data_1VTE # _entry.id 1VTE # _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 1VTE pdb_00001vte 10.2210/pdb1vte/pdb NDB BDL021 ? ? RCSB RCSB003038 ? ? WWPDB D_1000003038 ? ? # 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 2018-10-10 3 'Structure model' 1 2 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' 3 2 'Structure model' 'Source and taxonomy' 4 3 'Structure model' 'Data collection' 5 3 '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' citation 2 2 'Structure model' citation_author 3 2 'Structure model' pdbx_entity_src_syn 4 3 'Structure model' chem_comp_atom 5 3 'Structure model' chem_comp_bond 6 3 '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' '_citation.journal_abbrev' 2 2 'Structure model' '_citation.page_last' 3 2 'Structure model' '_citation.pdbx_database_id_PubMed' 4 2 'Structure model' '_citation.title' 5 2 'Structure model' '_citation_author.name' 6 3 'Structure model' '_database_2.pdbx_DOI' 7 3 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1VTE _pdbx_database_status.recvd_initial_deposition_date 1990-05-21 _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1NDN _pdbx_database_related.details '1NDN contains models A4 and T4.' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Aymani, J.' 1 'Coll, M.' 2 'Van Der Marel, G.A.' 3 'Van Boom, J.H.' 4 'Wang, A.H.-J.' 5 'Rich, A.' 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 'Molecular structure of nicked DNA: a substrate for DNA repair enzymes.' 'Proc. Natl. Acad. Sci. U.S.A.' 87 2526 2530 1990 PNASA6 US 0027-8424 0040 ? 2320572 ? 1 'Molecular structure of the netropsin-d(CGCGATATCGCG) complex: DNA conformation in an alternating AT segment.' Biochemistry 28 310 320 1989 BICHAW US 0006-2960 0033 ? 2539859 ? 2 ;A bifurcated hydrogen-bonded conformation in the d(A.T) base pairs of the DNA dodecamer d(CGCAAATTTGCG) and its complex with distamycin. ; 'Proc. Natl. Acad. Sci. U.S.A.' 84 8385 8389 1987 PNASA6 US 0027-8424 0040 ? 3479798 ? 3 'Crystal structure analysis of a complete turn of B-DNA.' Nature 287 755 758 1980 NATUAS UK 0028-0836 0006 ? 7432492 ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Aymami, J.' 1 ? primary 'Coll, M.' 2 ? primary 'van der Marel, G.A.' 3 ? primary 'van Boom, J.H.' 4 ? primary 'Wang, A.H.' 5 ? primary 'Rich, A.' 6 ? 1 'Coll, M.' 7 ? 1 'Aymami, J.' 8 ? 1 'van der Marel, G.A.' 9 ? 1 'van Boom, J.H.' 10 ? 1 'Rich, A.' 11 ? 1 'Wang, A.H.' 12 ? 2 'Coll, M.' 13 ? 2 'Frederick, C.A.' 14 ? 2 'Wang, A.H.' 15 ? 2 'Rich, A.' 16 ? 3 'Wing, R.' 17 ? 3 'Drew, H.' 18 ? 3 'Takano, T.' 19 ? 3 'Broka, C.' 20 ? 3 'Tanaka, S.' 21 ? 3 'Itakura, K.' 22 ? 3 'Dickerson, R.E.' 23 ? # 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(*CP*GP*CP*GP*AP*AP*AP*AP*CP*GP*CP*G)-3') ; 3681.420 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*CP*GP*CP*GP*TP*T)-3') ; 1800.203 1 ? ? ? ? 