data_211D # _entry.id 211D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 211D pdb_0000211d 10.2210/pdb211d/pdb RCSB ZDFB42 ? ? WWPDB D_1000177569 ? ? # 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 1996-03-22 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-04-18 5 'Structure model' 1 4 2024-02-14 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' diffrn_detector 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' struct_conn 6 5 'Structure model' struct_conn_type 7 5 '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 4 'Structure model' '_diffrn_detector.detector' 2 5 'Structure model' '_database_2.pdbx_DOI' 3 5 'Structure model' '_database_2.pdbx_database_accession' 4 5 'Structure model' '_struct_conn.conn_type_id' 5 5 'Structure model' '_struct_conn.id' 6 5 'Structure model' '_struct_conn.pdbx_dist_value' 7 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 8 5 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 9 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 10 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 11 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 12 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 13 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 14 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 15 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 16 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 17 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 18 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 19 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 20 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 21 5 'Structure model' '_struct_conn_type.id' 22 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 23 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 24 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 211D _pdbx_database_status.recvd_initial_deposition_date 1995-06-13 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Parkinson, G.N.' 1 'Arvantis, G.M.' 2 'Lessinger, L.' 3 'Ginell, S.L.' 4 'Jones, R.' 5 'Gaffney, B.' 6 'Berman, H.M.' 7 # _citation.id primary _citation.title 'Crystal and molecular structure of a new Z-DNA crystal form: d[CGT(2-NH2-A)CG] and its platinated derivative.' _citation.journal_abbrev Biochemistry _citation.journal_volume 34 _citation.page_first 15487 _citation.page_last 15495 _citation.year 1995 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 7492550 _citation.pdbx_database_id_DOI 10.1021/bi00047a014 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Parkinson, G.N.' 1 ? primary 'Arvanitis, G.M.' 2 ? primary 'Lessinger, L.' 3 ? primary 'Ginell, S.L.' 4 ? primary 'Jones, R.' 5 ? primary 'Gaffney, B.' 6 ? primary 'Berman, H.M.' 7 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*CP*GP*TP*(1AP)P*CP*(PT(NH3)3)G)-3') ; 1824.231 1 ? ? ? ? 2 non-polymer syn 'PLATINUM TRIAMINE ION' 246.170 1 ? ? ? ? 3 non-polymer syn SPERMINE 202.340 1 ? ? ? ? 4 water nat water 18.015 23 ? ? ? ? # _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)(DG)(DT)(1AP)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGTACG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PLATINUM TRIAMINE ION' PTN 3 SPERMINE SPM 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 DG n 1 3 DT n 1 4 1AP n 1 5 DC n 1 6 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 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 PTN non-polymer . 