data_1PYJ # _entry.id 1PYJ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 1PYJ pdb_00001pyj 10.2210/pdb1pyj/pdb RCSB RCSB019700 ? ? WWPDB D_1000019700 ? ? # 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 2004-04-20 2 'Structure model' 1 1 2008-04-29 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2014-08-06 5 'Structure model' 1 4 2024-05-01 # _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' 'Non-polymer description' 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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 5 'Structure model' pdbx_nmr_software 5 5 'Structure model' struct_conn # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_pdbx_nmr_software.name' 4 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1PYJ _pdbx_database_status.recvd_initial_deposition_date 2003-07-09 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Peterson, L.A.' 1 'Vu, C.' 2 'Hingerty, B.E.' 3 'Broyde, S.' 4 'Cosman, M.' 5 # _citation.id primary _citation.title ;Solution structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11 mer DNA duplex: evidence for formation of a base triplex. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 42 _citation.page_first 13134 _citation.page_last 13144 _citation.year 2003 _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 14609323 _citation.pdbx_database_id_DOI 10.1021/bi035217v # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Peterson, L.A.' 1 ? primary 'Vu, C.' 2 ? primary 'Hingerty, B.E.' 3 ? primary 'Broyde, S.' 4 ? primary 'Cosman, M.' 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 "5'-D(*CP*CP*AP*TP*AP*TP*GP*GP*CP*CP*C)-3'" 3441.336 1 ? ? ? ? 2 polymer syn "5'-D*GP*GP*GP*CP*CP*AP*TP*AP*TP*GP*G)-3'" 3414.234 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 yes '(DC)(DC)(DA)(DT)(DA)(DT)(XPB)(DG)(DC)(DC)(DC)' CCATATXGCCC A ? 2 polydeoxyribonucleotide no no '(DG)(DG)(DG)(DC)(DC)(DA)(DT)(DA)(DT)(DG)(DG)' GGGCCATATGG 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 DA n 1 4 DT n 1 5 DA n 1 6 DT n 1 7 XPB n 1 8 DG n 1 9 DC n 1 10 DC n 1 11 DC n 2 1 DG n 2 2 DG n 2 3 DG n 2 4 DC n 2 5 DC n 2 6 DA n 2 7 DT n 2 8 DA n 2 9 DT n 2 10 DG n 2 11 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 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 XPB 'DNA linking' n "O6-[4-oxo-4-(3-pyridyl)butyl]-2'-deoxyguanosine-5'-monophosphate" ? 'C19 H23 N6 O8 P' 494.395 # 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 DC 2 2 2 DC C A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DT 4 4 4 DT T A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 XPB 7 7 7 XPB +G A . n A 1 8 DG 8 8 8 DG G A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DC 10 10 10 DC C A . n A 1 11 DC 11 11 11 DC C A . n B 2 1 DG 1 12 12 DG G B . n B 2 2 DG 2 13 13 DG G B . n B 2 3 DG 3 14 14 DG G B . n B 2 4 DC 4 15 15 DC C B . n B 2 5 DC 5 16 16 DC C B . n B 2 6 DA 6 17 17 DA A B . n B 2 7 DT 7 18 18 DT T B . n B 2 8 DA 8 19 19 DA A B . n B 2 9 DT 9 20 20 DT T B . n B 2 10 DG 10 21 21 DG G B . n B 2 11 DG 11 22 22 DG G B . n # _cell.entry_id 1PYJ _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PYJ _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _exptl.entry_id 1PYJ _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 ? # _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 # _database_PDB_matrix.entry_id 1PYJ _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 1PYJ _struct.title 'Solution Structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11mer DNA duplex' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 1PYJ _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DNA Adduct, 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 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 1PYJ 1PYJ 1 'CCATAT(XPB)GCCC' ? 