3 polymer syn ;DNA (5'-D(*TP*TP*CP*GP*CP*G)-3') ; 1800.203 1 ? ? ? ? 4 water nat water 18.015 72 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DC)(DG)(DC)(DG)(DA)(DA)(DA)(DA)(DC)(DG)(DC)(DG)' CGCGAAAACGCG A ? 2 polydeoxyribonucleotide no no '(DC)(DG)(DC)(DG)(DT)(DT)' CGCGTT B ? 3 polydeoxyribonucleotide no no '(DT)(DT)(DC)(DG)(DC)(DG)' TTCGCG C ? # _pdbx_entity_nonpoly.entity_id 4 _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 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DA n 1 8 DA n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n 2 1 DC n 2 2 DG n 2 3 DC n 2 4 DG n 2 5 DT n 2 6 DT n 3 1 DT n 3 2 DT n 3 3 DC n 3 4 DG n 3 5 DC n 3 6 DG n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? 'synthetic construct' ? 32630 ? 2 1 sample ? ? 'synthetic construct' ? 32630 ? 3 1 sample ? ? 'synthetic construct' ? 32630 ? # 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 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 DA 8 8 8 DA A A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DC 11 11 11 DC C A . n A 1 12 DG 12 12 12 DG G A . n B 2 1 DC 1 13 13 DC C B . n B 2 2 DG 2 14 14 DG G B . n B 2 3 DC 3 15 15 DC C B . n B 2 4 DG 4 16 16 DG G B . n B 2 5 DT 5 17 17 DT T B . n B 2 6 DT 6 18 18 DT T B . n C 3 1 DT 1 19 19 DT T C . n C 3 2 DT 2 20 20 DT T C . n C 3 3 DC 3 21 21 DC C C . n C 3 4 DG 4 22 22 DG G C . n C 3 5 DC 5 23 23 DC C C . n C 3 6 DG 6 24 24 DG G C . 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 D 4 HOH 1 26 26 HOH HOH A . D 4 HOH 2 28 28 HOH HOH A . D 4 HOH 3 29 29 HOH HOH A . D 4 HOH 4 32 32 HOH HOH A . D 4 HOH 5 34 34 HOH HOH A . D 4 HOH 6 35 35 HOH HOH A . D 4 HOH 7 36 36 HOH HOH A . D 4 HOH 8 37 37 HOH HOH A . D 4 HOH 9 39 39 HOH HOH A . D 4 HOH 10 40 40 HOH HOH A . D 4 HOH 11 43 43 HOH HOH A . D 4 HOH 12 46 46 HOH HOH A . D 4 HOH 13 47 47 HOH HOH A . D 4 HOH 14 48 48 HOH HOH A . D 4 HOH 15 49 49 HOH HOH A . D 4 HOH 16 51 51 HOH HOH A . D 4 HOH 17 52 52 HOH HOH A . D 4 HOH 18 53 53 HOH HOH A . D 4 HOH 19 54 54 HOH HOH A . D 4 HOH 20 56 56 HOH HOH A . D 4 HOH 21 57 57 HOH HOH A . D 4 HOH 22 66 66 HOH HOH A . D 4 HOH 23 68 68 HOH HOH A . D 4 HOH 24 72 72 HOH HOH A . D 4 HOH 25 73 73 HOH HOH A . D 4 HOH 26 74 74 HOH HOH A . D 4 HOH 27 78 78 HOH HOH A . D 4 HOH 28 79 79 HOH HOH A . D 4 HOH 29 80 80 HOH HOH A . D 4 HOH 30 82 82 HOH HOH A . D 4 HOH 31 83 83 HOH HOH A . D 4 HOH 32 84 84 HOH HOH A . D 4 HOH 33 86 86 HOH HOH A . D 4 HOH 34 87 87 HOH HOH A . D 4 HOH 35 88 88 HOH HOH A . D 4 HOH 36 89 89 HOH HOH A . D 4 HOH 37 92 92 HOH HOH A . D 4 HOH 38 94 94 HOH HOH A . D 4 HOH 39 95 95 HOH HOH A . E 4 HOH 1 27 27 HOH HOH B . E 4 HOH 2 30 30 HOH HOH B . E 4 HOH 3 33 33 HOH HOH B . E 4 HOH 4 38 38 HOH HOH B . E 4 HOH 5 41 41 HOH HOH B . E 4 HOH 6 44 44 HOH HOH B . E 4 HOH 7 45 45 HOH HOH B . E 4 HOH 8 50 50 HOH HOH B . E 4 HOH 9 55 55 HOH HOH B . E 4 HOH 10 58 58 HOH HOH B . E 4 HOH 11 60 60 HOH