data_1VTY # _entry.id 1VTY # _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 1VTY pdb_00001vty 10.2210/pdb1vty/pdb NDB ZDFB11 ? ? RCSB RCSB003054 ? ? WWPDB D_1000003054 ? ? # 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' 6 3 '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 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 7 3 'Structure model' pdbx_struct_conn_angle 8 3 'Structure model' struct_conn 9 3 'Structure model' struct_site # 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.pdbx_database_id_DOI' 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' 8 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 9 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 10 3 'Structure model' '_pdbx_struct_conn_angle.value' 11 3 'Structure model' '_struct_conn.pdbx_dist_value' 12 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 13 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 14 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 15 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 16 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1VTY _pdbx_database_status.recvd_initial_deposition_date 1988-08-18 _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 ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Coll, M.' 1 'Wang, A.H.-J.' 2 'Van Der Marel, G.A.' 3 'Van Boom, J.H.' 4 'Rich, A.' 5 # _citation.id primary _citation.title 'Crystal structure of a Z-DNA fragment containing thymine/2-aminoadenine base pairs.' _citation.journal_abbrev 'J. Biomol. Struct. Dyn.' _citation.journal_volume 4 _citation.page_first 157 _citation.page_last 172 _citation.year 1986 _citation.journal_id_ASTM JBSDD6 _citation.country US _citation.journal_id_ISSN 0739-1102 _citation.journal_id_CSD 0646 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 3271437 _citation.pdbx_database_id_DOI 10.1080/07391102.1986.10506337 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Coll, M.' 1 ? primary 'Wang, A.H.' 2 ? primary 'van der Marel, G.A.' 3 ? primary 'van Boom, J.H.' 4 ? primary 'Rich, A.' 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(*CP*(NH2)AP*CP*GP*TP*G)-3') ; 1824.231 2 ? ? ? ? 2 non-polymer syn 'AMINO GROUP' 16.023 2 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 4 water nat water 18.015 83 ? ? ? ? # _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 '(DC)(1AP)(DC)(DG)(DT)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CACGTG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'AMINO GROUP' NH2 3 'MAGNESIUM ION' MG 4 water 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 1AP n 1 3 DC n 1 4 DG n 1 5 DT n 1 6 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # 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 1AP 'DNA linking' n '2,6-DIAMINOPURINE NUCLEOTIDE' ? 'C10 H15 N6 O6 P' 346.236 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 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 # 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 DC A . n A 1 2 1AP 2 2 2 1AP 1AP A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DT 5 5 5 DT T A . n A 1 6 DG 6 6 6 DG DG A . n B 1 1 DC 1 7 7 DC DC B . n B 1 2 1AP 2 8 8 1AP 1AP B . n B 1 3 DC 3 9 9 DC DC B . n B 1 4 DG 4 10 10 DG DG B . n B 1 5 DT 5 11 11 DT T B . n B 1 6 DG 6 12 12 DG DG 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 NH2 1 7 7 NH2 NH2 A . D 3 MG 1 13 13 MG MG B . E 2 NH2 1 14 14 NH2 NH2 B . F 4 HOH 1 16 16 HOH HOH A . F 4 HOH 2 22 22 HOH HOH A . F 4 HOH 3 23 23 HOH HOH A . F 4 HOH 4 24 24 HOH HOH A . F 4 HOH 5 25 25 HOH HOH A . F 4 HOH 6 27 27 HOH HOH A . F 4 HOH 7 30 30 HOH HOH A . F 4 HOH 8 34 34 HOH HOH A . F 4 HOH 9 35 35 HOH HOH A . F 4 HOH 10 40 40 HOH HOH A . F 4 HOH 11 41 41 HOH HOH A . F 4 HOH 12 42 42 HOH HOH A . F 4 HOH 13 44 44 HOH HOH A . F 4 HOH 14 45 45 HOH HOH A . F 4 HOH 15 46 46 HOH HOH A . F 4 HOH 16 47 47 HOH HOH A . F 4 HOH 17 48 48 HOH HOH A . F 4 HOH 18 53 53 HOH HOH A . F 4 HOH 19 54 54 HOH HOH A . F 4 HOH 20 55 55 HOH HOH A . F 4 HOH 21 