2 2 PDB 1PYJ 1PYJ 12 GGGCCATATGG ? # 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 1PYJ A 1 ? 11 ? 1PYJ 1 ? 11 ? 1 11 2 2 1PYJ B 1 ? 11 ? 1PYJ 12 ? 22 ? 12 22 # _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 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DT 6 "O3'" ? ? ? 1_555 A XPB 7 P ? ? A DT 6 A XPB 7 1_555 ? ? ? ? ? ? ? 1.599 ? ? covale2 covale both ? A XPB 7 "O3'" ? ? ? 1_555 A DG 8 P ? ? A XPB 7 A DG 8 1_555 ? ? ? ? ? ? ? 1.600 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 11 N1 ? ? A DC 1 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 11 O6 ? ? A DC 1 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 11 N2 ? ? A DC 1 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 2 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 2 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 2 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 B DT 9 N3 ? ? A DA 3 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 B DT 9 O4 ? ? A DA 3 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 8 N1 ? ? A DT 4 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 8 N6 ? ? A DT 4 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 5 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 5 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 6 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 6 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 8 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 8 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 8 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 8 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 8 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 8 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 9 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 9 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 9 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 11 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 11 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 11 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # 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 C8 A DG 8 ? ? N9 A DG 8 ? ? 1.329 1.374 -0.045 0.007 N 2 1 C8 B DG 12 ? ? N9 B DG 12 ? ? 1.331 1.374 -0.043 0.007 N 3 1 C8 B DG 13 ? ? N9 B DG 13 ? ? 1.330 1.374 -0.044 0.007 N 4 1 C8 B DG 14 ? ? N9 B DG 14 ? ? 1.329 1.374 -0.045 0.007 N 5 1 C8 B DG 21 ? ? N9 B DG 21 ? ? 1.331 1.374 -0.043 0.007 N 6 1 C8 B DG 22 ? ? N9 B DG 22 ? ? 1.330 1.374 -0.044 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 OP1 A DC 2 ? ? P A DC 2 ? ? OP2 A DC 2 ? ? 109.35 119.60 -10.25 1.50 N 2 1 OP1 A DA 3 ? ? P A DA 3 ? ? OP2 A DA 3 ? ? 109.33 119.60 -10.27 1.50 N 3 1 OP1 A DT 4 ? ? P A DT 4 ? ? OP2 A DT 4 ? ? 109.34 119.60 -10.26 1.50 N 4 1 OP1 A DA 5 ? ? P A DA 5 ? ? OP2 A DA 5 ? ? 109.38 119.60 -10.22 1.50 N 5 1 OP1 A DT 6 ? ? P A DT 6 ? ? OP2 A DT 6 ? ? 109.39 119.60 -10.21 1.50 N 6 1 OP1 A DG 8 ? ? P A DG 8 ? ? OP2 A DG 8 ? ? 109.31 119.60 -10.29 1.50 N 7 1 C4 A DG 8 ? ? C5 A DG 8 ? ? N7 A DG 8 ? ? 106.99 110.80 -3.81 0.40 N 8 1 C5 A DG 8 ? ? N7 A DG 8 ? ? C8 A DG 8 ? ? 