'PLATINUM TRIAMINE ION' ? 'H9 N3 Pt 2' 246.170 SPM non-polymer . SPERMINE ? 'C10 H26 N4' 202.340 # 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 DT 3 3 3 DT T A . n A 1 4 1AP 4 4 4 1AP +A A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG +G A . 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 B 2 PTN 1 7 6 PTN G A . C 3 SPM 1 8 7 SPM SPM A . D 4 HOH 1 9 8 HOH HOH A . D 4 HOH 2 10 9 HOH HOH A . D 4 HOH 3 11 10 HOH HOH A . D 4 HOH 4 12 11 HOH HOH A . D 4 HOH 5 13 12 HOH HOH A . D 4 HOH 6 14 13 HOH HOH A . D 4 HOH 7 15 14 HOH HOH A . D 4 HOH 8 16 15 HOH HOH A . D 4 HOH 9 17 16 HOH HOH A . D 4 HOH 10 18 17 HOH HOH A . D 4 HOH 11 19 18 HOH HOH A . D 4 HOH 12 20 19 HOH HOH A . D 4 HOH 13 21 20 HOH HOH A . D 4 HOH 14 22 21 HOH HOH A . D 4 HOH 15 23 22 HOH HOH A . D 4 HOH 16 24 23 HOH HOH A . D 4 HOH 17 25 24 HOH HOH A . D 4 HOH 18 26 25 HOH HOH A . D 4 HOH 19 27 26 HOH HOH A . D 4 HOH 20 28 27 HOH HOH A . D 4 HOH 21 29 28 HOH HOH A . D 4 HOH 22 30 29 HOH HOH A . D 4 HOH 23 31 30 HOH HOH A . # _software.name X-PLOR _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 211D _cell.length_a 25.193 _cell.length_b 25.193 _cell.length_c 38.948 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 211D _symmetry.space_group_name_H-M 'P 32 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 # _exptl.entry_id 211D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas 1.4500 _exptl_crystal.density_Matthews 1.89 _exptl_crystal.density_percent_sol 34.91 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 1 MGCL2 ? ? ? 1 5 1 'NA CACODYLATE' ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 277.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'ENRAF-NONIUS CAD4' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'ELLIOTT GX-21' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 211D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.000 _reflns.d_resolution_low ? _reflns.d_resolution_high 1.600 _reflns.number_obs 1741 _reflns.number_all 2129 _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 211D _refine.ls_number_reflns_obs 1583 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 4.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 12.000 _refine.ls_d_res_high 1.600 _refine.ls_percent_reflns_obs 70.400 _refine.ls_R_factor_obs 0.17 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.17 _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 123 _refine_hist.pdbx_number_atoms_ligand 19 _refine_hist.number_atoms_solvent 23 _refine_hist.number_atoms_total 165 _refine_hist.d_res_high 1.600 _refine_hist.d_res_low 12.000 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function x_bond_d 0.009 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 1.66 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 211D _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 211D _struct.title 'THE CRYSTAL AND MOLECULAR STRUCTURE OF A NEW Z-DNA CRYSTAL FORM: D[CGT(2-NH2-A) CG] AND ITS PLATINATED DERIVATIVE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 211D _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 2 ? C N N 3 ? D N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 211D _struct_ref.pdbx_db_accession 211D _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 211D _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 211D _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 6 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 6 # _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 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5000000000 0.8660254038 0.0000000000 0.0000000000 0.8660254038 0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 38.9480000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DT 3 "O3'" ? ? ? 1_555 A 1AP 4 P ? ? A DT 3 A 1AP 4 1_555 ? ? ? ? ? ? ? 1.615 ? ? covale2 covale one ? A 1AP 4 "O3'" ? ? ? 1_555 A DC 5 P A ? A 1AP 4 A DC 5 1_555 ? ? ? ? ? ? ? 1.688 ? ? covale3 covale one ? A 1AP 4 "O3'" ? ? ? 1_555 A DC 5 P B ? A 1AP 4 A DC 5 1_555 ? ? ? ? ? ? ? 1.589 ? ? metalc1 metalc ? ? A DG 6 N7 ? ? ? 1_555 B PTN . PT ? ? A DG 6 A PTN 7 1_555 ? ? ? ? ? ? ? 2.245 ? ? metalc2 metalc ? ? A DG 6 C8 ? ? ? 1_555 B PTN . PT ? ? A DG 6 A PTN 7 1_555 ? ? ? ? ? ? ? 3.079 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 1 A DG 6 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 1 A DG 6 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 1 A DG 6 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 2 A DC 5 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 2 A DC 5 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 2 A DC 5 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DT 3 O2 ? ? ? 1_555 A 1AP 4 N2 ? ? A DT 3 A 1AP 4 4_556 ? ? ? ? ? ? 'DT-1AP MISPAIR' ? ? ? hydrog8 hydrog ? ? A 1AP 4 N2 ? ? ? 1_555 A DT 3 O2 ? ? A 1AP 4 A DT 3 4_556 ? ? ? ? ? ? '1AP-DT MISPAIR' ? ? ? hydrog9 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 2 N1 ? ? A DC 5 A DG 2 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 2 O6 ? ? A DC 5 A DG 2 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 2 N2 ? ? A DC 5 A DG 2 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 1 N3 ? ? A DG 6 A DC 1 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 1 O2 ? ? A DG 6 A DC 1 4_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 1 N4 ? ? A DG 6 A DC 1 4_556 ? ? ? ? ? ? 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 N7 ? A DG 6 ? A DG 6 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 N1 ? B PTN . ? A PTN 7 ? 1_555 87.6 ? 2 N7 ? A DG 6 ? A DG 6 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 N2 ? B PTN . ? A PTN 7 ? 1_555 91.6 ? 3 N1 ? B PTN . ? A PTN 7 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 N2 ? B PTN . ? A PTN 7 ? 1_555 179.1 ? 4 N7 ? A DG 6 ? A DG 6 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 N3 ? B PTN . ? A PTN 7 ? 1_555 156.3 ? 5 N1 ? B PTN . ? A PTN 7 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 N3 ? B PTN . ? A PTN 7 ? 1_555 89.7 ? 6 N2 ? B PTN . ? A PTN 7 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 N3 ? B PTN . ? A PTN 7 ? 1_555 91.1 ? 7 N7 ? A DG 6 ? A DG 6 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 C8 ? A DG 6 ? A DG 6 ? 1_555 22.1 ? 8 N1 ? B PTN . ? A PTN 7 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 C8 ? A DG 6 ? A DG 6 ? 1_555 99.5 ? 9 N2 ? B PTN . ? A PTN 7 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 C8 ? A DG 6 ? A DG 6 ? 1_555 79.6 ? 10 N3 ? B PTN . ? A PTN 7 ? 1_555 PT ? B PTN . ? A PTN 7 ? 1_555 C8 ? A DG 6 ? A DG 6 ? 