57 57 HOH HOH A . F 4 HOH 22 58 58 HOH HOH A . F 4 HOH 23 59 59 HOH HOH A . F 4 HOH 24 61 61 HOH HOH A . F 4 HOH 25 62 62 HOH HOH A . F 4 HOH 26 65 65 HOH HOH A . F 4 HOH 27 66 66 HOH HOH A . F 4 HOH 28 67 67 HOH HOH A . F 4 HOH 29 68 68 HOH HOH A . F 4 HOH 30 70 70 HOH HOH A . F 4 HOH 31 71 71 HOH HOH A . F 4 HOH 32 72 72 HOH HOH A . F 4 HOH 33 73 73 HOH HOH A . F 4 HOH 34 75 75 HOH HOH A . F 4 HOH 35 77 77 HOH HOH A . F 4 HOH 36 81 81 HOH HOH A . F 4 HOH 37 83 83 HOH HOH A . F 4 HOH 38 84 84 HOH HOH A . F 4 HOH 39 86 86 HOH HOH A . F 4 HOH 40 89 89 HOH HOH A . G 4 HOH 1 15 15 HOH HOH B . G 4 HOH 2 16 16 HOH HOH B . G 4 HOH 3 17 17 HOH HOH B . G 4 HOH 4 18 18 HOH HOH B . G 4 HOH 5 19 19 HOH HOH B . G 4 HOH 6 20 20 HOH HOH B . G 4 HOH 7 21 21 HOH HOH B . G 4 HOH 8 26 26 HOH HOH B . G 4 HOH 9 28 28 HOH HOH B . G 4 HOH 10 29 29 HOH HOH B . G 4 HOH 11 31 31 HOH HOH B . G 4 HOH 12 32 32 HOH HOH B . G 4 HOH 13 33 33 HOH HOH B . G 4 HOH 14 36 36 HOH HOH B . G 4 HOH 15 37 37 HOH HOH B . G 4 HOH 16 38 38 HOH HOH B . G 4 HOH 17 39 39 HOH HOH B . G 4 HOH 18 43 43 HOH HOH B . G 4 HOH 19 49 49 HOH HOH B . G 4 HOH 20 50 50 HOH HOH B . G 4 HOH 21 51 51 HOH HOH B . G 4 HOH 22 52 52 HOH HOH B . G 4 HOH 23 56 56 HOH HOH B . G 4 HOH 24 60 60 HOH HOH B . G 4 HOH 25 63 63 HOH HOH B . G 4 HOH 26 64 64 HOH HOH B . G 4 HOH 27 69 69 HOH HOH B . G 4 HOH 28 74 74 HOH HOH B . G 4 HOH 29 76 76 HOH HOH B . G 4 HOH 30 78 78 HOH HOH B . G 4 HOH 31 79 79 HOH HOH B . G 4 HOH 32 80 80 HOH HOH B . G 4 HOH 33 82 82 HOH HOH B . G 4 HOH 34 85 85 HOH HOH B . G 4 HOH 35 87 87 HOH HOH B . G 4 HOH 36 88 88 HOH HOH B . G 4 HOH 37 90 90 HOH HOH B . G 4 HOH 38 91 91 HOH HOH B . G 4 HOH 39 92 92 HOH HOH B . G 4 HOH 40 93 93 HOH HOH B . G 4 HOH 41 94 94 HOH HOH B . G 4 HOH 42 95 95 HOH HOH B . G 4 HOH 43 96 96 HOH HOH B . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A 1AP 2 ? N2 ? A 1AP 2 N2 2 1 Y 1 B 1AP 8 ? N2 ? B 1AP 2 N2 # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1VTY _cell.length_a 17.860 _cell.length_b 31.040 _cell.length_c 44.760 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _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 1VTY _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 1VTY _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 27.66 _exptl_crystal.density_Matthews 1.70 _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 ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details '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 3 1 2 1 MPD 4 5 6 1 3 1 'NA CACODYLATE' 7 8 9 1 4 1 MGCL2 10 11 12 1 5 2 WATER 13 14 15 1 6 2 MPD 16 17 18 # _diffrn.id 1 _diffrn.ambient_temp 288.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'NICOLET P3' _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 # _reflns.entry_id 1VTY _reflns.observed_criterion_sigma_I 1.500 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high 1.300 _reflns.number_obs 3739 _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 1VTY _refine.ls_number_reflns_obs 3739 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I 1.500 _refine.pdbx_ls_sigma_F ? _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 1.300 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.2170000 _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_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_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_phase_error ? _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_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 240 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 83 _refine_hist.number_atoms_total 326 _refine_hist.d_res_high 1.300 _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 1VTY _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 1VTY _struct.title 'Crystal structure of a Z-DNA fragment containing thymine/2-aminoadenine base pairs' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1VTY _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DOUBLE HELIX, MODIFIED, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 2 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 1VTY _struct_ref.pdbx_db_accession 1VTY _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code CACGTG _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 1VTY A 1 ? 