 -1.163 7 A_DC7:DG10_B A 7 ? B 10 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.116 -0.491 -0.433 9.762 -3.897 -1.765 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 0.116 -1.623 3.340 0.726 8.698 29.792 -4.632 -0.083 2.769 16.477 -1.375 31.016 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 DG 3 1_555 B DC 6 1_555 -0.467 -1.653 3.574 0.708 8.654 32.082 -4.382 0.938 3.028 15.311 -1.254 33.206 2 AA_DG2DG3:DC14DC15_BB A 2 ? B 15 ? A 3 ? B 14 ? 1 A DG 3 1_555 B DC 6 1_555 A DC 4 1_555 B DG 5 1_555 0.373 -0.837 3.117 -1.703 5.435 32.490 -2.335 -0.926 2.920 9.621 3.015 32.972 3 AA_DG3DC4:DG13DC14_BB A 3 ? B 14 ? A 4 ? B 13 ? 1 A DC 4 1_555 B DG 5 1_555 A DG 5 1_555 B DC 4 1_555 0.314 -1.039 2.913 -2.644 9.968 27.028 -3.926 -1.119 2.348 20.408 5.414 28.894 4 AA_DC4DG5:DC12DG13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A DG 5 1_555 B DC 4 1_555 A DC 6 1_555 B DG 3 1_555 -0.419 -0.950 3.263 4.326 5.872 31.954 -2.661 1.461 2.965 10.496 -7.733 32.755 5 AA_DG5DC6:DG11DC12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A DC 6 1_555 B DG 3 1_555 A DC 7 1_555 B DG 2 1_555 0.390 -1.457 3.387 -2.776 5.193 35.673 -3.081 -1.021 3.113 8.406 4.494 36.140 6 AA_DC6DC7:DG10DG11_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 -0.092 -1.665 3.134 3.997 3.701 30.614 -3.765 0.881 2.883 6.940 -7.496 31.083 7 AA_DC7DC8:DG9DG10_BB A 7 ? B 10 ? A 8 ? B 9 ? # _atom_sites.entry_id 1VT8 _atom_sites.fract_transf_matrix[1][1] 0.022925 _atom_sites.fract_transf_matrix[1][2] 0.013236 _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] 0.026472 _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] 0.024102 _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_