data_1A9H # _entry.id 1A9H # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.390 _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 1A9H pdb_00001a9h 10.2210/pdb1a9h/pdb WWPDB D_1000170559 ? ? # 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 1998-07-15 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2014-07-09 5 'Structure model' 1 4 2024-04-10 # _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' 7 5 'Structure model' Other # 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_database_status 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_database_status.process_site' 4 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 6 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 7 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 8 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 9 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 10 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 11 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 12 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 13 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 14 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1A9H _pdbx_database_status.recvd_initial_deposition_date 1998-04-06 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Beger, R.D.' 1 'Bolton, P.H.' 2 # _citation.id primary _citation.title 'Structures of apurinic and apyrimidinic sites in duplex DNAs.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 273 _citation.page_first 15565 _citation.page_last 15573 _citation.year 1998 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 9624147 _citation.pdbx_database_id_DOI 10.1074/jbc.273.25.15565 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Beger, R.D.' 1 ? primary 'Bolton, P.H.' 2 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*CP*GP*CP*GP*AP*AABP*AP*CP*GP*CP*C)-3') ; 3211.077 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*GP*GP*CP*GP*TP*CP*TP*CP*GP*CP*G)-3') ; 3366.184 1 ? ? ? ? 3 water nat water 18.015 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)(DG)(DC)(DG)(DA)(AAB)(DA)(DC)(DG)(DC)(DC)' CGCGAXACGCC A ? 2 polydeoxyribonucleotide no no '(DG)(DG)(DC)(DG)(DT)(DC)(DT)(DC)(DG)(DC)(DG)' GGCGTCTCGCG B ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 AAB n 1 7 DA n 1 8 DC n 1 9 DG n 1 10 DC n 1 11 DC n 2 1 DG n 2 2 DG n 2 3 DC n 2 4 DG n 2 5 DT n 2 6 DC n 2 7 DT n 2 8 DC n 2 9 DG n 2 10 DC 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 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 HOH non-polymer . WATER ? 'H2 O' 18.015 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 AAB 6 6 6 AAB AAB A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 DC 8 8 8 DC C A . n A 1 9 DG 9 9 9 DG G 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 DC 3 14 14 DC C B . n B 2 4 DG 4 15 15 DG G B . n B 2 5 DT 5 16 16 DT T B . n B 2 6 DC 6 17 17 DC C B . n B 2 7 DT 7 18 18 DT T B . n B 2 8 DC 8 19 19 DC C B . n B 2 9 DG 9 20 20 DG G B . n B 2 10 DC 10 21 21 DC C B . n B 2 11 DG 11 22 22 DG G B . n # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id HOH _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 23 _pdbx_nonpoly_scheme.auth_seq_num 23 _pdbx_nonpoly_scheme.pdb_mon_id HOH _pdbx_nonpoly_scheme.auth_mon_id HOH _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.pdb_ins_code . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.1 ? 1 X-PLOR refinement 3.1 ? 2 X-PLOR phasing 3.1 ? 3 # _cell.entry_id 1A9H _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 1A9H _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 1A9H _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _database_PDB_matrix.entry_id 1A9H _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 1A9H _struct.title 'APURINIC DNA WITH BOUND WATER AT THE DAMAGED SITE AND O2 OF CYTOSINE, BETA FORM, NMR, 1 STRUCTURE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1A9H _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DAMAGED DNA, APURINIC DNA, WATER, 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 ? # 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 1A9H 1A9H ? ? ? 2 2 PDB 1A9H 1A9H ? ? ? # 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 1A9H A 1 ? 11 ? 1A9H 1 ? 11 ? 1 11 2 2 1A9H B 1 ? 11 ? 1A9H 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,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 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale one ? A DA 5 "O3'" ? ? ? 1_555 A AAB 6 P ? ? A DA 5 A AAB 6 1_555 ? ? ? ? ? ? ? 1.585 ? ? covale2 covale one ? A AAB 6 "O3'" ? ? ? 1_555 A DA 7 P ? ? A AAB 6 A DA 7 1_555 ? ? ? ? ? ? ? 1.578 ? ? 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 DG 2 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 2 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 2 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 2 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 3 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 3 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 3 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 4 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 4 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 4 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 5 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 5 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 5 N3 ? ? A DA 7 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 5 O4 ? ? A DA 7 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 8 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 8 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 8 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 9 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 9 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 9 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 11 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 11 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 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 ? ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 "O1'" _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 AAB _pdbx_validate_close_contact.auth_seq_id_1 6 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 H1 _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 23 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.59 # 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 "C5'" A DC 1 ? ? "C4'" A DC 1 ? ? 1.424 1.509 -0.085 0.011 N 2 1 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? 