6 ? 1VTY 1 ? 6 ? 1 6 2 1 1VTY B 1 ? 6 ? 1VTY 7 ? 12 ? 7 12 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _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 covale1 covale both ? A DC 1 "O3'" ? ? ? 1_555 A 1AP 2 P ? ? A DC 1 A 1AP 2 1_555 ? ? ? ? ? ? ? 1.645 ? ? covale2 covale both ? B DC 1 "O3'" ? ? ? 1_555 B 1AP 2 P ? ? B DC 7 B 1AP 8 1_555 ? ? ? ? ? ? ? 1.554 ? ? metalc1 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 13 B HOH 91 1_555 ? ? ? ? ? ? ? 1.985 ? ? metalc2 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 13 B HOH 92 1_555 ? ? ? ? ? ? ? 2.446 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 13 B HOH 93 1_555 ? ? ? ? ? ? ? 1.935 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 13 B HOH 94 1_555 ? ? ? ? ? ? ? 2.092 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 13 B HOH 96 1_555 ? ? ? ? ? ? ? 2.006 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? G HOH . ? B HOH 91 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 92 ? 1_555 166.7 ? 2 O ? G HOH . ? B HOH 91 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 93 ? 1_555 91.2 ? 3 O ? G HOH . ? B HOH 92 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 93 ? 1_555 99.2 ? 4 O ? G HOH . ? B HOH 91 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 94 ? 1_555 92.6 ? 5 O ? G HOH . ? B HOH 92 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 94 ? 1_555 78.1 ? 6 O ? G HOH . ? B HOH 93 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 94 ? 1_555 171.6 ? 7 O ? G HOH . ? B HOH 91 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 96 ? 1_555 95.5 ? 8 O ? G HOH . ? B HOH 92 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 96 ? 1_555 93.0 ? 9 O ? G HOH . ? B HOH 93 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 96 ? 1_555 88.6 ? 10 O ? G HOH . ? B HOH 94 ? 1_555 MG ? D MG . ? B MG 13 ? 1_555 O ? G HOH . ? B HOH 96 ? 1_555 83.6 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A NH2 7 ? 4 'BINDING SITE FOR RESIDUE NH2 A 7' AC2 Software B MG 13 ? 6 'BINDING SITE FOR RESIDUE MG B 13' AC3 Software B NH2 14 ? 4 'BINDING SITE FOR RESIDUE NH2 B 14' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 DC A 1 ? DC A 1 . ? 1_555 ? 2 AC1 4 1AP A 2 ? 1AP A 2 . ? 1_555 ? 3 AC1 4 HOH F . ? HOH A 61 . ? 1_555 ? 4 AC1 4 DT B 5 ? DT B 11 . ? 1_555 ? 5 AC2 6 HOH G . ? HOH B 91 . ? 1_555 ? 6 AC2 6 HOH G . ? HOH B 92 . ? 1_555 ? 7 AC2 6 HOH G . ? HOH B 93 . ? 1_555 ? 8 AC2 6 HOH G . ? HOH B 94 . ? 1_555 ? 9 AC2 6 HOH G . ? HOH B 95 . ? 4_566 ? 10 AC2 6 HOH G . ? HOH B 96 . ? 1_555 ? 11 AC3 4 DT A 5 ? DT A 5 . ? 1_555 ? 12 AC3 4 1AP B 2 ? 1AP B 8 . ? 1_555 ? 13 AC3 4 DC B 3 ? DC B 9 . ? 1_555 ? 14 AC3 4 HOH G . ? HOH B 20 . ? 1_555 ? # 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 C2 B 1AP 8 ? ? N B NH2 14 ? ? 1.29 2 1 C2 A 1AP 2 ? ? N A NH2 7 ? ? 1.29 3 1 O A HOH 24 ? ? O A HOH 53 ? ? 1.60 4 1 N7 B DG 10 ? ? O B HOH 96 ? ? 1.84 5 1 O B HOH 20 ? ? O B HOH 85 ? ? 1.93 6 1 "C2'" B 1AP 8 ? ? O B HOH 17 ? ? 2.03 7 1 O A HOH 59 ? ? O A HOH 61 ? ? 2.07 8 1 O A HOH 57 ? ? O A HOH 65 ? ? 2.12 9 1 N1 B 1AP 8 ? ? N B NH2 14 ? ? 2.14 10 1 N1 A 1AP 2 ? ? N A NH2 7 ? ? 2.17 11 1 O B HOH 39 ? ? O B HOH 74 ? ? 2.19 # 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 72 ? ? 1_555 O B HOH 52 ? ? 3_646 1.87 2 1 N4 A DC 1 ? ? 1_555 O B HOH 29 ? ? 4_566 1.93 3 1 OP1 A DT 5 ? ? 1_555 O B HOH 76 ? ? 3_746 2.00 4 1 O A HOH 55 ? ? 1_555 O A HOH 81 ? ? 4_456 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 N3 A DC 1 ? ? C4 A DC 1 ? ? 1.394 1.335 0.059 0.007 N 2 1 "O3'" A 1AP 2 ? ? P A DC 3 ? ? 1.746 1.607 0.139 0.012 Y 3 1 P A DC 3 ? ? OP1 A DC 3 ? ? 1.618 1.485 0.133 0.017 N 4 1 P A DC 3 ? ? "O5'" A DC 3 ? ? 