1_555 169.6 ? # 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 PTN 7 ? 5 'BINDING SITE FOR RESIDUE PTN A 7' AC2 Software A SPM 8 ? 10 'BINDING SITE FOR RESIDUE SPM A 8' # 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 5 DG A 2 ? DG A 2 . ? 5_446 ? 2 AC1 5 DC A 5 ? DC A 5 . ? 1_555 ? 3 AC1 5 DG A 6 ? DG A 6 . ? 6_346 ? 4 AC1 5 DG A 6 ? DG A 6 . ? 1_555 ? 5 AC1 5 SPM C . ? SPM A 8 . ? 1_555 ? 6 AC2 10 DG A 2 ? DG A 2 . ? 3_545 ? 7 AC2 10 DT A 3 ? DT A 3 . ? 3_545 ? 8 AC2 10 1AP A 4 ? 1AP A 4 . ? 3_545 ? 9 AC2 10 DC A 5 ? DC A 5 . ? 1_555 ? 10 AC2 10 DG A 6 ? DG A 6 . ? 5_546 ? 11 AC2 10 PTN B . ? PTN A 7 . ? 1_555 ? 12 AC2 10 HOH D . ? HOH A 9 . ? 3_545 ? 13 AC2 10 HOH D . ? HOH A 12 . ? 3_545 ? 14 AC2 10 HOH D . ? HOH A 24 . ? 3_545 ? 15 AC2 10 HOH D . ? HOH A 31 . ? 3_545 ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 OP2 _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 DG _pdbx_validate_symm_contact.auth_seq_id_1 2 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 C3 _pdbx_validate_symm_contact.auth_asym_id_2 A _pdbx_validate_symm_contact.auth_comp_id_2 SPM _pdbx_validate_symm_contact.auth_seq_id_2 8 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 2_444 _pdbx_validate_symm_contact.dist 2.15 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 1AP _pdbx_validate_rmsd_bond.auth_seq_id_1 4 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 P _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DC _pdbx_validate_rmsd_bond.auth_seq_id_2 5 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 A _pdbx_validate_rmsd_bond.bond_value 1.688 _pdbx_validate_rmsd_bond.bond_target_value 1.607 _pdbx_validate_rmsd_bond.bond_deviation 0.081 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.012 _pdbx_validate_rmsd_bond.linker_flag Y # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "C3'" A 1AP 4 ? ? "O3'" A 1AP 4 ? ? P A DC 5 ? B 133.78 119.70 14.08 1.20 Y 2 1 "O3'" A 1AP 4 ? ? P A DC 5 ? A OP2 A DC 5 ? A 117.86 110.50 7.36 1.10 Y # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id 1AP _pdbx_struct_mod_residue.label_seq_id 4 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id 1AP _pdbx_struct_mod_residue.auth_seq_id 4 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DA _pdbx_struct_mod_residue.details '2,6-DIAMINOPURINE NUCLEOTIDE' # 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 PTN PT PT N N 149 PTN N1 N N N 150 PTN N2 N N N 151 PTN N3 N N N 152 PTN H11 H N N 153 PTN H12 H N N 154 PTN H13 H N N 155 PTN H21 H N N 156 PTN H22 H N N 157 PTN H23 H N N 158 PTN H31 H N N 159 PTN H32 H N N 160 PTN H33 H N N 161 SPM N1 N N N 162 SPM C2 C N N 163 SPM C3 C N N 164 SPM C4 C N N 165 SPM N5 N N N 166 SPM C6 C N N 167 SPM C7 C N N 168 SPM C8 C N N 169 SPM C9 C N N 170 SPM N10 N N N 171 SPM C11 C N N 172 SPM C12 C N N 173 SPM C13 C N N 174 SPM N14 N N N 175 SPM HN11 H N N 176 SPM HN12 H N N 177 SPM H21 H N N 178 SPM H22 H N N 179 SPM H31 H N N 180 SPM H32 H N N 181 SPM H41 H N N 182 SPM H42 H N N 183 SPM HN5 H N N 184 SPM H61 H N N 185 SPM H62 H N N 186 SPM H71 H N N 187 SPM H72 H N N 188 SPM H81 H N N 189 SPM H82 H N N 190 SPM H91 H N N 191 SPM H92 H N N 192 SPM HN0 H N N 193 SPM H111 H N N 194 SPM H112 H N N 195 SPM H121 H N N 196 SPM H122 H N N 197 SPM H131 H N N 198 SPM H132 H N N 199 SPM HN41 H N N 200 SPM