HOH B . E 4 HOH 12 61 61 HOH HOH B . E 4 HOH 13 62 62 HOH HOH B . E 4 HOH 14 64 64 HOH HOH B . E 4 HOH 15 65 65 HOH HOH B . E 4 HOH 16 67 67 HOH HOH B . E 4 HOH 17 70 70 HOH HOH B . E 4 HOH 18 71 71 HOH HOH B . E 4 HOH 19 76 76 HOH HOH B . E 4 HOH 20 77 77 HOH HOH B . E 4 HOH 21 81 81 HOH HOH B . E 4 HOH 22 85 85 HOH HOH B . E 4 HOH 23 96 96 HOH HOH B . F 4 HOH 1 25 25 HOH HOH C . F 4 HOH 2 31 31 HOH HOH C . F 4 HOH 3 42 42 HOH HOH C . F 4 HOH 4 59 59 HOH HOH C . F 4 HOH 5 63 63 HOH HOH C . F 4 HOH 6 69 69 HOH HOH C . F 4 HOH 7 75 75 HOH HOH C . F 4 HOH 8 90 90 HOH HOH C . F 4 HOH 9 91 91 HOH HOH C . F 4 HOH 10 93 93 HOH HOH C . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal ULTIMA 'model building' . ? 1 NUCLSQ refinement . ? 2 ULTIMA phasing . ? 3 # _cell.entry_id 1VTE _cell.length_a 25.990 _cell.length_b 44.030 _cell.length_c 66.620 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 1VTE _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 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1VTE _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 53.01 _exptl_crystal.density_Matthews 2.62 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 277.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.00 _exptl_crystal_grow.pdbx_details 'pH 5.00, VAPOR DIFFUSION, temperature 277.00K' _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 3 1 2 1 MPD 4 5 6 1 3 1 MGCL2 7 8 9 1 4 1 'NA CACODYLATE' 10 11 12 1 5 1 SPERMINE_HCL 13 14 15 1 6 2 WATER 16 17 18 1 7 2 MPD 19 20 21 # _diffrn.id 1 _diffrn.ambient_temp 298.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'RIGAKU AFC-5R' _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 1VTE _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 3.000 _reflns.number_obs 553 _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.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _refine.entry_id 1VTE _refine.ls_number_reflns_obs 553 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high 3.000 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1820000 _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 'MOLECULAR REPLACEMENT' _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.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _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_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 483 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 72 _refine_hist.number_atoms_total 555 _refine_hist.d_res_high 3.000 _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 1VTE _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 1VTE _struct.title 'MOLECULAR STRUCTURE OF NICKED DNA. MODEL A4' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1VTE _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA, DOUBLE HELIX, NICKED, 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 2 ? C N N 3 ? D N N 4 ? E N N 4 ? F N N 4 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 1VTE 1VTE 1 ? ? ? 