1.664 1.593 0.071 0.010 N 5 1 N1 A DC 3 ? ? C6 A DC 3 ? ? 1.326 1.367 -0.041 0.006 N 6 1 N3 A DC 3 ? ? C4 A DC 3 ? ? 1.378 1.335 0.043 0.007 N 7 1 "O5'" A DG 4 ? ? "C5'" A DG 4 ? ? 1.574 1.440 0.134 0.016 N 8 1 "O4'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.361 1.446 -0.085 0.010 N 9 1 "O3'" A DG 4 ? ? "C3'" A DG 4 ? ? 1.376 1.419 -0.043 0.006 N 10 1 C8 A DG 4 ? ? N9 A DG 4 ? ? 1.325 1.374 -0.049 0.007 N 11 1 N9 A DG 4 ? ? C4 A DG 4 ? ? 1.439 1.375 0.064 0.008 N 12 1 P A DT 5 ? ? OP1 A DT 5 ? ? 1.640 1.485 0.155 0.017 N 13 1 P A DT 5 ? ? "O5'" A DT 5 ? ? 1.501 1.593 -0.092 0.010 N 14 1 "C2'" A DT 5 ? ? "C1'" A DT 5 ? ? 1.442 1.518 -0.076 0.010 N 15 1 "O4'" A DT 5 ? ? "C1'" A DT 5 ? ? 1.503 1.420 0.083 0.011 N 16 1 C2 A DT 5 ? ? N3 A DT 5 ? ? 1.306 1.373 -0.067 0.008 N 17 1 C2 A DT 5 ? ? O2 A DT 5 ? ? 1.275 1.220 0.055 0.008 N 18 1 C5 A DT 5 ? ? C7 A DT 5 ? ? 1.538 1.496 0.042 0.006 N 19 1 P A DG 6 ? ? OP2 A DG 6 ? ? 1.611 1.485 0.126 0.017 N 20 1 P A DG 6 ? ? "O5'" A DG 6 ? ? 1.736 1.593 0.143 0.010 N 21 1 C6 A DG 6 ? ? N1 A DG 6 ? ? 1.347 1.391 -0.044 0.007 N 22 1 C2 B DC 7 ? ? O2 B DC 7 ? ? 1.185 1.240 -0.055 0.009 N 23 1 C4 B DC 7 ? ? N4 B DC 7 ? ? 1.396 1.335 0.061 0.009 N 24 1 C2 B DC 7 ? ? N3 B DC 7 ? ? 1.405 1.353 0.052 0.008 N 25 1 N3 B DC 7 ? ? C4 B DC 7 ? ? 1.382 1.335 0.047 0.007 N 26 1 P B DC 9 ? ? OP2 B DC 9 ? ? 1.592 1.485 0.107 0.017 N 27 1 "C2'" B DC 9 ? ? "C1'" B DC 9 ? ? 1.584 1.519 0.065 0.010 N 28 1 C2 B DC 9 ? ? O2 B DC 9 ? ? 1.298 1.240 0.058 0.009 N 29 1 C4 B DC 9 ? ? N4 B DC 9 ? ? 1.393 1.335 0.058 0.009 N 30 1 C2 B DC 9 ? ? N3 B DC 9 ? ? 1.305 1.353 -0.048 0.008 N 31 1 N3 B DC 9 ? ? C4 B DC 9 ? ? 1.379 1.335 0.044 0.007 N 32 1 N7 B DG 10 ? ? C8 B DG 10 ? ? 1.349 1.305 0.044 0.006 N 33 1 C8 B DG 10 ? ? N9 B DG 10 ? ? 1.321 1.374 -0.053 0.007 N 34 1 P B DT 11 ? ? "O5'" B DT 11 ? ? 1.747 1.593 0.154 0.010 N 35 1 C5 B DT 11 ? ? C7 B DT 11 ? ? 1.594 1.496 0.098 0.006 N 36 1 P B DG 12 ? ? "O5'" B DG 12 ? ? 1.685 1.593 0.092 0.010 N 37 1 C5 B DG 12 ? ? N7 B DG 12 ? ? 1.340 1.388 -0.048 0.006 N 38 1 N7 B DG 12 ? ? C8 B DG 12 ? ? 1.378 1.305 0.073 0.006 N 39 1 C8 B DG 12 ? ? N9 B DG 12 ? ? 1.301 1.374 -0.073 0.007 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DC 1 ? ? "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? 93.72 104.50 -10.78 0.40 N 2 1 "C5'" A DC 1 ? ? "C4'" A DC 1 ? ? "O4'" A DC 1 ? ? 117.62 109.80 7.82 1.10 N 3 1 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 97.47 102.20 -4.73 0.70 N 4 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? "C2'" A DC 1 ? ? 99.04 105.90 -6.86 0.80 N 5 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 114.26 108.30 5.96 0.30 N 6 1 C2 A DC 1 ? ? N3 A DC 1 ? ? C4 A DC 1 ? ? 123.66 119.90 3.76 0.50 N 7 1 N3 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 126.25 121.90 4.35 0.70 N 8 1 N3 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 124.71 118.00 6.71 0.70 N 9 1 C5 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 115.00 120.20 -5.20 0.70 N 10 1 "O3'" A 1AP 2 ? ? P A DC 3 ? ? "O5'" A DC 3 ? ? 124.37 104.00 20.37 1.90 Y 11 1 "O3'" A 1AP 2 ? ? P A DC 3 ? ? OP2 A DC 3 ? ? 78.50 105.20 -26.70 2.20 Y 12 1 "O3'" A 1AP 2 ? ? P A DC 3 ? ? OP1 A DC 3 ? ? 87.94 105.20 -17.26 2.20 Y 13 1 OP1 A DC 3 ? ? P A DC 3 ? ? OP2 A DC 3 ? ? 157.05 119.60 37.45 1.50 N 14 1 "O5'" A DC 3 ? ? P A DC 3 ? ? OP1 A DC 3 ? ? 92.78 105.70 -12.92 0.90 N 15 1 "C1'" A DC 3 ? ? "O4'" A DC 3 ? ? "C4'" A DC 3 ? ? 114.89 110.30 4.59 0.70 N 16 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? "C2'" A DC 3 ? ? 99.49 105.90 -6.41 0.80 N 17 1 C6 A DC 3 ? ? N1 A DC 3 ? ? C2 A DC 3 ? ? 117.52 120.30 -2.78 0.40 N 18 1 C5 A DC 3 ? ? C6 A DC 3 ? ? N1 A DC 3 ? ? 128.84 121.00 7.84 0.50 N 19 1 N3 A DC 3 ? ? C4 A DC 3 ? ? N4 A DC 3 ? ? 128.25 118.00 10.25 0.70 N 20 1 C5 A DC 3 ? ? C4 A DC 3 ? ? N4 A DC 3 ? ? 112.11 120.20 -8.09 0.70 N 21 1 C6 A DC 3 ? ? N1 A DC 3 ? ? "C1'" A DC 3 ? ? 128.43 120.80 7.63 1.20 N 22 1 "O3'" A DC 3 ? ? P A DG 4 ? ? OP2 A DG 4 ? ? 