data_2HSS # _entry.id 2HSS # _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 2HSS pdb_00002hss 10.2210/pdb2hss/pdb RCSB RCSB038717 ? ? WWPDB D_1000038717 ? ? # 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 2007-05-29 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2014-07-09 5 'Structure model' 1 4 2018-08-08 6 'Structure model' 1 5 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' 'Derived calculations' 6 5 'Structure model' 'Experimental preparation' 7 5 'Structure model' 'Source and taxonomy' 8 6 'Structure model' 'Data collection' 9 6 'Structure model' 'Database references' 10 6 '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' ndb_struct_conf_na 2 5 'Structure model' ndb_struct_na_base_pair 3 5 'Structure model' pdbx_entity_src_syn 4 5 'Structure model' pdbx_nmr_ensemble 5 5 'Structure model' pdbx_nmr_exptl_sample 6 5 'Structure model' pdbx_nmr_exptl_sample_conditions 7 5 'Structure model' pdbx_nmr_sample_details 8 5 'Structure model' pdbx_nmr_software 9 5 'Structure model' pdbx_nmr_spectrometer 10 5 'Structure model' pdbx_struct_assembly_prop 11 5 'Structure model' pdbx_struct_oper_list 12 6 'Structure model' chem_comp_atom 13 6 'Structure model' chem_comp_bond 14 6 'Structure model' database_2 15 6 'Structure model' pdbx_nmr_software 16 6 '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' '_ndb_struct_na_base_pair.opening' 2 5 'Structure model' '_pdbx_nmr_ensemble.conformer_selection_criteria' 3 5 'Structure model' '_pdbx_nmr_ensemble.conformers_calculated_total_number' 4 5 'Structure model' '_pdbx_nmr_exptl_sample_conditions.ionic_strength_units' 5 5 'Structure model' '_pdbx_nmr_exptl_sample_conditions.label' 6 5 'Structure model' '_pdbx_nmr_exptl_sample_conditions.pH_units' 7 5 'Structure model' '_pdbx_nmr_sample_details.contents' 8 5 'Structure model' '_pdbx_nmr_sample_details.label' 9 5 'Structure model' '_pdbx_nmr_sample_details.solvent_system' 10 5 'Structure model' '_pdbx_nmr_sample_details.type' 11 5 'Structure model' '_pdbx_nmr_software.classification' 12 5 'Structure model' '_pdbx_nmr_spectrometer.manufacturer' 13 5 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' 14 6 'Structure model' '_database_2.pdbx_DOI' 15 6 'Structure model' '_database_2.pdbx_database_accession' 16 6 'Structure model' '_pdbx_nmr_software.name' 17 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2HSS _pdbx_database_status.recvd_initial_deposition_date 2006-07-22 _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 ? _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2HOU . unspecified PDB 2HPX . unspecified PDB 2HSK . unspecified PDB 2HSL . unspecified PDB 2HSR . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chen, J.' 1 'Dupradeau, F.Y.' 2 'Case, D.A.' 3 'Turner, C.J.' 4 'Stubbe, J.' 5 # _citation.id primary _citation.title ;Nuclear magnetic resonance structural studies and molecular modeling of duplex DNA containing normal and 4'-oxidized abasic sites. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 46 _citation.page_first 3096 _citation.page_last 3107 _citation.year 2007 _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 17323932 _citation.pdbx_database_id_DOI 10.1021/bi6024269 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chen, J.' 1 ? primary 'Dupradeau, F.Y.' 2 ? primary 'Case, D.A.' 3 ? primary 'Turner, C.J.' 4 ? primary 'Stubbe, J.' 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*AP*AP*GP*(AAB)P*AP*CP*CP*GP*GP*G)-3'" 3877.515 1 ? ? ? ? 2 polymer syn "5'-D(*CP*CP*CP*GP*GP*TP*AP*CP*TP*TP*TP*GP*G)-3'" 3958.571 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)(DA)(DA)(DG)(AAB)(DA)(DC)(DC)(DG)(DG)(DG)' CCAAAGXACCGGG A ? 2 polydeoxyribonucleotide no no '(DC)(DC)(DC)(DG)(DG)(DT)(DA)(DC)(DT)(DT)(DT)(DG)(DG)' CCCGGTACTTTGG 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 DA n 1 5 DA n 1 6 DG n 1 7 AAB n 1 8 DA n 1 9 DC n 1 10 DC n 1 11 DG n 1 12 DG n 1 13 DG n 2 1 DC n 2 2 DC n 2 3 DC n 2 4 DG n 2 5 DG n 2 6 DT n 2 7 DA n 2 8 DC n 2 9 DT n 2 10 DT n 2 11 DT n 2 12 DG n 2 13 DG n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? 'synthetic construct' ? 32630 ? 2 1 sample ? ? 'synthetic construct' ? 32630 ? # 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 AAB 'DNA linking' . "2'-DEOXY-RIBOFURANOSE-5'-MONOPHOSPHATE" 'ABASIC DEOXYRIBOSE' 'C5 H11 O7 P' 214.110 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_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 C5 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 DA 4 4 4 DA A A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DG 6 6 6 DG G A . n A 1 7 AAB 7 7 7 AAB AAB A . n A 1 8 DA 8 8 8 DA A A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DC 10 10 10 DC C A . n A 1 11 DG 11 11 11 DG G A . n A 1 12 DG 12 12 12 DG G A . n A 1 13 DG 13 13 13 DG G3 A . n B 2 1 DC 1 14 14 DC C5 B . n B 2 2 DC 2 15 15 DC C B . n B 2 3 DC 3 16 16 DC C B . n B 2 4 DG 4 17 17 DG G B . n B 2 5 DG 5 18 18 DG G B . n B 2 6 DT 6 19 19 DT T B . n B 2 7 DA 7 20 20 DA A B . n B 2 8 DC 8 21 21 DC C B . n B 2 9 DT 9 22 22 DT T B . n B 2 10 DT 10 23 23 DT T B . n B 2 11 DT 11 24 24 DT T B . n B 2 12 DG 12 25 25 DG G B . n B 2 13 DG 13 26 26 DG G3 B . n # _exptl.entry_id 2HSS _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.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _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 2HSS _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 2HSS _struct.title '13mer duplex DNA containg an abasic site with beta anomer, averaged structure' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 2HSS _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'abasic site, DNA damage, base excision repair, Ape1, 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 2HSS 2HSS ? ? ? 2 2 PDB 2HSS 2HSS ? ? ? # 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 2HSS A 1 ? 13 ? 2HSS 1 ? 13 ? 1 13 2 2 2HSS B 1 ? 13 ? 2HSS 14 ? 26 ? 14 26 # _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 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1580 ? 1 MORE -3 ? 1 'SSA (A^2)' 5270 ? # _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 ? _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale one ? A DG 6 "O3'" ? ? ? 