2 PDB 1VTE 1VTE 2 ? ? ? 3 PDB 1VTE 1VTE 3 ? ? ? # 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 1VTE A 1 ? 12 ? 1VTE 1 ? 12 ? 1 12 2 2 1VTE B 1 ? 6 ? 1VTE 13 ? 18 ? 13 18 3 3 1VTE C 1 ? 6 ? 1VTE 19 ? 24 ? 19 24 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # 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)' 1410 ? 1 MORE -5 ? 1 'SSA (A^2)' 4340 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # _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 # 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 DC 1 N3 ? ? ? 1_555 C DG 6 N1 ? ? A DC 1 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 C DG 6 O6 ? ? A DC 1 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 C DG 6 N2 ? ? A DC 1 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 C DC 5 N3 ? ? A DG 2 C DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 C DC 5 O2 ? ? A DG 2 C DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 C DC 5 N4 ? ? A DG 2 C DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 C DG 4 N1 ? ? A DC 3 C DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 C DG 4 O6 ? ? A DC 3 C DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 C DG 4 N2 ? ? A DC 3 C DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 C DC 3 N3 ? ? A DG 4 C DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 C DC 3 O2 ? ? A DG 4 C DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 C DC 3 N4 ? ? A DG 4 C DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 C DT 2 N3 ? ? A DA 5 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 C DT 2 O4 ? ? A DA 5 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 C DT 1 N3 ? ? A DA 6 C DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 C DT 1 O4 ? ? A DA 6 C DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 7 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 7 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 5 N3 ? ? A DA 8 B DT 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 5 O4 ? ? A DA 8 B DT 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 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 A HOH 57 ? ? O A HOH 95 ? ? 0.26 2 1 "O3'" A DC 11 ? ? O A HOH 92 ? ? 0.88 3 1 OP1 A DC 11 ? ? O A HOH 94 ? ? 1.51 4 1 P A DG 12 ? ? O A HOH 92 ? ? 1.55 5 1 OP1 A DG 12 ? ? O A HOH 92 ? ? 1.88 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 O A HOH 29 ? ? 1_555 O C HOH 93 ? ? 2_664 0.73 2 1 O B HOH 60 ? ? 1_555 O C HOH 25 ? ? 2_564 2.09 # 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 DG 2 ? ? "O5'" A DG 2 ? ? 1.531 1.593 -0.062 0.010 N 2 1 C2 A DA 6 ? ? N3 A DA 6 ? ? 1.397 1.331 0.066 0.009 N 3 1 "O3'" A DA 7 ? ? P A DA 8 ? ? 1.527 1.607 -0.080 0.012 Y 4 1 P A DG 12 ? ? "O5'" A DG 12 ? ? 1.655 1.593 0.062 0.010 N 5 1 "O3'" B DC 13 ? ? P B DG 14 ? ? 