1.431 1.521 -0.090 0.010 N 3 1 "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 1.385 1.516 -0.131 0.008 N 4 1 "C2'" A DC 1 ? ? "C1'" A DC 1 ? ? 1.397 1.518 -0.121 0.010 N 5 1 "O4'" A DC 1 ? ? "C4'" A DC 1 ? ? 1.288 1.446 -0.158 0.010 N 6 1 "C1'" A DC 1 ? ? N1 A DC 1 ? ? 1.383 1.468 -0.085 0.014 N 7 1 C4 A DC 1 ? ? N4 A DC 1 ? ? 1.244 1.335 -0.091 0.009 N 8 1 N1 A DC 1 ? ? C6 A DC 1 ? ? 1.330 1.367 -0.037 0.006 N 9 1 C2 A DC 1 ? ? N3 A DC 1 ? ? 1.268 1.353 -0.085 0.008 N 10 1 C5 A DC 1 ? ? C6 A DC 1 ? ? 1.257 1.339 -0.082 0.008 N 11 1 P A DG 2 ? ? OP1 A DG 2 ? ? 1.323 1.485 -0.162 0.017 N 12 1 P A DG 2 ? ? OP2 A DG 2 ? ? 1.308 1.485 -0.177 0.017 N 13 1 P A DG 2 ? ? "O5'" A DG 2 ? ? 1.485 1.593 -0.108 0.010 N 14 1 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.420 1.509 -0.089 0.011 N 15 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 1.455 1.516 -0.061 0.008 N 16 1 "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.455 1.518 -0.063 0.010 N 17 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.381 1.446 -0.065 0.010 N 18 1 C2 A DG 2 ? ? N3 A DG 2 ? ? 1.269 1.323 -0.054 0.008 N 19 1 C5 A DG 2 ? ? N7 A DG 2 ? ? 1.350 1.388 -0.038 0.006 N 20 1 N9 A DG 2 ? ? C4 A DG 2 ? ? 1.305 1.375 -0.070 0.008 N 21 1 P A DC 3 ? ? OP2 A DC 3 ? ? 1.334 1.485 -0.151 0.017 N 22 1 P A DC 3 ? ? "O5'" A DC 3 ? ? 1.489 1.593 -0.104 0.010 N 23 1 "C5'" A DC 3 ? ? "C4'" A DC 3 ? ? 1.424 1.509 -0.085 0.011 N 24 1 "O3'" A DC 3 ? ? "C3'" A DC 3 ? ? 1.382 1.419 -0.037 0.006 N 25 1 C2 A DC 3 ? ? O2 A DC 3 ? ? 1.178 1.240 -0.062 0.009 N 26 1 N1 A DC 3 ? ? C2 A DC 3 ? ? 1.332 1.397 -0.065 0.010 N 27 1 N1 A DC 3 ? ? C6 A DC 3 ? ? 1.310 1.367 -0.057 0.006 N 28 1 N3 A DC 3 ? ? C4 A DC 3 ? ? 1.280 1.335 -0.055 0.007 N 29 1 C4 A DC 3 ? ? C5 A DC 3 ? ? 1.374 1.425 -0.051 0.008 N 30 1 "O3'" A DC 8 ? ? P A DG 9 ? ? 1.528 1.607 -0.079 0.012 Y 31 1 P A DG 9 ? ? OP1 A DG 9 ? ? 1.382 1.485 -0.103 0.017 N 32 1 P A DG 9 ? ? OP2 A DG 9 ? ? 1.366 1.485 -0.119 0.017 N 33 1 "C3'" A DG 9 ? ? "C2'" A DG 9 ? ? 1.426 1.516 -0.090 0.008 N 34 1 "C2'" A DG 9 ? ? "C1'" A DG 9 ? ? 1.427 1.518 -0.091 0.010 N 35 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? 1.341 1.418 -0.077 0.012 N 36 1 "O4'" A DG 9 ? ? "C4'" A DG 9 ? ? 1.369 1.446 -0.077 0.010 N 37 1 N1 A DG 9 ? ? C2 A DG 9 ? ? 1.315 1.373 -0.058 0.008 N 38 1 C4 A DG 9 ? ? C5 A DG 9 ? ? 1.310 1.379 -0.069 0.007 N 39 1 N7 A DG 9 ? ? C8 A DG 9 ? ? 1.257 1.305 -0.048 0.006 N 40 1 C8 A DG 9 ? ? N9 A DG 9 ? ? 1.331 1.374 -0.043 0.007 N 41 1 C6 A DG 9 ? ? O6 A DG 9 ? ? 1.176 1.237 -0.061 0.009 N 42 1 P A DC 10 ? ? "O5'" A DC 10 ? ? 1.520 1.593 -0.073 0.010 N 43 1 "O5'" A DC 10 ? ? "C5'" A DC 10 ? ? 1.180 1.418 -0.238 0.025 N 44 1 "C3'" A DC 10 ? ? "C2'" A DC 10 ? ? 1.443 1.516 -0.073 0.008 N 45 1 "C2'" A DC 10 ? ? "C1'" A DC 10 ? ? 1.434 1.518 -0.084 0.010 N 46 1 "O4'" A DC 10 ? ? "C4'" A DC 10 ? ? 1.365 1.446 -0.081 0.010 N 47 1 N1 A DC 10 ? ? C2 A DC 10 ? ? 1.329 1.397 -0.068 0.010 N 48 1 C4 A DC 10 ? ? C5 A DC 10 ? ? 1.367 1.425 -0.058 0.008 N 49 1 "O3'" A DC 10 ? ? P A DC 11 ? ? 1.531 1.607 -0.076 0.012 Y 50 1 "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 1.463 1.516 -0.053 0.008 N 51 1 C2 A DC 11 ? ? O2 A DC 11 ? ? 1.180 1.240 -0.060 0.009 N 52 1 N1 A DC 11 ? ? C2 A DC 11 ? ? 1.325 1.397 -0.072 0.010 N 53 1 N1 A DC 11 ? ? C6 A DC 11 ? ? 