1_555 A AAB 7 P ? ? A DG 6 A AAB 7 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale2 covale one ? A AAB 7 "O3'" ? ? ? 1_555 A DA 8 P ? ? A AAB 7 A DA 8 1_555 ? ? ? ? ? ? ? 1.597 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 13 N1 ? ? A DC 1 B DG 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 13 O6 ? ? A DC 1 B DG 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 13 N2 ? ? A DC 1 B DG 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 2 B DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 2 B DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 2 B DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 B DT 11 N3 ? ? A DA 3 B DT 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 B DT 11 O4 ? ? A DA 3 B DT 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 10 N3 ? ? A DA 4 B DT 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 10 O4 ? ? A DA 4 B DT 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 9 N3 ? ? A DA 5 B DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 9 O4 ? ? A DA 5 B DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 6 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 6 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 6 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 8 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 8 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 9 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 9 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 9 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 10 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 10 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 10 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 11 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 11 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 11 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 11 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 11 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 11 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 12 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 12 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 12 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 13 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 13 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 13 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 13 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 13 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 13 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # 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 ? ? 112.00 108.30 3.70 0.30 N 2 1 N3 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 117.17 121.90 -4.73 0.70 N 3 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.44 108.30 2.14 0.30 N 4 1 N3 A DC 2 ? ? C2 A DC 2 ? ? O2 A DC 2 ? ? 117.12 121.90 -4.78 0.70 N 5 1 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.29 108.30 1.99 0.30 N 6 1 C4 A DA 3 ? ? C5 A DA 3 ? ? C6 A DA 3 ? ? 113.64 117.00 -3.36 0.50 N 7 1 C5 A DA 3 ? ? C6 A DA 3 ? ? N1 A DA 3 ? ? 121.27 117.70 3.57 0.50 N 8 1 N1 A DA 3 ? ? C6 A DA 3 ? ? N6 A DA 3 ? ? 