117.12 110.50 6.62 1.10 Y 23 1 OP1 A DG 4 ? ? P A DG 4 ? ? OP2 A DG 4 ? ? 106.26 119.60 -13.34 1.50 N 24 1 "O5'" A DG 4 ? ? P A DG 4 ? ? OP1 A DG 4 ? ? 92.92 105.70 -12.78 0.90 N 25 1 "O5'" A DG 4 ? ? "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 101.89 109.40 -7.51 0.80 N 26 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 100.09 108.00 -7.91 0.70 N 27 1 N1 A DG 4 ? ? C2 A DG 4 ? ? N2 A DG 4 ? ? 109.81 116.20 -6.39 0.90 N 28 1 N3 A DG 4 ? ? C2 A DG 4 ? ? N2 A DG 4 ? ? 126.83 119.90 6.93 0.70 N 29 1 "C3'" A DG 4 ? ? "O3'" A DG 4 ? ? P A DT 5 ? ? 129.95 119.70 10.25 1.20 Y 30 1 "O3'" A DG 4 ? ? P A DT 5 ? ? "O5'" A DT 5 ? ? 115.79 104.00 11.79 1.90 Y 31 1 "O3'" A DG 4 ? ? P A DT 5 ? ? OP2 A DT 5 ? ? 120.04 110.50 9.54 1.10 Y 32 1 "O3'" A DG 4 ? ? P A DT 5 ? ? OP1 A DT 5 ? ? 91.28 105.20 -13.92 2.20 Y 33 1 OP1 A DT 5 ? ? P A DT 5 ? ? OP2 A DT 5 ? ? 91.86 119.60 -27.74 1.50 N 34 1 "O5'" A DT 5 ? ? P A DT 5 ? ? OP2 A DT 5 ? ? 118.29 110.70 7.59 1.20 N 35 1 "C5'" A DT 5 ? ? "C4'" A DT 5 ? ? "C3'" A DT 5 ? ? 123.61 115.70 7.91 1.20 N 36 1 "C4'" A DT 5 ? ? "C3'" A DT 5 ? ? "C2'" A DT 5 ? ? 109.85 103.10 6.75 0.90 N 37 1 "C3'" A DT 5 ? ? "C2'" A DT 5 ? ? "C1'" A DT 5 ? ? 96.25 102.40 -6.15 0.80 N 38 1 C5 A DT 5 ? ? C6 A DT 5 ? ? N1 A DT 5 ? ? 119.93 123.70 -3.77 0.60 N 39 1 N1 A DT 5 ? ? C2 A DT 5 ? ? O2 A DT 5 ? ? 114.95 123.10 -8.15 0.80 N 40 1 N3 A DT 5 ? ? C2 A DT 5 ? ? O2 A DT 5 ? ? 129.10 122.30 6.80 0.60 N 41 1 C6 A DT 5 ? ? C5 A DT 5 ? ? C7 A DT 5 ? ? 118.94 122.90 -3.96 0.60 N 42 1 "O3'" A DT 5 ? ? P A DG 6 ? ? "O5'" A DG 6 ? ? 116.84 104.00 12.84 1.90 Y 43 1 "O3'" A DT 5 ? ? P A DG 6 ? ? OP1 A DG 6 ? ? 125.80 110.50 15.30 1.10 Y 44 1 "O5'" A DG 6 ? ? P A DG 6 ? ? OP1 A DG 6 ? ? 93.11 105.70 -12.59 0.90 N 45 1 "O5'" A DG 6 ? ? P A DG 6 ? ? OP2 A DG 6 ? ? 93.54 105.70 -12.16 0.90 N 46 1 "O5'" A DG 6 ? ? "C5'" A DG 6 ? ? "C4'" A DG 6 ? ? 85.12 109.40 -24.28 0.80 N 47 1 N3 A DG 6 ? ? C4 A DG 6 ? ? C5 A DG 6 ? ? 124.83 128.60 -3.77 0.50 N 48 1 N3 A DG 6 ? ? C2 A DG 6 ? ? N2 A DG 6 ? ? 115.66 119.90 -4.24 0.70 N 49 1 "O4'" B DC 7 ? ? "C4'" B DC 7 ? ? "C3'" B DC 7 ? ? 96.62 104.50 -7.88 0.40 N 50 1 "C5'" B DC 7 ? ? "C4'" B DC 7 ? ? "O4'" B DC 7 ? ? 117.51 109.80 7.71 1.10 N 51 1 "C1'" B DC 7 ? ? "O4'" B DC 7 ? ? "C4'" B DC 7 ? ? 121.47 110.30 11.17 0.70 N 52 1 "C4'" B DC 7 ? ? "C3'" B DC 7 ? ? "C2'" B DC 7 ? ? 110.01 103.10 6.91 0.90 N 53 1 "O4'" B DC 7 ? ? "C1'" B DC 7 ? ? "C2'" B DC 7 ? ? 95.10 105.90 -10.80 0.80 N 54 1 "O4'" B DC 7 ? ? "C1'" B DC 7 ? ? N1 B DC 7 ? ? 115.83 108.30 7.53 0.30 N 55 1 C4 B DC 7 ? ? C5 B DC 7 ? ? C6 B DC 7 ? ? 114.24 117.40 -3.16 0.50 N 56 1 C5 B DC 7 ? ? C6 B DC 7 ? ? N1 B DC 7 ? ? 124.70 121.00 3.70 0.50 N 57 1 "C3'" B DC 7 ? ? "O3'" B DC 7 ? ? P B 1AP 8 ? ? 127.98 119.70 8.28 1.20 Y 58 1 "O3'" B DC 7 ? ? P B 1AP 8 ? ? OP2 B 1AP 8 ? ? 117.12 110.50 6.62 1.10 Y 59 1 "C3'" B 1AP 8 ? ? "O3'" B 1AP 8 ? ? P B DC 9 ? ? 132.41 119.70 12.71 1.20 Y 60 1 "O3'" B 1AP 8 ? ? P B DC 9 ? ? "O5'" B DC 9 ? ? 121.19 104.00 17.19 1.90 Y 61 1 OP1 B DC 9 ? ? P B DC 9 ? ? OP2 B DC 9 ? ? 106.94 119.60 -12.66 1.50 N 62 1 "O5'" B DC 9 ? ? P B DC 9 ? ? OP1 B DC 9 ? ? 123.95 110.70 13.25 1.20 N 63 1 "O5'" B DC 9 ? ? P B DC 9 ? ? OP2 B DC 9 ? ? 99.62 105.70 -6.08 0.90 N 64 1 "O5'" B DC 9 ? ? "C5'" B DC 9 ? ? "C4'" B DC 9 ? ? 102.84 109.40 -6.56 0.80 N 65 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? "C2'" B DC 9 ? ? 95.93 105.90 -9.97 0.80 N 66 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? N1 B DC 9 ? ? 110.77 108.30 2.47 0.30 N 67 1 C6 B DC 9 ? ? N1 B DC 9 ? ? C2 B DC 9 ? ? 114.45 120.30 -5.85 0.40 N 68 1 C5 B DC 9 ? ? C6 B DC 9 ? ? N1 B DC 9 ? ? 125.77 121.00 4.77 0.50 N 69 1 "O5'" B DG 10 ? ? P B DG 10 ? ? OP1 B DG 10 ? ? 94.82 105.70 -10.88 0.90 N 70 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 110.70 108.30 2.40 0.30 N 71 1 C6 B DG 10 ? ? N1 B DG 10 ? ? C2 B DG 10 ? ? 118.98 125.10 -6.12 0.60 N 72 1 N1 B DG 10 ? ? C2 B DG 10 ? ? N3 B DG 10 ? ? 