data_1XRW # _entry.id 1XRW # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 1XRW RCSB RCSB030695 WWPDB D_1000030695 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1XRW _pdbx_database_status.recvd_initial_deposition_date 2004-10-16 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Baruah, H.' 1 'Wright, M.W.' 2 'Bierbach, U.' 3 # _citation.id primary _citation.title 'Solution Structural Study of a DNA Duplex Containing the Guanine-N7 Adduct Formed by a Cytotoxic Platinum-Acridine Hybrid Agent' _citation.journal_abbrev Biochemistry _citation.journal_volume 44 _citation.page_first 6059 _citation.page_last 6070 _citation.year 2005 _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 15835895 _citation.pdbx_database_id_DOI 10.1021/bi050021b # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Baruah, H.' 1 primary 'Wright, M.W.' 2 primary 'Bierbach, U.' 3 # 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 "5'-D(*CP*CP*TP*CP*GP*TP*CP*C)-3'" 2338.543 1 ? ? ? ? 2 polymer syn "5'-D(*GP*GP*AP*CP*GP*AP*GP*G)-3'" 2516.667 1 ? ? ? ? 3 non-polymer syn '1-[2-(ACRIDIN-9-YLAMINO)ETHYL]-1,3-DIMETHYLTHIOUREA-PLATINUM(II)-ETHANE-1,2-DIAMINE' 580.627 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DC)(DC)(DT)(DC)(DG)(DT)(DC)(DC)' CCTCGTCC A ? 2 polydeoxyribonucleotide no no '(DG)(DG)(DA)(DC)(DG)(DA)(DG)(DG)' GGACGAGG B ? # 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 DC n 1 3 DT n 1 4 DC n 1 5 DG n 1 6 DT n 1 7 DC n 1 8 DC n 2 1 DG n 2 2 DG n 2 3 DA n 2 4 DC n 2 5 DG n 2 6 DA n 2 7 DG n 2 8 DG n # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 1XRW 1XRW ? ? ? 2 2 PDB 1XRW 1XRW ? ? ? # 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 1XRW A 1 ? 8 ? 1XRW 1 ? 8 ? 1 8 2 2 1XRW B 1 ? 8 ? 1XRW 1 ? 8 ? 1 8 # 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 2PT non-polymer . '1-[2-(ACRIDIN-9-YLAMINO)ETHYL]-1,3-DIMETHYLTHIOUREA-PLATINUM(II)-ETHANE-1,2-DIAMINE' ? 'C20 H29 N6 Pt S 3' 580.627 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 DQF-COSY 2 1 1 '2D TOCSY' 3 1 1 '2D NOESY' 4 1 1 '1H-31P COSY' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength '10 mM NaH2PO4, 10 mM NaCl' _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '3.5mM modified duplex, 10 mM phosphate buffer, 10mM NaCl, 100% D2O or 90% H2O/10% D2O' _pdbx_nmr_sample_details.solvent_system '100% D2O or 90% H2O/10% D2O' # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model DRX _pdbx_nmr_spectrometer.field_strength 500 # _pdbx_nmr_refine.entry_id 1XRW _pdbx_nmr_refine.method 'distance geometry, simulated annealing, molecular dynamics, matrix relaxation' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 1XRW _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? # _pdbx_nmr_representative.entry_id 1XRW _pdbx_nmr_representative.conformer_id ? _pdbx_nmr_representative.selection_criteria 'minimized average structure' # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal XWINNMR 2.6 processing Bruker 1 FELIX 2000 processing Accelrys 2 FELIX 2000 'data analysis' Accelrys 3 MARDIGRAS 3.2 'iterative matrix relaxation' 'James, T. L.' 4 DISCOVER 2000 refinement Accelrys 5 CORMA 5.2 'data