107.99 104.30 3.69 0.50 N 9 1 N7 A DG 8 ? ? C8 A DG 8 ? ? N9 A DG 8 ? ? 110.01 113.10 -3.09 0.50 N 10 1 OP1 A DC 9 ? ? P A DC 9 ? ? OP2 A DC 9 ? ? 109.36 119.60 -10.24 1.50 N 11 1 OP1 A DC 10 ? ? P A DC 10 ? ? OP2 A DC 10 ? ? 109.34 119.60 -10.26 1.50 N 12 1 OP1 A DC 11 ? ? P A DC 11 ? ? OP2 A DC 11 ? ? 109.37 119.60 -10.23 1.50 N 13 1 C4 B DG 12 ? ? C5 B DG 12 ? ? N7 B DG 12 ? ? 107.03 110.80 -3.77 0.40 N 14 1 C5 B DG 12 ? ? N7 B DG 12 ? ? C8 B DG 12 ? ? 108.03 104.30 3.73 0.50 N 15 1 N7 B DG 12 ? ? C8 B DG 12 ? ? N9 B DG 12 ? ? 109.94 113.10 -3.16 0.50 N 16 1 OP1 B DG 13 ? ? P B DG 13 ? ? OP2 B DG 13 ? ? 109.37 119.60 -10.23 1.50 N 17 1 C4 B DG 13 ? ? C5 B DG 13 ? ? N7 B DG 13 ? ? 106.99 110.80 -3.81 0.40 N 18 1 C5 B DG 13 ? ? N7 B DG 13 ? ? C8 B DG 13 ? ? 107.98 104.30 3.68 0.50 N 19 1 N7 B DG 13 ? ? C8 B DG 13 ? ? N9 B DG 13 ? ? 109.97 113.10 -3.13 0.50 N 20 1 OP1 B DG 14 ? ? P B DG 14 ? ? OP2 B DG 14 ? ? 109.37 119.60 -10.23 1.50 N 21 1 C4 B DG 14 ? ? C5 B DG 14 ? ? N7 B DG 14 ? ? 107.02 110.80 -3.78 0.40 N 22 1 C5 B DG 14 ? ? N7 B DG 14 ? ? C8 B DG 14 ? ? 108.03 104.30 3.73 0.50 N 23 1 N7 B DG 14 ? ? C8 B DG 14 ? ? N9 B DG 14 ? ? 109.97 113.10 -3.13 0.50 N 24 1 OP1 B DC 15 ? ? P B DC 15 ? ? OP2 B DC 15 ? ? 109.34 119.60 -10.26 1.50 N 25 1 OP1 B DC 16 ? ? P B DC 16 ? ? OP2 B DC 16 ? ? 109.35 119.60 -10.25 1.50 N 26 1 OP1 B DA 17 ? ? P B DA 17 ? ? OP2 B DA 17 ? ? 109.34 119.60 -10.26 1.50 N 27 1 OP1 B DT 18 ? ? P B DT 18 ? ? OP2 B DT 18 ? ? 109.33 119.60 -10.27 1.50 N 28 1 OP1 B DA 19 ? ? P B DA 19 ? ? OP2 B DA 19 ? ? 109.36 119.60 -10.24 1.50 N 29 1 OP1 B DT 20 ? ? P B DT 20 ? ? OP2 B DT 20 ? ? 109.34 119.60 -10.26 1.50 N 30 1 OP1 B DG 21 ? ? P B DG 21 ? ? OP2 B DG 21 ? ? 109.33 119.60 -10.27 1.50 N 31 1 C4 B DG 21 ? ? C5 B DG 21 ? ? N7 B DG 21 ? ? 107.01 110.80 -3.79 0.40 N 32 1 C5 B DG 21 ? ? N7 B DG 21 ? ? C8 B DG 21 ? ? 108.04 104.30 3.74 0.50 N 33 1 N7 B DG 21 ? ? C8 B DG 21 ? ? N9 B DG 21 ? ? 109.98 113.10 -3.12 0.50 N 34 1 OP1 B DG 22 ? ? P B DG 22 ? ? OP2 B DG 22 ? ? 109.35 119.60 -10.25 1.50 N 35 1 C4 B DG 22 ? ? C5 B DG 22 ? ? N7 B DG 22 ? ? 106.96 110.80 -3.84 0.40 N 36 1 C5 B DG 22 ? ? N7 B DG 22 ? ? C8 B DG 22 ? ? 108.00 104.30 3.70 0.50 N 37 1 N7 B DG 22 ? ? C8 B DG 22 ? ? N9 B DG 22 ? ? 110.02 113.10 -3.08 0.50 N # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id XPB _pdbx_struct_mod_residue.label_seq_id 7 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id XPB _pdbx_struct_mod_residue.auth_seq_id 7 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DG _pdbx_struct_mod_residue.details ? # _pdbx_nmr_ensemble.entry_id 1PYJ _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 1PYJ _pdbx_nmr_representative.conformer_id ? _pdbx_nmr_representative.selection_criteria 'minimized average structure' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '1 mM [POB]dG-dC 11mer duplex adduct in 600 ul 10 mM sodium phosphate, 0.1 M NaCl, 0.1 mM EDTA, pH7.0' _pdbx_nmr_sample_details.solvent_system '100% D2O and 90% H2O, 10% D2O' # _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 7.00 _pdbx_nmr_exptl_sample_conditions.ionic_strength '0.1 M NaCl' _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_exptl.experiment_id 1 _pdbx_nmr_exptl.solution_id 1 _pdbx_nmr_exptl.conditions_id 1 _pdbx_nmr_exptl.type '2D NOESY' # _pdbx_nmr_details.entry_id 1PYJ _pdbx_nmr_details.text 'This structure was determined using standard 2D homonuclear techniques' # _pdbx_nmr_refine.entry_id 1PYJ _pdbx_nmr_refine.method 'molecular mechanics in torsion angle space' _pdbx_nmr_refine.details 'The structures are based on a total of 325 restraints (271 DNA-DNA, 22 POB-DNA, 5 POB-POB, 29 H-bonds).' _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal VNMR 6.1C collection Varian 1 Felix 97 'data analysis' Acceryls 2 DUPLEX ? 