1.532 1.607 -0.075 0.012 Y 6 1 P B DG 14 ? ? "O5'" B DG 14 ? ? 1.697 1.593 0.104 0.010 N 7 1 "C2'" B DC 15 ? ? "C1'" B DC 15 ? ? 1.581 1.519 0.062 0.010 N 8 1 P B DT 17 ? ? "O5'" B DT 17 ? ? 1.527 1.593 -0.066 0.010 N 9 1 "O3'" B DT 17 ? ? P B DT 18 ? ? 1.682 1.607 0.075 0.012 Y 10 1 P C DC 21 ? ? "O5'" C DC 21 ? ? 1.671 1.593 0.078 0.010 N 11 1 P C DG 22 ? ? OP1 C DG 22 ? ? 1.611 1.485 0.126 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 "O4'" A DC 1 ? ? "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? 99.44 104.50 -5.06 0.40 N 2 1 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 119.42 121.90 -2.48 0.40 N 3 1 N3 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 123.48 118.00 5.48 0.70 N 4 1 OP1 A DG 2 ? ? P A DG 2 ? ? OP2 A DG 2 ? ? 108.58 119.60 -11.02 1.50 N 5 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 113.22 108.30 4.92 0.30 N 6 1 OP1 A DC 3 ? ? P A DC 3 ? ? OP2 A DC 3 ? ? 110.37 119.60 -9.23 1.50 N 7 1 P A DC 3 ? ? "O5'" A DC 3 ? ? "C5'" A DC 3 ? ? 111.10 120.90 -9.80 1.60 N 8 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.26 108.30 1.96 0.30 N 9 1 OP1 A DG 4 ? ? P A DG 4 ? ? OP2 A DG 4 ? ? 107.47 119.60 -12.13 1.50 N 10 1 "O5'" A DG 4 ? ? P A DG 4 ? ? OP1 A DG 4 ? ? 118.11 110.70 7.41 1.20 N 11 1 "O5'" A DG 4 ? ? "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 102.50 109.40 -6.90 0.80 N 12 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 118.00 108.30 9.70 0.30 N 13 1 C5 A DG 4 ? ? C6 A DG 4 ? ? N1 A DG 4 ? ? 114.72 111.50 3.22 0.50 N 14 1 OP1 A DA 5 ? ? P A DA 5 ? ? OP2 A DA 5 ? ? 107.73 119.60 -11.87 1.50 N 15 1 "C5'" A DA 5 ? ? "C4'" A DA 5 ? ? "O4'" A DA 5 ? ? 117.37 109.80 7.57 1.10 N 16 1 C6 A DA 5 ? ? N1 A DA 5 ? ? C2 A DA 5 ? ? 123.99 118.60 5.39 0.60 N 17 1 N1 A DA 5 ? ? C2 A DA 5 ? ? N3 A DA 5 ? ? 124.62 129.30 -4.68 0.50 N 18 1 C5 A DA 5 ? ? C6 A DA 5 ? ? N1 A DA 5 ? ? 114.48 117.70 -3.22 0.50 N 19 1 N1 A DA 5 ? ? C6 A DA 5 ? ? N6 A DA 5 ? ? 122.24 118.60 3.64 0.60 N 20 1 OP1 A DA 6 ? ? P A DA 6 ? ? OP2 A DA 6 ? ? 110.11 119.60 -9.49 1.50 N 21 1 P A DA 6 ? ? "O5'" A DA 6 ? ? "C5'" A DA 6 ? ? 137.15 120.90 16.25 1.60 N 22 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 115.45 108.30 7.15 0.30 N 23 1 C6 A DA 6 ? ? N1 A DA 6 ? ? C2 A DA 6 ? ? 123.36 118.60 4.76 0.60 N 24 1 N1 A DA 6 ? ? C2 A DA 6 ? ? N3 A DA 6 ? ? 123.86 129.30 -5.44 0.50 N 25 1 "C3'" A DA 6 ? ? "O3'" A DA 6 ? ? P A DA 7 ? ? 127.65 119.70 7.95 1.20 Y 26 1 N1 A DA 7 ? ? C2 A DA 7 ? ? N3 A DA 7 ? ? 125.32 129.30 -3.98 0.50 N 27 1 "C3'" A DA 7 ? ? "O3'" A DA 7 ? ? P A DA 8 ? ? 137.92 119.70 18.22 1.20 Y 28 1 OP1 A DA 8 ? ? P A DA 8 ? ? OP2 A DA 8 ? ? 106.40 119.60 -13.20 1.50 N 29 1 "O4'" A DA 8 ? ? "C1'" A DA 8 ? ? N9 A DA 8 ? ? 117.85 108.30 9.55 0.30 N 30 1 C6 A DA 8 ? ? N1 A DA 8 ? ? C2 A DA 8 ? ? 122.84 118.60 4.24 0.60 N 31 1 N1 A DA 8 ? ? C2 A DA 8 ? ? N3 A DA 8 ? ? 