analysis' 'James, T. L.' 6 # _exptl.entry_id 1XRW _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _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 # _struct.entry_id 1XRW _struct.title 'Solution Structure of a Platinum-Acridine Modified Octamer' _struct.pdbx_descriptor "5'-D(*CP*CP*TP*CP*GP*TP*CP*C)-3'/5'-D(*GP*GP*AP*CP*GP*AP*GP*G)-3" _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 1XRW _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'platinum, acridine, dual binding mode, major groove, unwinding, 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 ? # _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 metalc1 metalc ? ? A DG 5 N7 ? ? ? 1_555 C 2PT . PT ? ? A DG 5 B 2PT 20 1_555 ? ? ? ? ? ? ? 2.035 ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 8 N1 ? ? A DC 1 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 8 O6 ? ? A DC 1 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 8 N2 ? ? A DC 1 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 7 N1 ? ? A DC 2 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 7 O6 ? ? A DC 2 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 7 N2 ? ? A DC 2 B DG 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A DT 3 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 3 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A DT 3 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 3 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 4 B DG 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 4 B DG 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 4 B DG 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DA 3 N1 ? ? A DG 5 B DA 3 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? hydrog13 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DA 3 N6 ? ? A DG 5 B DA 3 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? hydrog14 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 5 B DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 5 B DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 5 B DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 3 N1 ? ? A DT 6 B DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 3 N6 ? ? A DT 6 B DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 7 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 7 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 7 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 8 B DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 8 B DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 8 B DG 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # 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 ? ? ? ? 5 'BINDING SITE FOR RESIDUE 2PT B 20' 1 ? ? ? ? ? ? ? # 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 DC A 4 ? DC A 4 . ? 1_555 ? 2 AC1 5 DG A 5 ? DG A 5 . ? 1_555 ? 3 AC1 5 DT A 6 ? DT A 6 . ? 1_555 ? 4 AC1 5 DC B 4 ? DC B 4 . ? 1_555 ? 5 AC1 5 DG B 5 ? DG B 5 . ? 