114.21 118.60 -4.39 0.60 N 9 1 C4 A DA 4 ? ? C5 A DA 4 ? ? C6 A DA 4 ? ? 113.36 117.00 -3.64 0.50 N 10 1 C5 A DA 4 ? ? C6 A DA 4 ? ? N1 A DA 4 ? ? 121.12 117.70 3.42 0.50 N 11 1 N1 A DA 4 ? ? C6 A DA 4 ? ? N6 A DA 4 ? ? 113.56 118.60 -5.04 0.60 N 12 1 C4 A DA 5 ? ? C5 A DA 5 ? ? C6 A DA 5 ? ? 113.49 117.00 -3.51 0.50 N 13 1 C5 A DA 5 ? ? C6 A DA 5 ? ? N1 A DA 5 ? ? 121.07 117.70 3.37 0.50 N 14 1 N1 A DA 5 ? ? C6 A DA 5 ? ? N6 A DA 5 ? ? 114.19 118.60 -4.41 0.60 N 15 1 "O4'" A DA 8 ? ? "C4'" A DA 8 ? ? "C3'" A DA 8 ? ? 109.70 106.00 3.70 0.60 N 16 1 C4 A DA 8 ? ? C5 A DA 8 ? ? C6 A DA 8 ? ? 113.42 117.00 -3.58 0.50 N 17 1 C5 A DA 8 ? ? C6 A DA 8 ? ? N1 A DA 8 ? ? 121.23 117.70 3.53 0.50 N 18 1 N1 A DA 8 ? ? C6 A DA 8 ? ? N6 A DA 8 ? ? 114.02 118.60 -4.58 0.60 N 19 1 N3 A DC 9 ? ? C2 A DC 9 ? ? O2 A DC 9 ? ? 116.69 121.90 -5.21 0.70 N 20 1 N3 A DC 10 ? ? C2 A DC 10 ? ? O2 A DC 10 ? ? 117.09 121.90 -4.81 0.70 N 21 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 110.20 108.30 1.90 0.30 N 22 1 "O4'" B DC 14 ? ? "C1'" B DC 14 ? ? N1 B DC 14 ? ? 110.98 108.30 2.68 0.30 N 23 1 N3 B DC 14 ? ? C2 B DC 14 ? ? O2 B DC 14 ? ? 117.07 121.90 -4.83 0.70 N 24 1 N3 B DC 15 ? ? C2 B DC 15 ? ? O2 B DC 15 ? ? 116.65 121.90 -5.25 0.70 N 25 1 N3 B DC 16 ? ? C2 B DC 16 ? ? O2 B DC 16 ? ? 116.93 121.90 -4.97 0.70 N 26 1 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.15 108.30 1.85 0.30 N 27 1 C6 B DT 19 ? ? C5 B DT 19 ? ? C7 B DT 19 ? ? 119.25 122.90 -3.65 0.60 N 28 1 "O4'" B DA 20 ? ? "C1'" B DA 20 ? ? N9 B DA 20 ? ? 110.64 108.30 2.34 0.30 N 29 1 C4 B DA 20 ? ? C5 B DA 20 ? ? C6 B DA 20 ? ? 113.46 117.00 -3.54 0.50 N 30 1 C5 B DA 20 ? ? C6 B DA 20 ? ? N1 B DA 20 ? ? 121.58 117.70 3.88 0.50 N 31 1 N1 B DA 20 ? ? C6 B DA 20 ? ? N6 B DA 20 ? ? 113.33 118.60 -5.27 0.60 N 32 1 "O4'" B DC 21 ? ? "C1'" B DC 21 ? ? N1 B DC 21 ? ? 110.56 108.30 2.26 0.30 N 33 1 N3 B DC 21 ? ? C2 B DC 21 ? ? O2 B DC 21 ? ? 117.03 121.90 -4.87 0.70 N 34 1 "O4'" B DT 22 ? ? "C1'" B DT 22 ? ? N1 B DT 22 ? ? 110.89 108.30 2.59 0.30 N 35 1 C6 B DT 22 ? ? C5 B DT 22 ? ? C7 B DT 22 ? ? 118.68 122.90 -4.22 0.60 N 36 1 C6 B DT 23 ? ? C5 B DT 23 ? ? C7 B DT 23 ? ? 119.03 122.90 -3.87 0.60 N 37 1 "O4'" B DT 24 ? ? "C1'" B DT 24 ? ? N1 B DT 24 ? ? 110.40 108.30 2.10 0.30 N 38 1 C6 B DT 24 ? ? C5 B DT 24 ? ? C7 B DT 24 ? ? 118.97 122.90 -3.93 0.60 N 39 1 "O4'" B DG 25 ? ? "C1'" B DG 25 ? ? N9 B DG 25 ? ? 110.33 108.30 2.03 0.30 N # _pdbx_nmr_ensemble.entry_id 2HSS _pdbx_nmr_ensemble.conformers_calculated_total_number 30 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations' _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 2HSS _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'minimized average structure' # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system _pdbx_nmr_sample_details.label _pdbx_nmr_sample_details.type _pdbx_nmr_sample_details.details 1 '2.7 mM duplex DNA containing an abasic site with beta anomer, 10 mM sodium phosphate, 0.2 mM EDTA, 100% D2O' '100% D2O' sample_1 solution ? 