134.37 123.90 10.47 0.60 N 73 1 C2 B DG 10 ? ? N3 B DG 10 ? ? C4 B DG 10 ? ? 104.44 111.90 -7.46 0.50 N 74 1 C4 B DG 10 ? ? C5 B DG 10 ? ? C6 B DG 10 ? ? 123.07 118.80 4.27 0.60 N 75 1 C4 B DG 10 ? ? C5 B DG 10 ? ? N7 B DG 10 ? ? 115.10 110.80 4.30 0.40 N 76 1 C5 B DG 10 ? ? N7 B DG 10 ? ? C8 B DG 10 ? ? 96.79 104.30 -7.51 0.50 N 77 1 N7 B DG 10 ? ? C8 B DG 10 ? ? N9 B DG 10 ? ? 118.86 113.10 5.76 0.50 N 78 1 C6 B DG 10 ? ? C5 B DG 10 ? ? N7 B DG 10 ? ? 121.82 130.40 -8.58 0.60 N 79 1 N1 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 104.23 116.20 -11.97 0.90 N 80 1 "O3'" B DG 10 ? ? P B DT 11 ? ? OP2 B DT 11 ? ? 122.17 110.50 11.67 1.10 Y 81 1 "O5'" B DT 11 ? ? P B DT 11 ? ? OP1 B DT 11 ? ? 96.12 105.70 -9.58 0.90 N 82 1 "O5'" B DT 11 ? ? P B DT 11 ? ? OP2 B DT 11 ? ? 119.44 110.70 8.74 1.20 N 83 1 P B DT 11 ? ? "O5'" B DT 11 ? ? "C5'" B DT 11 ? ? 109.96 120.90 -10.94 1.60 N 84 1 "C5'" B DT 11 ? ? "C4'" B DT 11 ? ? "O4'" B DT 11 ? ? 117.82 109.80 8.02 1.10 N 85 1 "O4'" B DT 11 ? ? "C1'" B DT 11 ? ? "C2'" B DT 11 ? ? 97.95 105.90 -7.95 0.80 N 86 1 C6 B DT 11 ? ? N1 B DT 11 ? ? C2 B DT 11 ? ? 125.09 121.30 3.79 0.50 N 87 1 N1 B DT 11 ? ? C2 B DT 11 ? ? N3 B DT 11 ? ? 120.36 114.60 5.76 0.60 N 88 1 C2 B DT 11 ? ? N3 B DT 11 ? ? C4 B DT 11 ? ? 116.37 127.20 -10.83 0.60 N 89 1 N3 B DT 11 ? ? C4 B DT 11 ? ? C5 B DT 11 ? ? 121.94 115.20 6.74 0.60 N 90 1 C4 B DT 11 ? ? C5 B DT 11 ? ? C6 B DT 11 ? ? 121.92 118.00 3.92 0.60 N 91 1 C5 B DT 11 ? ? C6 B DT 11 ? ? N1 B DT 11 ? ? 114.17 123.70 -9.53 0.60 N 92 1 C5 B DT 11 ? ? C4 B DT 11 ? ? O4 B DT 11 ? ? 120.53 124.90 -4.37 0.70 N 93 1 "O3'" B DT 11 ? ? P B DG 12 ? ? OP1 B DG 12 ? ? 117.84 110.50 7.34 1.10 Y 94 1 "O5'" B DG 12 ? ? "C5'" B DG 12 ? ? "C4'" B DG 12 ? ? 98.47 109.40 -10.93 0.80 N 95 1 C6 B DG 12 ? ? N1 B DG 12 ? ? C2 B DG 12 ? ? 116.53 125.10 -8.57 0.60 N 96 1 N1 B DG 12 ? ? C2 B DG 12 ? ? N3 B DG 12 ? ? 130.99 123.90 7.09 0.60 N 97 1 N3 B DG 12 ? ? C4 B DG 12 ? ? C5 B DG 12 ? ? 124.71 128.60 -3.89 0.50 N 98 1 C5 B DG 12 ? ? C6 B DG 12 ? ? N1 B DG 12 ? ? 116.68 111.50 5.18 0.50 N 99 1 C4 B DG 12 ? ? C5 B DG 12 ? ? N7 B DG 12 ? ? 106.60 110.80 -4.20 0.40 N 100 1 C5 B DG 12 ? ? N7 B DG 12 ? ? C8 B DG 12 ? ? 108.38 104.30 4.08 0.50 N 101 1 N3 B DG 12 ? ? C2 B DG 12 ? ? N2 B DG 12 ? ? 114.78 119.90 -5.12 0.70 N 102 1 N1 B DG 12 ? ? C6 B DG 12 ? ? O6 B DG 12 ? ? 112.71 119.90 -7.19 0.60 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 1AP 2 A 1AP 2 ? DA '2,6-DIAMINOPURINE NUCLEOTIDE' 2 B 1AP 2 B 1AP 8 ? DA '2,6-DIAMINOPURINE NUCLEOTIDE' # 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 1AP N1 N Y N 1 1AP C2 C Y N 2 1AP C4 C Y N 3 1AP C5 C Y N 4 1AP C6 C Y N 5 1AP C8 C Y N 6 1AP N2 N N N 7 1AP N3 N Y N 8 1AP N9 N Y N 9 1AP N7 N Y N 10 1AP N6 N N N 11 1AP P P N N 12 1AP OP1 O N N 13 1AP OP2 O N N 14 1AP "O5'" O N N 15 1AP "C5'" C N N 16 1AP "C4'" C N R 17 1AP "O4'" O N N 18 1AP "C1'" C N R 19 1AP "C2'" C N N 20 1AP "C3'" C N S 21 1AP "O3'" O N N 22 1AP OP3 O N N 23 1AP H81 H N N 24 1AP HN21 H N N 25 1AP HN22 H N N 26 1AP HN61 H N N 27 1AP HN62 H N N 28 1AP H1P H N N 29 1AP H52 H N N 30 1AP H51 H N N 31 1AP H4 H N N 32 1AP H11 H N N 33 1AP H21 H N N 34 1AP H22 H N N 35 1AP H31 H N N 36 1AP HO31 H N N 37 1AP H3P H N N 38 DC OP3 O N N 39 DC P P N N 40 DC OP1 O N N 41 DC OP2 O N N 42 DC "O5'" O N N 43 DC "C5'" C N N 44 DC "C4'" C N R 45 DC "O4'" O N N 46 DC "C3'" C N S 47 DC "O3'" O N N 48 DC "C2'" C N N 49 DC "C1'" C N R 50 DC N1 N N N 51 DC C2 C N N 52 DC O2 O N N 53 DC N3 N N N 54 DC C4 C N N 55 DC N4 N N N 56 DC C5 C N N 57 DC C6 C N N 58 DC HOP3 H N N 59 DC HOP2 H N N 60 DC "H5'" H N N 61 DC "H5''" H N N 62 DC "H4'" H N N 63 DC "H3'" H N N 64 DC "HO3'" H N N 65 DC "H2'" H N N 66 DC "H2''" H N N 67 DC "H1'" H N N 68 DC H41 H N N 69 DC H42 H N N 70 DC H5 H N N 71 DC H6 H N N 72 DG OP3 O N N 73 DG P P N N 74 DG OP1 O N N 75 DG OP2 O N N 76 DG "O5'" O N N 77 DG "C5'" C N N 78 DG "C4'" C N R 79 DG "O4'" O N N 80 DG "C3'" C N S 81 DG "O3'" O N N 82 DG "C2'" C