1.323 1.367 -0.044 0.006 N 54 1 N3 A DC 11 ? ? C4 A DC 11 ? ? 1.282 1.335 -0.053 0.007 N 55 1 C4 A DC 11 ? ? C5 A DC 11 ? ? 1.356 1.425 -0.069 0.008 N 56 1 "C5'" B DG 12 ? ? "C4'" B DG 12 ? ? 1.437 1.509 -0.072 0.011 N 57 1 "C4'" B DG 12 ? ? "C3'" B DG 12 ? ? 1.415 1.521 -0.106 0.010 N 58 1 "C3'" B DG 12 ? ? "C2'" B DG 12 ? ? 1.429 1.516 -0.087 0.008 N 59 1 "C2'" B DG 12 ? ? "C1'" B DG 12 ? ? 1.396 1.518 -0.122 0.010 N 60 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? 1.334 1.418 -0.084 0.012 N 61 1 "O4'" B DG 12 ? ? "C4'" B DG 12 ? ? 1.349 1.446 -0.097 0.010 N 62 1 N1 B DG 12 ? ? C2 B DG 12 ? ? 1.312 1.373 -0.061 0.008 N 63 1 C2 B DG 12 ? ? N3 B DG 12 ? ? 1.269 1.323 -0.054 0.008 N 64 1 C4 B DG 12 ? ? C5 B DG 12 ? ? 1.310 1.379 -0.069 0.007 N 65 1 C5 B DG 12 ? ? C6 B DG 12 ? ? 1.347 1.419 -0.072 0.010 N 66 1 C6 B DG 12 ? ? N1 B DG 12 ? ? 1.347 1.391 -0.044 0.007 N 67 1 N7 B DG 12 ? ? C8 B DG 12 ? ? 1.232 1.305 -0.073 0.006 N 68 1 N9 B DG 12 ? ? C4 B DG 12 ? ? 1.310 1.375 -0.065 0.008 N 69 1 C6 B DG 12 ? ? O6 B DG 12 ? ? 1.167 1.237 -0.070 0.009 N 70 1 "O3'" B DG 12 ? ? P B DG 13 ? ? 1.494 1.607 -0.113 0.012 Y 71 1 P B DG 13 ? ? OP2 B DG 13 ? ? 1.379 1.485 -0.106 0.017 N 72 1 P B DG 13 ? ? "O5'" B DG 13 ? ? 1.461 1.593 -0.132 0.010 N 73 1 "C5'" B DG 13 ? ? "C4'" B DG 13 ? ? 1.419 1.509 -0.090 0.011 N 74 1 "O3'" B DG 13 ? ? "C3'" B DG 13 ? ? 1.371 1.419 -0.048 0.006 N 75 1 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? 1.457 1.521 -0.064 0.010 N 76 1 "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 1.446 1.516 -0.070 0.008 N 77 1 "O4'" B DC 21 ? ? "C4'" B DC 21 ? ? 1.382 1.446 -0.064 0.010 N 78 1 "O3'" B DC 21 ? ? "C3'" B DC 21 ? ? 1.381 1.419 -0.038 0.006 N 79 1 "O3'" B DC 21 ? ? P B DG 22 ? ? 1.498 1.607 -0.109 0.012 Y 80 1 P B DG 22 ? ? "O5'" B DG 22 ? ? 1.532 1.593 -0.061 0.010 N 81 1 "C5'" B DG 22 ? ? "C4'" B DG 22 ? ? 1.399 1.509 -0.110 0.011 N 82 1 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? 1.334 1.521 -0.187 0.010 N 83 1 "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 1.390 1.516 -0.126 0.008 N 84 1 "C2'" B DG 22 ? ? "C1'" B DG 22 ? ? 1.323 1.518 -0.195 0.010 N 85 1 "O4'" B DG 22 ? ? "C1'" B DG 22 ? ? 1.343 1.418 -0.075 0.012 N 86 1 "O4'" B DG 22 ? ? "C4'" B DG 22 ? ? 1.345 1.446 -0.101 0.010 N 87 1 "O3'" B DG 22 ? ? "C3'" B DG 22 ? ? 1.256 1.419 -0.163 0.006 N 88 1 N3 B DG 22 ? ? C4 B DG 22 ? ? 1.286 1.350 -0.064 0.007 N 89 1 C4 B DG 22 ? ? C5 B DG 22 ? ? 1.325 1.379 -0.054 0.007 N 90 1 C6 B DG 22 ? ? N1 B DG 22 ? ? 1.309 1.391 -0.082 0.007 N 91 1 C5 B DG 22 ? ? N7 B DG 22 ? ? 1.327 1.388 -0.061 0.006 N 92 1 C8 B DG 22 ? ? N9 B DG 22 ? ? 1.304 1.374 -0.070 0.007 N 93 1 N9 B DG 22 ? ? C4 B DG 22 ? ? 1.309 1.375 -0.066 0.008 N 94 1 C2 B DG 22 ? ? N2 B DG 22 ? ? 1.255 1.341 -0.086 0.010 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DC 1 ? ? "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? 110.34 106.00 4.34 0.60 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? "C2'" A DC 1 ? ? 100.51 105.90 -5.39 0.80 N 3 1 C6 A DC 1 ? ? N1 A DC 1 ? ? C2 A DC 1 ? ? 122.85 120.30 2.55 0.40 N 4 1 N1 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 124.44 118.90 5.54 0.60 N 5 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 109.76 106.00 3.76 0.60 N 6 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 96.20 102.20 -6.00 0.70 N 7 1 "C3'" A DG 2 ? ? "O3'" A DG 2 ? ? P A DC 3 ? ? 