2 '2.7 mM duplex DNA containing an abasic site with beta anomer, 10 mM sodium phosphate, 0.2 mM EDTA, 90% H2O/10%D2O (v/v)' '90% H2O/10%D2O (v/v)' sample_2 solution ? # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id 'duplex DNA containing an abasic site with beta anomer' 2.7 ? mM 'natural abundance' 1 'duplex DNA containing an abasic site with beta anomer' 2.7 ? mM 'natural abundance' 2 'sodium phosphate' 10 ? mM 'natural abundance' 1 'sodium phosphate' 10 ? mM 'natural abundance' 2 EDTA 0.2 ? mM 'natural abundance' 1 EDTA 0.2 ? mM 'natural abundance' 2 # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature_units _pdbx_nmr_exptl_sample_conditions.label _pdbx_nmr_exptl_sample_conditions.pH_units _pdbx_nmr_exptl_sample_conditions.ionic_strength_units 1 298 1 6.5 '10 mM sodium phosphate' atm K sample_conditions_1 pH mM 2 277 1 6.5 '10 mM sodium phosphate' atm K sample_conditions_2 pH mM # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 '2D NOESY' 1 2 1 '2D TOCSY' 1 3 1 E-COSY 1 4 1 'HP-selective HSQC' 1 5 2 '2D NOESY' 2 # _pdbx_nmr_details.entry_id 2HSS _pdbx_nmr_details.text 'This structure was determined using standard 2D homonuclear techniques and HP-selective HSQC techniques' # _pdbx_nmr_refine.entry_id 2HSS _pdbx_nmr_refine.method ;simulated annealing molecular dynamics ; _pdbx_nmr_refine.details ;he structures are based on 482 NOE-derived distance constraints, 57 dihedral angle restraints,8 distance restraints from hydrogen bonds ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal 'data analysis' Felix 2000 ? 1 'geometry optimization' MARDIGRAS ? ? 2 refinement Amber 8.0 'Case, et al.' 3 # 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 AAB P P N N 1 AAB O1P O N N 2 AAB O2P O N N 3 AAB O3P O N N 4 AAB "O5'" O N N 5 AAB "C5'" C N N 6 AAB "C4'" C N R 7 AAB "O4'" O N N 8 AAB "C1'" C N R 9 AAB "O1'" O N N 10 AAB "C2'" C N N 11 AAB "C3'" C N S 12 AAB "O3'" O N N 13 AAB H1P H N N 14 AAB H3P H N N 15 AAB "H5'1" H N N 16 AAB "H5'2" H N N 17 AAB "H4'" H N N 18 AAB "H1'" H N N 19 AAB "HO1'" H N N 20 AAB "H2'1" H N N 21 AAB "H2'2" H N N 22 AAB "H3'" H N N 23 AAB "HO3'" H N N 24 DA OP3 O N N 25 DA P P N N 26 DA OP1 O N N 27 DA OP2 O N N 28 DA "O5'" O N N 29 DA "C5'" C N N 30 DA "C4'" C N R 31 DA "O4'" O N N 32 DA "C3'" C N S 33 DA "O3'" O N N 34 DA "C2'" C N N 35 DA "C1'" C N R 36 DA N9 N Y N 37 DA C8 C Y N 38 DA N7 N Y N 39 DA C5 C Y N 40 DA C6 C Y N 41 DA N6 N N N 42 DA N1 N Y N 43 DA C2 C Y N 44 DA N3 N Y N 45 DA C4 C Y N 46 DA HOP3 H N N 47 DA HOP2 H N N 48 DA "H5'" H N N 49 DA "H5''" H N N 50 DA "H4'" H N N 51 DA "H3'" H N N 52 DA "HO3'" H N N 53 DA "H2'" H N N 54 DA "H2''" H N N 55 DA "H1'" H N N 56 DA H8 H N N 57 DA H61 H N N 58 DA H62 H N N 59 DA H2 H N N 60 DC OP3 O N N 61 DC P P N N 62 DC OP1 O N N 63 DC OP2 O N N 64 DC "O5'" O N N 65 DC "C5'" C N N 66 DC "C4'" C N R 67 DC "O4'" O N N 68 DC "C3'" C N S 69 DC "O3'" O N N 70 DC "C2'" C N N 71 DC "C1'" C N R 72 DC N1 N N N 73 DC C2 C N N 74 DC O2 O N N 75 DC N3 N N N 76 DC C4 C N N 77 DC N4 N N N 78 DC C5 C N N 79 DC C6 C N N 80 DC HOP3 H N N 81 DC HOP2 H N N 82 DC "H5'" H N N 83 DC "H5''" H N N 84 DC "H4'" H N N 85 DC "H3'" H N N 86 DC "HO3'" H N N 87 DC "H2'" H N N 88 DC "H2''" H N N 89 DC "H1'" H N N 90 DC H41 H N N 91 DC H42 H N N 92 DC H5 H N N 93 DC H6 H N N 94 DG OP3 O N N 95 DG P P N N 96 DG OP1 O N N 97 DG OP2 O N N 98 DG "O5'" O N N 99 DG "C5'" C N N 100 DG "C4'" C N R 101 DG "O4'" O N N 102 DG "C3'" C N S 103 DG "O3'" O N N 104 DG "C2'" C N N 105 DG "C1'" C N R 106 DG N9 N Y N 107 DG C8 C Y N 108 DG N7 N Y N 109 DG C5 C Y N 110 DG C6 C N N 111 DG O6 O N N 112 DG N1 N N N 113 DG C2 C N N 114 DG N2 N N N 115 DG N3 N N N 116 DG C4 C Y N 117 DG HOP3 H N N 118 DG HOP2 H N N 119 DG "H5'" H N N 120 DG "H5''" H N N 121 DG "H4'" H N N 122 DG "H3'" H N N 123 DG "HO3'" H N N 124 DG "H2'" H N N 125 DG "H2''" H N N 126 DG "H1'" H N N 127 DG H8 H N N 128 DG H1 H N N 129 DG H21 H N N 130 DG H22 H N N 131 DT OP3 O N N 132 DT P P N N 133 DT OP1 O N N 134 DT OP2 O N N 135 DT "O5'" O N N 136 DT "C5'" C N N 137 DT "C4'" C N R 138 DT "O4'" O N N 139 DT "C3'" C N S 140 DT "O3'" O N N 141 DT "C2'" C N N 142 DT "C1'" C N R 143 DT N1 N N N 144 DT C2 C N N 145 DT O2 O N N 146 DT N3 N N N 147 DT C4 C N N 148 DT O4 O N N 149 DT C5 C N N 150 DT C7 C N N 151 DT C6 C N N 152 DT HOP3 H N N 153 DT HOP2 H N N 154 DT "H5'" H N N 155 DT "H5''" H N N 156 DT "H4'" H N N 157 DT "H3'" H N N 158 DT "HO3'" H N N 159 DT "H2'" H N N 160 DT "H2''" H N N 161 DT "H1'" H N N 162 DT H3 H N N 163 DT H71 H N N 164 DT H72 H N N 165 DT H73 H N N 166 DT H6 H N N 167 # 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 AAB P O1P sing N N 1 AAB P O2P doub N N 2 AAB P O3P sing N N 3 AAB P "O5'" sing N N 4 AAB O1P H1P sing N N 5 AAB O3P H3P sing N N 6 AAB "O5'" "C5'" sing N N 7 AAB "C5'" "C4'" sing N N 8 AAB "C5'" "H5'1" sing N N 9 AAB "C5'" "H5'2" sing N N 10 AAB "C4'" "O4'" sing N N 11 AAB "C4'" "C3'" sing N N 12 AAB "C4'" "H4'" sing N N 13 AAB "O4'" "C1'" sing N N 14 AAB "C1'" "O1'" sing N N 15 AAB "C1'" "C2'" sing N N 16 AAB "C1'" "H1'" sing N N 17 AAB "O1'" "HO1'" sing N N 18 AAB "C2'" "C3'" sing N N 19 AAB "C2'" "H2'1" sing N N 20 AAB "C2'" "H2'2" sing N N 21 AAB "C3'" "O3'" sing N N 22 AAB "C3'" "H3'" sing N N 23 AAB "O3'" "HO3'" sing N N 24 DA OP3 P sing N N 25 DA OP3 HOP3 sing N N 26 DA P OP1 doub N N 27 DA P OP2 sing N N 28 DA P "O5'" sing N N 29 DA OP2 HOP2 sing N N 30 DA "O5'" "C5'" sing N N 31 DA "C5'" "C4'" sing N N 32 DA "C5'" "H5'" sing N N 33 DA "C5'" "H5''" sing N N 34 DA "C4'" "O4'" sing N N 35 DA "C4'" "C3'" sing N N 36 DA "C4'" "H4'" sing N N 37 DA "O4'" "C1'" sing N N 38 DA "C3'" "O3'" sing N N 39 DA "C3'" "C2'" sing N N 40 DA "C3'" "H3'" sing N N 41 DA "O3'" "HO3'" sing N N 42 DA "C2'" "C1'" sing N N 43 DA "C2'" "H2'" sing N N 44 DA "C2'" "H2''" sing N N 45 DA "C1'" N9 sing N N 46 DA "C1'" "H1'" sing N N 47 DA N9 C8 sing Y N 48 DA N9 C4 sing Y N 49 DA C8 N7 doub Y N 50 DA C8 H8 sing N N 51 DA N7 C5 sing Y N 52 DA C5 C6 sing Y N 53 DA C5 C4 doub Y N 54 DA C6 N6 sing N N 55 DA C6 N1 doub Y N 56 DA N6 H61 sing N N 57 DA N6 H62 sing N N 58 DA N1 C2 sing Y N 59 DA C2 N3 doub Y N 60 DA C2 H2 sing N N 61 DA N3 C4 sing Y N 62 DC OP3 P sing N N 63 DC OP3 HOP3 sing N N 64 DC P OP1 doub N N 65 DC P OP2 sing N N 66 DC P "O5'" sing N N 67 DC