1_555 ? # _database_PDB_matrix.entry_id 1XRW _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 # _atom_sites.entry_id 1XRW _atom_sites.fract_transf_matrix[1][1] 1.000000 _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] 1.000000 _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] 1.000000 _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 H N O P PT S # 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 CYT A . n A 1 2 DC 2 2 2 DC CYT A . n A 1 3 DT 3 3 3 DT THY A . n A 1 4 DC 4 4 4 DC CYT A . n A 1 5 DG 5 5 5 DG GUA A . n A 1 6 DT 6 6 6 DT THY A . n A 1 7 DC 7 7 7 DC CYT A . n A 1 8 DC 8 8 8 DC CYT A . n B 2 1 DG 1 1 1 DG GUA B . n B 2 2 DG 2 2 2 DG GUA B . n B 2 3 DA 3 3 3 DA ADE B . n B 2 4 DC 4 4 4 DC CYT B . n B 2 5 DG 5 5 5 DG GUA B . n B 2 6 DA 6 6 6 DA ADE B . n B 2 7 DG 7 7 7 DG GUA B . n B 2 8 DG 8 8 8 DG GUA B . n # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id 2PT _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 20 _pdbx_nonpoly_scheme.auth_seq_num 20 _pdbx_nonpoly_scheme.pdb_mon_id 2PT _pdbx_nonpoly_scheme.auth_mon_id ACR _pdbx_nonpoly_scheme.pdb_strand_id B _pdbx_nonpoly_scheme.pdb_ins_code . # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'covalent metal bonds' # _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 # _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_ _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 5 ? A DG 5 ? 1_555 PT ? C 2PT . ? B 2PT 20 ? 1_555 S ? C 2PT . ? B 2PT 20 ? 1_555 82.5 ? 2 N7 ? A DG 5 ? A DG 5 ? 1_555 PT ? C 2PT . ? B 2PT 20 ? 1_555 N5 ? C 2PT . ? B 2PT 20 ? 1_555 93.1 ? 3 S ? C 2PT . ? B 2PT 20 ? 1_555 PT ? C 2PT . ? B 2PT 20 ? 1_555 N5 ? C 2PT . ? B 2PT 20 ? 1_555 175.7 ? 4 N7 ? A DG 5 ? A DG 5 ? 1_555 PT ? C 2PT . ? B 2PT 20 ? 1_555 N4 ? C 2PT . ? B 2PT 20 ? 1_555 174.4 ? 5 S ? C 2PT . ? B 2PT 20 ? 1_555 PT ? C 2PT . ? B 2PT 20 ? 1_555 N4 ? C 2PT . ? B 2PT 20 ? 1_555 100.7 ? 6 N5 ? C 2PT . ? B 2PT 20 ? 1_555 PT ? C 2PT . ? B 2PT 20 ? 1_555 N4 ? C 2PT . ? B 2PT 20 ? 1_555 83.6 ? # 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 2005-05-03 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2016-04-20 # _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 ? # 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' 'Atomic model' 4 4 'Structure model' 'Non-polymer description' # 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 N1 A DG 5 ? ? C2 A DG 5 ? ? 1.463 1.373 0.090 0.008 N 2 1 C6 A DG 5 ? ? N1 A DG 5 ? ? 1.341 1.391 -0.050 0.007 N 3 1 C5 A DG 5 ? ? N7 A DG 5 ? ? 1.445 1.388 0.057 0.006 N 4 1 N7 A DG 5 ? ? C8 A DG 5 ? ? 1.437 1.305 0.132 0.006 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 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 112.43 108.30 4.13 0.30 N 2 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 111.17 108.30 2.87 0.30 N 3 1 "O4'" A DT 3 ? ? "C1'" A DT 3 ? ? N1 A DT 3 ? ? 110.27 108.30 1.97 0.30 N 4 1 "O4'" A DG 5 ? ? "C1'" A DG 5 ? ? N9 A DG 5 ? ? 112.14 108.30 3.84 0.30 N 5 1 C6 A DG 5 ? ? N1 A DG 5 ? ? C2 A DG 5 ? ? 120.79 125.10 -4.31 0.60 N 6 1 C5 A DG 5 ? ? C6 A DG 5 ? ? N1 A DG 5 ? ? 116.49 111.50 4.99 0.50 N 7 1 C4 A DG 5 ? ? C5 A DG 5 ? ? N7 A DG 5 ? ? 115.38 110.80 4.58 0.40 N 8 1 C5 A DG 5 ? ? N7 A DG 5 ? ? C8 A DG 5 ? ? 98.12 104.30 -6.18 0.50 N 9 1 C8 A DG 5 ? ? N9 A DG 5 ? ? C4 A DG 5 ? ? 108.80 106.40 2.40 0.40 N 10 1 C6 A DG 5 ? ? C5 A DG 5 ? ? N7 A DG 5 ? ? 