127.64 119.70 7.94 1.20 Y 8 1 "O4'" A DC 3 ? ? "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? 109.97 106.00 3.97 0.60 N 9 1 N3 A DC 3 ? ? C4 A DC 3 ? ? C5 A DC 3 ? ? 119.31 121.90 -2.59 0.40 N 10 1 "C3'" A DC 3 ? ? "O3'" A DC 3 ? ? P A DG 4 ? ? 130.06 119.70 10.36 1.20 Y 11 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? "C2'" A DG 4 ? ? 101.03 105.90 -4.87 0.80 N 12 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.48 108.30 2.18 0.30 N 13 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 111.26 108.30 2.96 0.30 N 14 1 "C3'" A DA 5 ? ? "O3'" A DA 5 ? ? P A AAB 6 ? ? 127.60 119.70 7.90 1.20 Y 15 1 "C3'" A AAB 6 ? ? "O3'" A AAB 6 ? ? P A DA 7 ? ? 130.62 119.70 10.92 1.20 Y 16 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? "C2'" A DC 8 ? ? 97.28 105.90 -8.62 0.80 N 17 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? "C2'" A DG 9 ? ? 100.90 105.90 -5.00 0.80 N 18 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 111.77 108.30 3.47 0.30 N 19 1 P A DC 10 ? ? "O5'" A DC 10 ? ? "C5'" A DC 10 ? ? 137.16 120.90 16.26 1.60 N 20 1 "O4'" A DC 10 ? ? "C1'" A DC 10 ? ? N1 A DC 10 ? ? 111.09 108.30 2.79 0.30 N 21 1 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 97.78 102.20 -4.42 0.70 N 22 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 112.12 108.30 3.82 0.30 N 23 1 "O4'" B DG 12 ? ? "C1'" B DG 12 ? ? N9 B DG 12 ? ? 111.93 108.30 3.63 0.30 N 24 1 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 111.06 108.30 2.76 0.30 N 25 1 "O4'" B DC 19 ? ? "C1'" B DC 19 ? ? N1 B DC 19 ? ? 111.00 108.30 2.70 0.30 N 26 1 "C3'" B DC 19 ? ? "O3'" B DC 19 ? ? P B DG 20 ? ? 131.93 119.70 12.23 1.20 Y 27 1 "O4'" B DG 20 ? ? "C1'" B DG 20 ? ? N9 B DG 20 ? ? 110.97 108.30 2.67 0.30 N 28 1 N1 B DC 21 ? ? C2 B DC 21 ? ? O2 B DC 21 ? ? 122.53 118.90 3.63 0.60 N 29 1 "C3'" B DC 21 ? ? "O3'" B DC 21 ? ? P B DG 22 ? ? 127.87 119.70 8.17 1.20 Y 30 1 "O4'" B DG 22 ? ? "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? 99.45 104.50 -5.05 0.40 N 31 1 "C5'" B DG 22 ? ? "C4'" B DG 22 ? ? "O4'" B DG 22 ? ? 116.45 109.80 6.65 1.10 N 32 1 "O4'" B DG 22 ? ? "C1'" B DG 22 ? ? N9 B DG 22 ? ? 116.76 108.30 8.46 0.30 N # _pdbx_validate_chiral.id 1 _pdbx_validate_chiral.PDB_model_num 1 _pdbx_validate_chiral.auth_atom_id "C3'" _pdbx_validate_chiral.label_alt_id ? _pdbx_validate_chiral.auth_asym_id B _pdbx_validate_chiral.auth_comp_id DG _pdbx_validate_chiral.auth_seq_id 22 _pdbx_validate_chiral.PDB_ins_code ? _pdbx_validate_chiral.details 'WRONG HAND' _pdbx_validate_chiral.omega . # _pdbx_nmr_ensemble.entry_id 1A9H _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'AVERAGE OF 5 STRUCTURES THAT THE NOESY BACKCALCULATION AGREES WITH EXPERIMENTAL NOESY' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents TRIS # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 300 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength '50 mM KCL' _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 NOESY 1 2 1 PECOSY 1 3 1 TOCSY 1 4 1 ROESY 1 5 1 QUIET-NOESY 1 # _pdbx_nmr_details.entry_id 1A9H _pdbx_nmr_details.text ;100MS NOESY, 250MS NOESY 250MS QUIETNOESY 70MS BAND-SELECTIVE J TOCSY FOR PHOSPHOROUS "J SCALE" SET TO 2 AND 3 ; # _pdbx_nmr_refine.entry_id 1A9H _pdbx_nmr_refine.method 'matrix relaxation' _pdbx_nmr_refine.details ? _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 refinement X-PLOR 3.1 BRUNGER 1 'structure solution' VNMR ? ? 