N N 83 DG "C1'" C N R 84 DG N9 N Y N 85 DG C8 C Y N 86 DG N7 N Y N 87 DG C5 C Y N 88 DG C6 C N N 89 DG O6 O N N 90 DG N1 N N N 91 DG C2 C N N 92 DG N2 N N N 93 DG N3 N N N 94 DG C4 C Y N 95 DG HOP3 H N N 96 DG HOP2 H N N 97 DG "H5'" H N N 98 DG "H5''" H N N 99 DG "H4'" H N N 100 DG "H3'" H N N 101 DG "HO3'" H N N 102 DG "H2'" H N N 103 DG "H2''" H N N 104 DG "H1'" H N N 105 DG H8 H N N 106 DG H1 H N N 107 DG H21 H N N 108 DG H22 H N N 109 DT OP3 O N N 110 DT P P N N 111 DT OP1 O N N 112 DT OP2 O N N 113 DT "O5'" O N N 114 DT "C5'" C N N 115 DT "C4'" C N R 116 DT "O4'" O N N 117 DT "C3'" C N S 118 DT "O3'" O N N 119 DT "C2'" C N N 120 DT "C1'" C N R 121 DT N1 N N N 122 DT C2 C N N 123 DT O2 O N N 124 DT N3 N N N 125 DT C4 C N N 126 DT O4 O N N 127 DT C5 C N N 128 DT C7 C N N 129 DT C6 C N N 130 DT HOP3 H N N 131 DT HOP2 H N N 132 DT "H5'" H N N 133 DT "H5''" H N N 134 DT "H4'" H N N 135 DT "H3'" H N N 136 DT "HO3'" H N N 137 DT "H2'" H N N 138 DT "H2''" H N N 139 DT "H1'" H N N 140 DT H3 H N N 141 DT H71 H N N 142 DT H72 H N N 143 DT H73 H N N 144 DT H6 H N N 145 HOH O O N N 146 HOH H1 H N N 147 HOH H2 H N N 148 MG MG MG N N 149 NH2 N N N N 150 NH2 HN1 H N N 151 NH2 HN2 H N N 152 # 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 1AP N1 C2 sing Y N 1 1AP N1 C6 doub Y N 2 1AP C2 N2 sing N N 3 1AP C2 N3 doub Y N 4 1AP C4 C5 doub Y N 5 1AP C4 N3 sing Y N 6 1AP C4 N9 sing Y N 7 1AP C5 C6 sing Y N 8 1AP C5 N7 sing Y N 9 1AP C6 N6 sing N N 10 1AP C8 N9 sing Y N 11 1AP C8 N7 doub Y N 12 1AP C8 H81 sing N N 13 1AP N2 HN21 sing N N 14 1AP N2 HN22 sing N N 15 1AP N9 "C1'" sing N N 16 1AP N6 HN61 sing N N 17 1AP N6 HN62 sing N N 18 1AP P OP1 sing N N 19 1AP P OP2 doub N N 20 1AP P "O5'" sing N N 21 1AP P OP3 sing N N 22 1AP OP1 H1P sing N N 23 1AP "O5'" "C5'" sing N N 24 1AP "C5'" "C4'" sing N N 25 1AP "C5'" H52 sing N N 26 1AP "C5'" H51 sing N N 27 1AP "C4'" "O4'" sing N N 28 1AP "C4'" "C3'" sing N N 29 1AP "C4'" H4 sing N N 30 1AP "O4'" "C1'" sing N N 31 1AP "C1'" "C2'" sing N N 32 1AP "C1'" H11 sing N N 33 1AP "C2'" "C3'" sing N N 34 1AP "C2'" H21 sing N N 35 1AP "C2'" H22 sing N N 36 1AP "C3'" "O3'" sing N N 37 1AP "C3'" H31 sing N N 38 1AP "O3'" HO31 sing N N 39 1AP OP3 H3P sing N N 40 DC OP3 P sing N N 41 DC OP3 HOP3 sing N N 42 DC P OP1 doub N N 43 DC P OP2 sing N N 44 DC P "O5'" sing N N 45 DC OP2 HOP2 sing N N 46 DC "O5'" "C5'" sing N N 47 DC "C5'" "C4'" sing N N 48 DC "C5'" "H5'" sing N N 49 DC "C5'" "H5''" sing N N 50 DC "C4'" "O4'" sing N N 51 DC "C4'" "C3'" sing N N 52 DC "C4'" "H4'" sing N N 53 DC "O4'" "C1'" sing N N 54 DC "C3'" "O3'" sing N N 55 DC "C3'" "C2'" sing N N 56 DC "C3'" "H3'" sing N N 57 DC "O3'" "HO3'" sing N N 58 DC "C2'" "C1'" sing N N 59 DC "C2'" "H2'" sing N N 60 DC "C2'" "H2''" sing N N 61 DC "C1'" N1 sing N N 62 DC "C1'" "H1'" sing N N 63 DC N1 C2 sing N N 64 DC N1 C6 sing N N 65 DC C2 O2 doub N N 66 DC C2 N3 sing N N 67 DC N3 C4 doub N N 68 DC C4 N4 sing N N 69 DC C4 C5 sing N N 70 DC N4 H41 sing N N 71 DC N4 H42 sing N N 72 DC C5 C6 doub N N 73 DC C5 H5 sing N N 74 DC C6 H6 sing N N 75 DG OP3 P sing N N 76 DG OP3 HOP3 sing N N 77 DG P OP1 doub N N 78 DG P OP2 sing N N 79 DG P "O5'" sing N N 80 DG OP2 HOP2 sing N N 81 DG "O5'" "C5'" sing N N 82 DG "C5'" "C4'" sing N N 83 DG "C5'" "H5'" sing N N 84 DG "C5'" "H5''" sing N N 85 DG "C4'" "O4'" sing N N 86 DG "C4'" "C3'" sing N N 87 DG "C4'" "H4'" sing N N 88 DG "O4'" "C1'" sing N N 89 DG "C3'" "O3'" sing N N 90 DG "C3'" "C2'" sing N N 91 DG "C3'" "H3'" sing N N 92 DG "O3'" "HO3'" sing N N 93 DG "C2'" "C1'" sing N N 94 DG "C2'" "H2'" sing N N 95 DG "C2'" "H2''" sing N N 96 DG "C1'" N9 sing N N 97 DG "C1'" "H1'" sing N N 98 DG N9 C8 sing Y N 99 DG N9 C4 sing Y N 100 DG C8 N7 doub Y N 101 DG C8 H8 sing N N 102 DG N7 C5 sing Y N 103 DG C5 C6 sing N N 104 DG C5 C4 doub Y N 105 DG C6 O6 doub N N 106 DG C6 N1 sing N N 107 DG N1 C2 sing N N 108 DG N1 H1 sing N N 109 DG C2 N2 sing N N 110 DG C2 N3 doub N N 111 DG N2 H21 sing N N 112 DG N2 