125.78 129.30 -3.52 0.50 N 32 1 C5 A DA 8 ? ? C6 A DA 8 ? ? N1 A DA 8 ? ? 114.58 117.70 -3.12 0.50 N 33 1 OP1 A DC 9 ? ? P A DC 9 ? ? OP2 A DC 9 ? ? 104.15 119.60 -15.45 1.50 N 34 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 112.91 108.30 4.61 0.30 N 35 1 N3 A DC 9 ? ? C4 A DC 9 ? ? C5 A DC 9 ? ? 119.43 121.90 -2.47 0.40 N 36 1 N3 A DC 9 ? ? C4 A DC 9 ? ? N4 A DC 9 ? ? 122.80 118.00 4.80 0.70 N 37 1 "C3'" A DC 9 ? ? "O3'" A DC 9 ? ? P A DG 10 ? ? 133.44 119.70 13.74 1.20 Y 38 1 C5 A DG 10 ? ? C6 A DG 10 ? ? N1 A DG 10 ? ? 114.85 111.50 3.35 0.50 N 39 1 "O3'" A DG 10 ? ? P A DC 11 ? ? OP1 A DC 11 ? ? 118.18 110.50 7.68 1.10 Y 40 1 OP1 A DC 11 ? ? P A DC 11 ? ? OP2 A DC 11 ? ? 101.83 119.60 -17.77 1.50 N 41 1 C5 A DC 11 ? ? C6 A DC 11 ? ? N1 A DC 11 ? ? 124.69 121.00 3.69 0.50 N 42 1 "C3'" A DC 11 ? ? "O3'" A DC 11 ? ? P A DG 12 ? ? 127.24 119.70 7.54 1.20 Y 43 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 112.18 108.30 3.88 0.30 N 44 1 C5 A DG 12 ? ? C6 A DG 12 ? ? O6 A DG 12 ? ? 124.56 128.60 -4.04 0.60 N 45 1 "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? "C1'" B DC 13 ? ? 96.47 102.40 -5.93 0.80 N 46 1 N3 B DC 13 ? ? C4 B DC 13 ? ? N4 B DC 13 ? ? 124.25 118.00 6.25 0.70 N 47 1 C5 B DC 13 ? ? C4 B DC 13 ? ? N4 B DC 13 ? ? 115.52 120.20 -4.68 0.70 N 48 1 "C3'" B DC 13 ? ? "O3'" B DC 13 ? ? P B DG 14 ? ? 139.13 119.70 19.43 1.20 Y 49 1 "O4'" B DG 14 ? ? "C1'" B DG 14 ? ? N9 B DG 14 ? ? 112.07 108.30 3.77 0.30 N 50 1 "C3'" B DG 14 ? ? "O3'" B DG 14 ? ? P B DC 15 ? ? 130.07 119.70 10.37 1.20 Y 51 1 "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? "C1'" B DC 15 ? ? 97.54 102.40 -4.86 0.80 N 52 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 122.12 108.30 13.82 0.30 N 53 1 C2 B DC 15 ? ? N3 B DC 15 ? ? C4 B DC 15 ? ? 123.37 119.90 3.47 0.50 N 54 1 N3 B DC 15 ? ? C4 B DC 15 ? ? C5 B DC 15 ? ? 119.04 121.90 -2.86 0.40 N 55 1 N3 B DC 15 ? ? C4 B DC 15 ? ? N4 B DC 15 ? ? 123.87 118.00 5.87 0.70 N 56 1 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 112.67 108.30 4.37 0.30 N 57 1 "C3'" B DG 16 ? ? "O3'" B DG 16 ? ? P B DT 17 ? ? 128.45 119.70 8.75 1.20 Y 58 1 OP1 B DT 17 ? ? P B DT 17 ? ? OP2 B DT 17 ? ? 109.13 119.60 -10.47 1.50 N 59 1 P B DT 17 ? ? "O5'" B DT 17 ? ? "C5'" B DT 17 ? ? 135.87 120.90 14.97 1.60 N 60 1 "C3'" B DT 17 ? ? "C2'" B DT 17 ? ? "C1'" B DT 17 ? ? 96.28 102.40 -6.12 0.80 N 61 1 "O4'" B DT 17 ? ? "C1'" B DT 17 ? ? N1 B DT 17 ? ? 117.83 108.30 9.53 0.30 N 62 1 C2 B DT 17 ? ? N3 B DT 17 ? ? C4 B DT 17 ? ? 123.16 127.20 -4.04 0.60 N 63 1 N3 B DT 17 ? ? C2 B DT 17 ? ? O2 B DT 17 ? ? 118.50 122.30 -3.80 0.60 N 64 1 N3 B DT 17 ? ? C4 B DT 17 ? ? O4 B DT 17 ? ? 115.16 119.90 -4.74 0.60 N 65 1 "C3'" B DT 17 ? ? "O3'" B DT 17 ? ? P B DT 18 ? ? 112.17 119.70 -7.53 1.20 Y 66 1 "O4'" B DT 18 ? ? "C1'" B DT 18 ? ? N1 B DT 18 ? ? 116.48 108.30 8.18 0.30 N 67 1 N1 B DT 18 ? ? C2 B DT 18 ? ? N3 B DT 18 ? ? 