OP2 HOP2 sing N N 68 DC "O5'" "C5'" sing N N 69 DC "C5'" "C4'" sing N N 70 DC "C5'" "H5'" sing N N 71 DC "C5'" "H5''" sing N N 72 DC "C4'" "O4'" sing N N 73 DC "C4'" "C3'" sing N N 74 DC "C4'" "H4'" sing N N 75 DC "O4'" "C1'" sing N N 76 DC "C3'" "O3'" sing N N 77 DC "C3'" "C2'" sing N N 78 DC "C3'" "H3'" sing N N 79 DC "O3'" "HO3'" sing N N 80 DC "C2'" "C1'" sing N N 81 DC "C2'" "H2'" sing N N 82 DC "C2'" "H2''" sing N N 83 DC "C1'" N1 sing N N 84 DC "C1'" "H1'" sing N N 85 DC N1 C2 sing N N 86 DC N1 C6 sing N N 87 DC C2 O2 doub N N 88 DC C2 N3 sing N N 89 DC N3 C4 doub N N 90 DC C4 N4 sing N N 91 DC C4 C5 sing N N 92 DC N4 H41 sing N N 93 DC N4 H42 sing N N 94 DC C5 C6 doub N N 95 DC C5 H5 sing N N 96 DC C6 H6 sing N N 97 DG OP3 P sing N N 98 DG OP3 HOP3 sing N N 99 DG P OP1 doub N N 100 DG P OP2 sing N N 101 DG P "O5'" sing N N 102 DG OP2 HOP2 sing N N 103 DG "O5'" "C5'" sing N N 104 DG "C5'" "C4'" sing N N 105 DG "C5'" "H5'" sing N N 106 DG "C5'" "H5''" sing N N 107 DG "C4'" "O4'" sing N N 108 DG "C4'" "C3'" sing N N 109 DG "C4'" "H4'" sing N N 110 DG "O4'" "C1'" sing N N 111 DG "C3'" "O3'" sing N N 112 DG "C3'" "C2'" sing N N 113 DG "C3'" "H3'" sing N N 114 DG "O3'" "HO3'" sing N N 115 DG "C2'" "C1'" sing N N 116 DG "C2'" "H2'" sing N N 117 DG "C2'" "H2''" sing N N 118 DG "C1'" N9 sing N N 119 DG "C1'" "H1'" sing N N 120 DG N9 C8 sing Y N 121 DG N9 C4 sing Y N 122 DG C8 N7 doub Y N 123 DG C8 H8 sing N N 124 DG N7 C5 sing Y N 125 DG C5 C6 sing N N 126 DG C5 C4 doub Y N 127 DG C6 O6 doub N N 128 DG C6 N1 sing N N 129 DG N1 C2 sing N N 130 DG N1 H1 sing N N 131 DG C2 N2 sing N N 132 DG C2 N3 doub N N 133 DG N2 H21 sing N N 134 DG N2 H22 sing N N 135 DG N3 C4 sing N N 136 DT OP3 P sing N N 137 DT OP3 HOP3 sing N N 138 DT P OP1 doub N N 139 DT P OP2 sing N N 140 DT P "O5'" sing N N 141 DT OP2 HOP2 sing N N 142 DT "O5'" "C5'" sing N N 143 DT "C5'" "C4'" sing N N 144 DT "C5'" "H5'" sing N N 145 DT "C5'" "H5''" sing N N 146 DT "C4'" "O4'" sing N N 147 DT "C4'" "C3'" sing N N 148 DT "C4'" "H4'" sing N N 149 DT "O4'" "C1'" sing N N 150 DT "C3'" "O3'" sing N N 151 DT "C3'" "C2'" sing N N 152 DT "C3'" "H3'" sing N N 153 DT "O3'" "HO3'" sing N N 154 DT "C2'" "C1'" sing N N 155 DT "C2'" "H2'" sing N N 156 DT "C2'" "H2''" sing N N 157 DT "C1'" N1 sing N N 158 DT "C1'" "H1'" sing N N 159 DT N1 C2 sing N N 160 DT N1 C6 sing N N 161 DT C2 O2 doub N N 162 DT C2 N3 sing N N 163 DT N3 C4 sing N N 164 DT N3 H3 sing N N 165 DT C4 O4 doub N N 166 DT C4 C5 sing N N 167 DT C5 C7 sing N N 168 DT C5 C6 doub N N 169 DT C7 H71 sing N N 170 DT C7 H72 sing N N 171 DT C7 H73 sing N N 172 DT C6 H6 sing N N 173 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2HSS 'double helix' 2HSS 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 13 1_555 0.269 -0.105 -0.301 9.588 -6.175 -0.827 1 A_DC1:DG26_B A 1 ? B 26 ? 19 1 1 A DC 2 1_555 B DG 12 1_555 0.334 -0.137 -0.360 7.873 4.887 0.240 2 A_DC2:DG25_B A 2 ? B 25 ? 19 1 1 A DA 3 1_555 B DT 11 1_555 0.096 -0.041 -0.349 -5.266 -6.215 -0.158 3 A_DA3:DT24_B A 3 ? B 24 ? 20 1 1 A DA 4 1_555 B DT 10 1_555 0.086 -0.064 -0.187 2.249 -6.054 2.487 4 A_DA4:DT23_B A 4 ? B 23 ? 