H22 sing N N 113 DG N3 C4 sing N N 114 DT OP3 P sing N N 115 DT OP3 HOP3 sing N N 116 DT P OP1 doub N N 117 DT P OP2 sing N N 118 DT P "O5'" sing N N 119 DT OP2 HOP2 sing N N 120 DT "O5'" "C5'" sing N N 121 DT "C5'" "C4'" sing N N 122 DT "C5'" "H5'" sing N N 123 DT "C5'" "H5''" sing N N 124 DT "C4'" "O4'" sing N N 125 DT "C4'" "C3'" sing N N 126 DT "C4'" "H4'" sing N N 127 DT "O4'" "C1'" sing N N 128 DT "C3'" "O3'" sing N N 129 DT "C3'" "C2'" sing N N 130 DT "C3'" "H3'" sing N N 131 DT "O3'" "HO3'" sing N N 132 DT "C2'" "C1'" sing N N 133 DT "C2'" "H2'" sing N N 134 DT "C2'" "H2''" sing N N 135 DT "C1'" N1 sing N N 136 DT "C1'" "H1'" sing N N 137 DT N1 C2 sing N N 138 DT N1 C6 sing N N 139 DT C2 O2 doub N N 140 DT C2 N3 sing N N 141 DT N3 C4 sing N N 142 DT N3 H3 sing N N 143 DT C4 O4 doub N N 144 DT C4 C5 sing N N 145 DT C5 C7 sing N N 146 DT C5 C6 doub N N 147 DT C7 H71 sing N N 148 DT C7 H72 sing N N 149 DT C7 H73 sing N N 150 DT C6 H6 sing N N 151 HOH O H1 sing N N 152 HOH O H2 sing N N 153 NH2 N HN1 sing N N 154 NH2 N HN2 sing N N 155 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1VTY 'double helix' 1VTY 'z-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 6 1_555 0.522 -0.283 -0.175 0.737 3.639 -2.617 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DC 3 1_555 B DG 4 1_555 -0.518 -0.430 0.229 2.531 1.296 4.049 2 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.310 -0.121 0.107 -2.875 2.088 2.116 3 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A DG 6 1_555 B DC 1 1_555 -0.318 -0.226 0.088 6.870 2.008 0.335 4 A_DG6:DC7_B A 6 ? B 7 ? 19 1 # _ndb_struct_na_base_pair_step.model_number 1 _ndb_struct_na_base_pair_step.i_label_asym_id_1 A _ndb_struct_na_base_pair_step.i_label_comp_id_1 DC _ndb_struct_na_base_pair_step.i_label_seq_id_1 3 _ndb_struct_na_base_pair_step.i_symmetry_1 1_555 _ndb_struct_na_base_pair_step.j_label_asym_id_1 B _ndb_struct_na_base_pair_step.j_label_comp_id_1 DG _ndb_struct_na_base_pair_step.j_label_seq_id_1 4 _ndb_struct_na_base_pair_step.j_symmetry_1 1_555 _ndb_struct_na_base_pair_step.i_label_asym_id_2 A _ndb_struct_na_base_pair_step.i_label_comp_id_2 DG _ndb_struct_na_base_pair_step.i_label_seq_id_2 4 _ndb_struct_na_base_pair_step.i_symmetry_2 1_555 _ndb_struct_na_base_pair_step.j_label_asym_id_2 B _ndb_struct_na_base_pair_step.j_label_comp_id_2 DC _ndb_struct_na_base_pair_step.j_label_seq_id_2 3 _ndb_struct_na_base_pair_step.j_symmetry_2 1_555 _ndb_struct_na_base_pair_step.shift -0.077 _ndb_struct_na_base_pair_step.slide 5.270 _ndb_struct_na_base_pair_step.rise 3.674 _ndb_struct_na_base_pair_step.tilt -0.235 _ndb_struct_na_base_pair_step.roll 0.636 _ndb_struct_na_base_pair_step.twist -7.738 _ndb_struct_na_base_pair_step.x_displacement -40.988 _ndb_struct_na_base_pair_step.y_displacement -1.343 _ndb_struct_na_base_pair_step.helical_rise 3.226 _ndb_struct_na_base_pair_step.inclination -4.703 _ndb_struct_na_base_pair_step.tip -1.739 _ndb_struct_na_base_pair_step.helical_twist -7.768 _ndb_struct_na_base_pair_step.step_number 1 _ndb_struct_na_base_pair_step.step_name AA_DC3DG4:DC9DG10_BB _ndb_struct_na_base_pair_step.i_auth_asym_id_1 A _ndb_struct_na_base_pair_step.i_auth_seq_id_1 3 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 ? _ndb_struct_na_base_pair_step.j_auth_asym_id_1 B _ndb_struct_na_base_pair_step.j_auth_seq_id_1 10 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 ? _ndb_struct_na_base_pair_step.i_auth_asym_id_2 A _ndb_struct_na_base_pair_step.i_auth_seq_id_2 4 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 ? _ndb_struct_na_base_pair_step.j_auth_asym_id_2 B _ndb_struct_na_base_pair_step.j_auth_seq_id_2 9 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 ? # _atom_sites.entry_id 1VTY _atom_sites.fract_transf_matrix[1][1] 0.055991 _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] 0.032216 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.022341 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C MG N O P # loop_