'structure solution' 'Hingerty and Broyde' 3 DUPLEX ? refinement 'Hingerty and Broyde' 4 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 XPB C4 C Y N 144 XPB C5 C Y N 145 XPB C6 C Y N 146 XPB N1 N Y N 147 XPB C8 C Y N 148 XPB N2 N N N 149 XPB C10 C N N 150 XPB O6 O N N 151 XPB C11 C N N 152 XPB C12 C N N 153 XPB N3 N Y N 154 XPB C13 C N N 155 XPB C14 C Y N 156 XPB C15 C Y N 157 XPB P P N N 158 XPB OP1 O N N 159 XPB OP2 O N N 160 XPB "O5'" O N N 161 XPB "C5'" C N N 162 XPB "C4'" C N R 163 XPB "O4'" O N N 164 XPB "C3'" C N S 165 XPB "O3'" O N N 166 XPB "C2'" C N N 167 XPB "C1'" C N R 168 XPB N9 N Y N 169 XPB N7 N Y N 170 XPB C2 C Y N 171 XPB C16 C Y N 172 XPB C17 C Y N 173 XPB "N1'" N Y N 174 XPB C18 C Y N 175 XPB O13 O N N 176 XPB H8 H N N 177 XPB H22 H N N 178 XPB H21 H N N 179 XPB H10 H N N 180 XPB H7 H N N 181 XPB H11 H N N 182 XPB H9 H N N 183 XPB H12 H N N 184 XPB H13 H N N 185 XPB H15 H N N 186 XPB H2 H N N 187 XPB "H5'" H N N 188 XPB "H5''" H N N 189 XPB "H4'" H N N 190 XPB "H3'" H N N 191 XPB H3 H N N 192 XPB "H2''" H N N 193 XPB "H2'" H N N 194 XPB "H1'" H N N 195 XPB H16 H N N 196 XPB H17 H N N 197 XPB H18 H N N 198 XPB OP3 O N N 199 XPB H1 H N N 200 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 XPB "O3'" "C3'" sing N N 150 XPB "C3'" "C4'" sing N N 151 XPB "C3'" "C2'" sing N N 152 XPB "C4'" "C5'" sing N N 153 XPB "C4'" "O4'" sing N N 154 XPB "C5'" "O5'" sing N N 155 XPB "C2'" "C1'" sing N N 156 XPB "O4'" "C1'" sing N N 157 XPB OP1 P doub N N 158 XPB "C1'" N9 sing N N 159 XPB "O5'" P sing N N 160 XPB P OP2 sing N N 161 XPB N9 C4 sing Y N 162 XPB N9 C8 sing Y N 163 XPB N3 C4 sing Y N 164 XPB N3 C2 doub Y N 165 XPB N2 C2 sing N N 166 XPB C4 C5 doub Y N 167 XPB C8 N7 doub Y N 168 XPB C2 N1 sing Y N 169 XPB C5 N7 sing Y N 170 XPB C5 C6 sing Y N 171 XPB N1 C6 doub Y N 172 XPB C6 O6 sing N N 173 XPB O6 C10 sing N N 174 XPB C10 C11 sing N N 175 XPB C11 C12 sing N N 176 XPB O13 C13 doub N N 177 XPB C12 C13 sing N N 178 XPB C13 C14 sing N N 179 XPB C14 C15 doub Y N 180 XPB C14 C18 sing Y N 181 XPB C15 C16 sing Y N 182 XPB C18 "N1'" doub Y N 183 XPB C16 C17 doub Y N 184 XPB "N1'" C17 sing Y N 185 XPB C8 H8 sing N N 186 XPB N2 H22 sing N N 187 XPB N2 H21 sing N N 188 XPB C10 H10 sing N N 189 XPB C10 H7 sing N N 190 XPB C11 H11 sing N N 191 XPB C11 H9 sing N N 192 XPB C12 H12 sing N N 193 XPB C12 H13 sing N N 194 XPB C15 H15 sing N N 195 XPB OP2 H2 sing N N 196 XPB "C5'" "H5'" sing N N 197 XPB "C5'" "H5''" sing N N 198 XPB "C4'" "H4'" sing N N 199 XPB "C3'" "H3'" sing N N 200 XPB "O3'" H3 sing N N 201 XPB "C2'" "H2''" sing N N 202 XPB "C2'" "H2'" sing N N 203 XPB "C1'" "H1'" sing N N 204 XPB C16 H16 sing N N 205 XPB C17 H17 sing N N 206 XPB C18 H18 sing N N 207 XPB P OP3 sing N N 208 XPB OP3 H1 sing N N 209 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1PYJ 'double helix' 1PYJ 'b-form double helix' # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model INOVA _pdbx_nmr_spectrometer.field_strength 600 # _atom_sites.entry_id 1PYJ _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 # loop_