118.24 114.60 3.64 0.60 N 68 1 C2 B DT 18 ? ? N3 B DT 18 ? ? C4 B DT 18 ? ? 122.01 127.20 -5.19 0.60 N 69 1 N3 B DT 18 ? ? C4 B DT 18 ? ? C5 B DT 18 ? ? 119.04 115.20 3.84 0.60 N 70 1 N3 B DT 18 ? ? C2 B DT 18 ? ? O2 B DT 18 ? ? 118.49 122.30 -3.81 0.60 N 71 1 N3 B DT 18 ? ? C4 B DT 18 ? ? O4 B DT 18 ? ? 115.24 119.90 -4.66 0.60 N 72 1 "C3'" C DT 19 ? ? "C2'" C DT 19 ? ? "C1'" C DT 19 ? ? 109.79 102.50 7.29 1.20 N 73 1 "O4'" C DT 19 ? ? "C1'" C DT 19 ? ? N1 C DT 19 ? ? 114.87 108.30 6.57 0.30 N 74 1 N1 C DT 19 ? ? C2 C DT 19 ? ? N3 C DT 19 ? ? 118.40 114.60 3.80 0.60 N 75 1 C2 C DT 19 ? ? N3 C DT 19 ? ? C4 C DT 19 ? ? 123.19 127.20 -4.01 0.60 N 76 1 N3 C DT 19 ? ? C2 C DT 19 ? ? O2 C DT 19 ? ? 117.22 122.30 -5.08 0.60 N 77 1 "C3'" C DT 19 ? ? "O3'" C DT 19 ? ? P C DT 20 ? ? 134.47 119.70 14.77 1.20 Y 78 1 "O5'" C DT 20 ? ? "C5'" C DT 20 ? ? "C4'" C DT 20 ? ? 104.49 109.40 -4.91 0.80 N 79 1 "O4'" C DC 21 ? ? "C1'" C DC 21 ? ? N1 C DC 21 ? ? 113.08 108.30 4.78 0.30 N 80 1 "C3'" C DC 21 ? ? "O3'" C DC 21 ? ? P C DG 22 ? ? 136.08 119.70 16.38 1.20 Y 81 1 OP1 C DG 22 ? ? P C DG 22 ? ? OP2 C DG 22 ? ? 108.16 119.60 -11.44 1.50 N 82 1 "O5'" C DG 22 ? ? P C DG 22 ? ? OP2 C DG 22 ? ? 121.56 110.70 10.86 1.20 N 83 1 "O4'" C DG 22 ? ? "C4'" C DG 22 ? ? "C3'" C DG 22 ? ? 102.07 104.50 -2.43 0.40 N 84 1 "O4'" C DG 22 ? ? "C1'" C DG 22 ? ? N9 C DG 22 ? ? 112.57 108.30 4.27 0.30 N 85 1 C6 C DG 22 ? ? N1 C DG 22 ? ? C2 C DG 22 ? ? 121.44 125.10 -3.66 0.60 N 86 1 C5 C DG 22 ? ? C6 C DG 22 ? ? N1 C DG 22 ? ? 114.79 111.50 3.29 0.50 N 87 1 C5 C DG 22 ? ? C6 C DG 22 ? ? O6 C DG 22 ? ? 123.09 128.60 -5.51 0.60 N 88 1 "O4'" C DC 23 ? ? "C1'" C DC 23 ? ? N1 C DC 23 ? ? 117.94 108.30 9.64 0.30 N 89 1 N3 C DC 23 ? ? C4 C DC 23 ? ? C5 C DC 23 ? ? 119.08 121.90 -2.82 0.40 N 90 1 N3 C DC 23 ? ? C4 C DC 23 ? ? N4 C DC 23 ? ? 122.74 118.00 4.74 0.70 N 91 1 "C3'" C DC 23 ? ? "O3'" C DC 23 ? ? P C DG 24 ? ? 131.01 119.70 11.31 1.20 Y 92 1 "O5'" C DG 24 ? ? "C5'" C DG 24 ? ? "C4'" C DG 24 ? ? 102.74 109.40 -6.66 0.80 N 93 1 "O4'" C DG 24 ? ? "C1'" C DG 24 ? ? N9 C DG 24 ? ? 113.48 108.30 5.18 0.30 N 94 1 C5 C DG 24 ? ? C6 C DG 24 ? ? N1 C DG 24 ? ? 115.11 111.50 3.61 0.50 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1VTE 'double helix' 1VTE 'b-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 DC 1 1_555 C DG 6 1_555 -0.036 -0.092 -0.712 15.661 1.137 -2.978 1 A_DC1:DG24_C A 1 ? C 24 ? 19 1 1 A DG 2 1_555 C DC 5 1_555 -0.064 -0.105 -0.115 -8.496 -4.861 -3.338 2 A_DG2:DC23_C A 2 ? C 23 ? 19 1 1 A DC 3 1_555 C DG 4 1_555 0.176 -0.110 -0.727 18.548 -8.997 -2.575 3 A_DC3:DG22_C A 3 ? C 22 ? 19 1 1 A DG 4 1_555 C DC 3 1_555 -0.128 0.024 -0.142 28.664 5.910 -4.455 4 A_DG4:DC21_C A 4 ? C 21 ? 19 1 1 A DA 5 1_555 C DT 2 1_555 0.361 -0.168 0.412 -0.075 -23.805 -6.238 5 A_DA5:DT20_C A 5 ? C 20 ? 20 1 1 A DA 6 1_555 C DT 1 1_555 0.155 -0.063 -0.754 -17.216 -32.653 1.358 6 A_DA6:DT19_C A 6 ? C 19 ? 