125.47 130.40 -4.93 0.60 N 11 1 "C3'" A DG 5 ? ? "O3'" A DG 5 ? ? P A DT 6 ? ? 111.25 119.70 -8.45 1.20 Y 12 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 113.13 108.30 4.83 0.30 N 13 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.43 108.30 2.13 0.30 N 14 1 "O4'" B DG 1 ? ? "C1'" B DG 1 ? ? N9 B DG 1 ? ? 111.69 108.30 3.39 0.30 N 15 1 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 111.14 108.30 2.84 0.30 N 16 1 "O4'" B DG 5 ? ? "C1'" B DG 5 ? ? N9 B DG 5 ? ? 111.46 108.30 3.16 0.30 N 17 1 "O4'" B DA 6 ? ? "C1'" B DA 6 ? ? N9 B DA 6 ? ? 110.90 108.30 2.60 0.30 N 18 1 "O4'" B DG 7 ? ? "C1'" B DG 7 ? ? N9 B DG 7 ? ? 111.36 108.30 3.06 0.30 N 19 1 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.49 108.30 2.19 0.30 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DG _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 5 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.065 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1XRW 'double helix' 1XRW '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 B DG 8 1_555 0.833 -0.223 -0.015 -13.408 -5.488 -1.081 1 A_DC1:DG8_B A 1 ? B 8 ? 19 1 1 A DC 2 1_555 B DG 7 1_555 0.961 -0.291 0.189 -8.938 -0.757 -1.805 2 A_DC2:DG7_B A 2 ? B 7 ? 19 1 1 A DT 3 1_555 B DA 6 1_555 0.389 -0.097 -0.244 3.126 -7.215 -0.053 3 A_DT3:DA6_B A 3 ? B 6 ? 20 1 1 A DC 4 1_555 B DG 5 1_555 0.096 0.004 -0.653 17.720 -3.853 -3.503 4 A_DC4:DG5_B A 4 ? B 5 ? 19 1 1 A DG 5 1_555 B DC 4 1_555 0.089 -0.039 0.418 -18.501 -10.784 -2.942 5 A_DG5:DC4_B A 5 ? B 4 ? 19 1 1 A DT 6 1_555 B DA 3 1_555 -0.763 0.199 0.277 8.057 -11.855 -12.965 6 A_DT6:DA3_B A 6 ? B 3 ? 20 1 1 A DC 7 1_555 B DG 2 1_555 0.884 -0.328 0.063 8.757 -23.218 -2.130 7 A_DC7:DG2_B A 7 ? B 2 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 -0.004 -0.092 0.544 -2.727 -16.298 -4.761 8 A_DC8:DG1_B A 8 ? B 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 B DG 8 1_555 A DC 2 1_555 B DG 7 1_555 -0.122 -1.586 3.041 1.274 3.120 31.440 -3.433 0.438 2.867 5.737 -2.342 31.615 1 AA_DC1DC2:DG7DG8_BB A 1 ? B 8 ? A 2 ? B 7 ? 1 A DC 2 1_555 B DG 7 1_555 A DT 3 1_555 B DA 6 1_555 -0.012 -1.428 2.809 5.086 1.523 27.448 -3.263 1.049 2.682 3.172 -10.594 27.947 2 AA_DC2DT3:DA6DG7_BB A 2 ? B 7 ? A 3 ? B 6 ? 1 A DT 3 1_555 B DA 6 1_555 A DC 4 1_555 B DG 5 1_555 -0.259 -1.079 2.859 2.252 4.434 28.902 -2.942 0.923 2.640 8.800 -4.470 29.318 3 AA_DT3DC4:DG5DA6_BB A 3 ? B 6 ? A 4 ? B 5 ? 1 A DG 5 1_555 B DC 4 1_555 A DT 6 1_555 B DA 3 1_555 -0.062 -0.664 2.598 3.735 -1.147 23.372 -1.313 1.138 2.585 -2.805 -9.137 23.692 4 AA_DG5DT6:DA3DC4_BB A 5 ? B 4 ? A 6 ? B 3 ? 1 A DT 6 1_555 B DA 3 1_555 A DC 7 1_555 B DG 2 1_555 0.392 -1.003 3.086 1.346 -2.196 43.576 -1.148 -0.404 3.141 -2.955 -1.811 43.648 5 AA_DT6DC7:DG2DA3_BB A 6 ? B 3 ? A 7 ? B 2 ? 1 A DC 7 1_555 B DG 2 1_555 A DC 8 1_555 B DG 1 1_555 -0.048 -1.342 3.305 -3.549 6.459 31.621 -3.503 -0.520 2.968 11.655 6.404 32.447 6 AA_DC7DC8:DG1DG2_BB A 7 ? B 2 ? A 8 ? B 1 ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name '1-[2-(ACRIDIN-9-YLAMINO)ETHYL]-1,3-DIMETHYLTHIOUREA-PLATINUM(II)-ETHANE-1,2-DIAMINE' _pdbx_entity_nonpoly.comp_id 2PT #