20 1 1 A DA 5 1_555 B DT 9 1_555 0.012 -0.085 -0.200 -0.566 -6.224 1.075 5 A_DA5:DT22_B A 5 ? B 22 ? 20 1 1 A DG 6 1_555 B DC 8 1_555 -0.494 -0.147 -0.008 -2.258 1.147 0.616 6 A_DG6:DC21_B A 6 ? B 21 ? 19 1 1 A DA 8 1_555 B DT 6 1_555 0.242 -0.041 0.088 -10.987 -0.929 0.200 7 A_DA8:DT19_B A 8 ? B 19 ? 20 1 1 A DC 9 1_555 B DG 5 1_555 0.541 -0.125 -0.030 5.444 0.449 0.859 8 A_DC9:DG18_B A 9 ? B 18 ? 19 1 1 A DC 10 1_555 B DG 4 1_555 0.387 -0.136 -0.161 0.885 0.424 0.046 9 A_DC10:DG17_B A 10 ? B 17 ? 19 1 1 A DG 11 1_555 B DC 3 1_555 -0.483 -0.146 0.038 6.988 1.001 0.034 10 A_DG11:DC16_B A 11 ? B 16 ? 19 1 1 A DG 12 1_555 B DC 2 1_555 -0.523 -0.178 -0.163 -5.150 -4.010 0.031 11 A_DG12:DC15_B A 12 ? B 15 ? 19 1 1 A DG 13 1_555 B DC 1 1_555 -0.263 -0.106 -0.029 9.795 4.224 -0.783 12 A_DG13:DC14_B A 13 ? B 14 ? 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 13 1_555 A DC 2 1_555 B DG 12 1_555 0.063 -1.691 3.641 -0.533 3.476 31.149 -3.840 -0.226 3.435 6.447 0.988 31.342 1 AA_DC1DC2:DG25DG26_BB A 1 ? B 26 ? A 2 ? B 25 ? 1 A DC 2 1_555 B DG 12 1_555 A DA 3 1_555 B DT 11 1_555 -0.784 -1.285 3.947 0.674 -0.327 35.000 -2.077 1.426 3.943 -0.543 -1.120 35.007 2 AA_DC2DA3:DT24DG25_BB A 2 ? B 25 ? A 3 ? B 24 ? 1 A DA 3 1_555 B DT 11 1_555 A DA 4 1_555 B DT 10 1_555 -0.168 -0.900 3.421 -1.248 2.550 30.847 -2.195 0.065 3.342 4.780 2.340 30.974 3 AA_DA3DA4:DT23DT24_BB A 3 ? B 24 ? A 4 ? B 23 ? 1 A DA 4 1_555 B DT 10 1_555 A DA 5 1_555 B DT 9 1_555 -0.239 -1.185 3.689 -2.372 6.662 29.892 -3.668 -0.059 3.361 12.692 4.520 30.699 4 AA_DA4DA5:DT22DT23_BB A 4 ? B 23 ? A 5 ? B 22 ? 1 A DA 5 1_555 B DT 9 1_555 A DG 6 1_555 B DC 8 1_555 -0.598 -1.191 3.573 -3.262 4.531 28.026 -3.520 0.415 3.389 9.240 6.652 28.566 5 AA_DA5DG6:DC21DT22_BB A 5 ? B 22 ? A 6 ? B 21 ? 1 A DG 6 1_555 B DC 8 1_555 A DA 8 1_555 B DT 6 1_555 -0.986 -1.504 6.375 -10.750 15.206 68.607 -2.323 0.127 6.051 13.245 9.364 70.789 6 AA_DG6DA8:DT19DC21_BB A 6 ? B 21 ? A 8 ? B 19 ? 1 A DA 8 1_555 B DT 6 1_555 A DC 9 1_555 B DG 5 1_555 0.083 -0.871 3.196 0.695 2.178 30.009 -2.109 -0.022 3.128 4.198 -1.340 30.094 7 AA_DA8DC9:DG18DT19_BB A 8 ? B 19 ? A 9 ? B 18 ? 1 A DC 9 1_555 B DG 5 1_555 A DC 10 1_555 B DG 4 1_555 -0.148 -1.913 3.635 0.163 -0.077 27.560 -3.994 0.354 3.639 -0.163 -0.343 27.561 8 AA_DC9DC10:DG17DG18_BB A 9 ? B 18 ? A 10 ? B 17 ? 1 A DC 10 1_555 B DG 4 1_555 A DG 11 1_555 B DC 3 1_555 -0.293 -1.250 3.413 -0.998 0.023 28.291 -2.560 0.357 3.420 0.048 2.042 28.309 9 AA_DC10DG11:DC16DG17_BB A 10 ? B 17 ? A 11 ? B 16 ? 1 A DG 11 1_555 B DC 3 1_555 A DG 12 1_555 B DC 2 1_555 0.105 -1.674 3.775 0.491 0.744 29.930 -3.416 -0.087 3.735 1.440 -0.950 29.943 10 AA_DG11DG12:DC15DC16_BB A 11 ? B 16 ? A 12 ? B 15 ? 1 A DG 12 1_555 B DC 2 1_555 A DG 13 1_555 B DC 1 1_555 -0.049 -0.948 3.254 -3.036 1.058 32.042 -1.896 -0.448 3.213 1.910 5.483 32.198 11 AA_DG12DG13:DC14DC15_BB A 12 ? B 15 ? A 13 ? B 14 ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 Custom-built Home-built 750 ? 2 Custom-built Home-built 591 ? # _atom_sites.entry_id 2HSS _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_