20 1 1 A DA 7 1_555 B DT 6 1_555 0.424 0.010 -0.270 -17.938 3.128 -1.629 7 A_DA7:DT18_B A 7 ? B 18 ? 20 1 1 A DA 8 1_555 B DT 5 1_555 0.256 0.047 -0.464 -25.099 -16.961 -1.910 8 A_DA8:DT17_B A 8 ? B 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.038 -0.081 -0.348 -18.454 -1.775 -2.847 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 0.000 -0.109 0.056 -3.707 12.864 -1.259 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.059 -0.178 0.434 19.749 -17.732 -6.126 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.100 -0.176 0.348 2.729 -18.113 -5.054 12 A_DG12:DC13_B A 12 ? B 13 ? 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 DC 1 1_555 C DG 6 1_555 A DG 2 1_555 C DC 5 1_555 0.519 0.961 4.228 -14.231 16.325 43.757 -0.507 -2.090 3.992 20.482 17.854 48.586 1 AA_DC1DG2:DC23DG24_CC A 1 ? C 24 ? A 2 ? C 23 ? 1 A DG 2 1_555 C DC 5 1_555 A DC 3 1_555 C DG 4 1_555 0.170 -0.249 2.525 8.726 -2.600 35.143 -0.116 0.682 2.506 -4.218 -14.160 36.267 2 AA_DG2DC3:DG22DC23_CC A 2 ? C 23 ? A 3 ? C 22 ? 1 A DC 3 1_555 C DG 4 1_555 A DG 4 1_555 C DC 3 1_555 -0.212 0.948 3.342 -4.490 3.649 34.144 1.008 -0.364 3.421 6.160 7.579 34.616 3 AA_DC3DG4:DC21DG22_CC A 3 ? C 22 ? A 4 ? C 21 ? 1 A DG 4 1_555 C DC 3 1_555 A DA 5 1_555 C DT 2 1_555 -0.113 -0.415 3.952 -7.263 0.314 38.088 -0.673 -0.907 3.905 0.477 11.007 38.750 4 AA_DG4DA5:DT20DC21_CC A 4 ? C 21 ? A 5 ? C 20 ? 1 A DA 5 1_555 C DT 2 1_555 A DA 6 1_555 C DT 1 1_555 -0.400 -0.555 3.963 15.101 -0.004 33.439 -0.883 3.113 3.470 -0.007 -24.737 36.602 5 AA_DA5DA6:DT19DT20_CC A 5 ? C 20 ? A 6 ? C 19 ? 1 A DA 6 1_555 C DT 1 1_555 A DA 7 1_555 B DT 6 1_555 0.413 -1.975 3.190 -10.334 4.486 33.779 -3.837 -2.065 2.677 7.467 17.202 35.556 6 AA_DA6DA7:DT18DT19_BC A 6 ? C 19 ? A 7 ? B 18 ? 1 A DA 7 1_555 B DT 6 1_555 A DA 8 1_555 B DT 5 1_555 -0.724 0.445 3.459 -3.560 -7.501 43.724 1.319 0.609 3.388 -9.964 4.729 44.467 7 AA_DA7DA8:DT17DT18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DA 8 1_555 B DT 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.053 -1.119 3.058 11.881 -4.216 27.355 -1.327 2.439 2.921 -8.374 -23.598 30.070 8 AA_DA8DC9:DG16DT17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 1.129 0.559 2.725 -1.890 -5.879 36.941 1.498 -1.960 2.550 -9.199 2.958 37.436 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -0.016 0.471 3.003 10.778 -4.713 38.683 1.167 1.130 2.825 -6.923 -15.831 40.366 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 1.190 0.361 3.674 7.190 -0.719 37.670 0.654 -0.772 3.822 -1.100 -11.011 38.332 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # _atom_sites.entry_id 1VTE _atom_sites.fract_transf_matrix[1][1] 0.038476 _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] 0.022712 _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] 0.015011 _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_