HN42 H N N 201 # 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 PTN PT N1 sing N N 154 PTN PT N2 sing N N 155 PTN PT N3 sing N N 156 PTN N1 H11 sing N N 157 PTN N1 H12 sing N N 158 PTN N1 H13 sing N N 159 PTN N2 H21 sing N N 160 PTN N2 H22 sing N N 161 PTN N2 H23 sing N N 162 PTN N3 H31 sing N N 163 PTN N3 H32 sing N N 164 PTN N3 H33 sing N N 165 SPM N1 C2 sing N N 166 SPM N1 HN11 sing N N 167 SPM N1 HN12 sing N N 168 SPM C2 C3 sing N N 169 SPM C2 H21 sing N N 170 SPM C2 H22 sing N N 171 SPM C3 C4 sing N N 172 SPM C3 H31 sing N N 173 SPM C3 H32 sing N N 174 SPM C4 N5 sing N N 175 SPM C4 H41 sing N N 176 SPM C4 H42 sing N N 177 SPM N5 C6 sing N N 178 SPM N5 HN5 sing N N 179 SPM C6 C7 sing N N 180 SPM C6 H61 sing N N 181 SPM C6 H62 sing N N 182 SPM C7 C8 sing N N 183 SPM C7 H71 sing N N 184 SPM C7 H72 sing N N 185 SPM C8 C9 sing N N 186 SPM C8 H81 sing N N 187 SPM C8 H82 sing N N 188 SPM C9 N10 sing N N 189 SPM C9 H91 sing N N 190 SPM C9 H92 sing N N 191 SPM N10 C11 sing N N 192 SPM N10 HN0 sing N N 193 SPM C11 C12 sing N N 194 SPM C11 H111 sing N N 195 SPM C11 H112 sing N N 196 SPM C12 C13 sing N N 197 SPM C12 H121 sing N N 198 SPM C12 H122 sing N N 199 SPM C13 N14 sing N N 200 SPM C13 H131 sing N N 201 SPM C13 H132 sing N N 202 SPM N14 HN41 sing N N 203 SPM N14 HN42 sing N N 204 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 211D 'z-form double helix' 211D 'mismatched base pair' # 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 A DG 6 4_556 -0.524 -0.173 0.062 -1.926 -9.116 -2.357 1 A_DC1:DG6_A A 1 ? A 6 ? 19 1 1 A DG 2 1_555 A DC 5 4_556 0.271 -0.217 0.037 -6.410 -2.353 -0.546 2 A_DG2:DC5_A A 2 ? A 5 ? 19 1 1 A DT 3 1_555 A 1AP 4 4_556 0.006 -0.155 -0.090 7.511 -2.345 6.436 3 A_DT3:1AP4_A A 3 ? A 4 ? ? ? 1 A 1AP 4 1_555 A DT 3 4_556 -0.006 -0.155 -0.090 -7.511 -2.345 6.436 4 A_1AP4:DT3_A A 4 ? A 3 ? ? ? 1 A DC 5 1_555 A DG 2 4_556 -0.271 -0.217 0.037 6.410 -2.353 -0.546 5 A_DC5:DG2_A A 5 ? A 2 ? 19 1 1 A DG 6 1_555 A DC 1 4_556 0.524 -0.173 0.062 1.926 -9.116 -2.357 6 A_DG6:DC1_A A 6 ? A 1 ? 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 A DG 6 4_556 A DG 2 1_555 A DC 5 4_556 0.026 5.348 3.605 0.540 -6.682 -9.886 -11.653 1.262 5.971 34.095 2.755 -11.940 1 AA_DC1DG2:DC5DG6_AA A 1 ? A 6 ? A 2 ? A 5 ? 1 A DG 2 1_555 A DC 5 4_556 A DT 3 1_555 A 1AP 4 4_556 0.193 -1.345 3.180 1.593 -9.157 -41.807 2.695 0.413 2.829 12.645 2.200 -42.783 2 AA_DG2DT3:1AP4DC5_AA A 2 ? A 5 ? A 3 ? A 4 ? 1 A DT 3 1_555 A 1AP 4 4_556 A 1AP 4 1_555 A DT 3 4_556 0.000 5.271 3.728 0.000 -6.001 -7.844 -11.197 0.000 6.162 37.463 0.000 -9.873 3 AA_DT31AP4:DT31AP4_AA A 3 ? A 4 ? A 4 ? A 3 ? 1 A 1AP 4 1_555 A DT 3 4_556 A DC 5 1_555 A DG 2 4_556 -0.193 -1.345 3.180 -1.593 -9.157 -41.807 2.695 -0.413 2.829 12.645 -2.200 -42.783 4 AA_1AP4DC5:DG2DT3_AA A 4 ? A 3 ? A 5 ? A 2 ? 1 A DC 5 1_555 A DG 2 4_556 A DG 6 1_555 A DC 1 4_556 -0.026 5.348 3.605 -0.540 -6.682 -9.886 -11.653 -1.262 5.971 34.095 -2.755 -11.940 5 AA_DC5DG6:DC1DG2_AA A 5 ? A 2 ? A 6 ? A 1 ? # _atom_sites.entry_id 211D _atom_sites.fract_transf_matrix[1][1] 0.039694 _atom_sites.fract_transf_matrix[1][2] 0.022917 _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] 0.045834 _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] 0.025675 _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 PT # loop_