2 # 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 HOH O O N N 168 HOH H1 H N N 169 HOH H2 H N N 170 # 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 HOH O H1 sing N N 174 HOH O H2 sing N N 175 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1A9H 'b-form double helix' 1A9H '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 11 1_555 0.701 -0.594 0.239 -4.613 -5.416 -0.630 1 A_DC1:DG22_B A 1 ? B 22 ? 19 1 1 A DG 2 1_555 B DC 10 1_555 -0.607 -0.545 0.260 -0.684 -7.385 1.261 2 A_DG2:DC21_B A 2 ? B 21 ? 19 1 1 A DC 3 1_555 B DG 9 1_555 0.566 -0.452 0.083 -0.292 -5.993 -0.516 3 A_DC3:DG20_B A 3 ? B 20 ? 19 1 1 A DG 4 1_555 B DC 8 1_555 -0.534 -0.344 0.221 5.628 -12.971 -0.638 4 A_DG4:DC19_B A 4 ? B 19 ? 19 1 1 A DA 5 1_555 B DT 7 1_555 0.106 -0.145 0.393 19.268 -4.457 -4.927 5 A_DA5:DT18_B A 5 ? B 18 ? 20 1 1 A DA 7 1_555 B DT 5 1_555 0.143 -0.138 -0.184 3.269 -23.574 -1.102 6 A_DA7:DT16_B A 7 ? B 16 ? 20 1 1 A DC 8 1_555 B DG 4 1_555 0.359 -0.226 -0.100 12.359 -18.542 0.979 7 A_DC8:DG15_B A 8 ? B 15 ? 19 1 1 A DG 9 1_555 B DC 3 1_555 -0.430 -0.422 0.298 5.726 -4.139 0.168 8 A_DG9:DC14_B A 9 ? B 14 ? 19 1 1 A DC 10 1_555 B DG 2 1_555 0.455 -0.466 -0.153 11.959 -2.684 -0.178 9 A_DC10:DG13_B A 10 ? B 13 ? 19 1 1 A DC 11 1_555 B DG 1 1_555 0.541 -0.582 -0.490 18.182 -4.612 -3.311 10 A_DC11:DG12_B A 11 ? B 12 ? 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 11 1_555 A DG 2 1_555 B DC 10 1_555 -0.427 -0.880 2.775 -1.518 6.917 32.796 -2.462 0.534 2.558 12.075 2.650 33.532 1 AA_DC1DG2:DC21DG22_BB A 1 ? B 22 ? A 2 ? B 21 ? 1 A DG 2 1_555 B DC 10 1_555 A DC 3 1_555 B DG 9 1_555 -0.300 -0.687 3.033 -0.014 2.022 43.467 -1.107 0.404 2.999 2.729 0.019 43.512 2 AA_DG2DC3:DG20DC21_BB A 2 ? B 21 ? A 3 ? B 20 ? 1 A DC 3 1_555 B DG 9 1_555 A DG 4 1_555 B DC 8 1_555 0.160 -0.593 2.889 -0.058 5.941 30.574 -2.088 -0.308 2.728 11.135 0.109 31.133 3 AA_DC3DG4:DC19DG20_BB A 3 ? B 20 ? A 4 ? B 19 ? 1 A DG 4 1_555 B DC 8 1_555 A DA 5 1_555 B DT 7 1_555 -0.823 -0.013 2.887 -5.555 -1.002 38.568 0.090 0.628 2.971 -1.508 8.355 38.963 4 AA_DG4DA5:DT18DC19_BB A 4 ? B 19 ? A 5 ? B 18 ? 1 A DA 7 1_555 B DT 5 1_555 A DC 8 1_555 B DG 4 1_555 1.162 -0.159 2.882 1.645 -3.360 35.303 0.178 -1.691 2.933 -5.521 -2.703 35.495 5 AA_DA7DC8:DG15DT16_BB A 7 ? B 16 ? A 8 ? B 15 ? 1 A DC 8 1_555 B DG 4 1_555 A DG 9 1_555 B DC 3 1_555 0.787 -1.202 3.149 -3.843 10.613 27.960 -4.231 -2.210 2.415 20.917 7.574 30.110 6 AA_DC8DG9:DC14DG15_BB A 8 ? B 15 ? A 9 ? B 14 ? 1 A DG 9 1_555 B DC 3 1_555 A DC 10 1_555 B DG 2 1_555 -0.421 -0.722 3.038 2.354 -1.302 43.241 -0.860 0.783 3.032 -1.765 -3.191 43.321 7 AA_DG9DC10:DG13DC14_BB A 9 ? B 14 ? A 10 ? B 13 ? 1 A DC 10 1_555 B DG 2 1_555 A DC 11 1_555 B DG 1 1_555 -0.504 -0.716 3.070 -0.339 -2.427 37.476 -0.813 0.742 3.113 -3.773 0.526 37.553 8 AA_DC10DC11:DG12DG13_BB A 10 ? B 13 ? A 11 ? B 12 ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength 1 UNITY Varian 400 2 INOVA Varian 500 # _atom_sites.entry_id 1A9H _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_