data_1KVH # _entry.id 1KVH # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _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 1KVH pdb_00001kvh 10.2210/pdb1kvh/pdb RCSB RCSB015382 ? ? WWPDB D_1000015382 ? ? # 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 2002-06-19 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-23 5 'Structure model' 1 4 2024-05-22 # _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' 'Database references' 4 4 'Structure model' 'Derived calculations' 5 5 'Structure model' 'Data collection' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' database_2 2 4 'Structure model' pdbx_struct_assembly 3 4 'Structure model' pdbx_struct_oper_list 4 4 'Structure model' struct_site 5 5 'Structure model' chem_comp_atom 6 5 'Structure model' chem_comp_bond # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 4 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1KVH _pdbx_database_status.recvd_initial_deposition_date 2002-01-26 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Gao, X.' 1 'Stassinopoulos, A.' 2 'Ji, J.' 3 'Kwon, Y.' 4 'Bare, S.' 5 'Goldberg, I.H.' 6 # _citation.id primary _citation.title 'Induced formation of a DNA bulge structure by a molecular wedge ligand-postactivated neocarzinostatin chromophore.' _citation.journal_abbrev Biochemistry _citation.journal_volume 41 _citation.page_first 5131 _citation.page_last 5143 _citation.year 2002 _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 11955061 _citation.pdbx_database_id_DOI 10.1021/bi012112o # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Gao, X.' 1 ? primary 'Stassinopoulos, A.' 2 ? primary 'Ji, J.' 3 ? primary 'Kwon, Y.' 4 ? primary 'Bare, S.' 5 ? primary 'Goldberg, I.H.' 6 ? # 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*CP*GP*AP*TP*GP*C)-3'" 2387.581 1 ? ? ? ? 2 polymer syn "5'-D(*GP*CP*AP*AP*TP*TP*CP*GP*GP*G)-3'" 3085.029 1 ? ? ? ? 3 non-polymer syn ;SPIRO[[7-METHOXY-5-METHYL-1,2-DIHYDRO-NAPHTHALENE]-3,1'-[5-HYDROXY-9-[2-METHYLAMINO-2,6-DIDEOXYGALACTOPYRANOSYL-OXY]-5-(2-OXO-[1,3]DIOXOLAN-4-YL)-3A,5,9,9A-TETRAHYDRO-3H-1-OXA-CYCLOPENTA[A]-S-INDACEN-2-ONE]] ; 662.660 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DC)(DC)(DC)(DG)(DA)(DT)(DG)(DC)' CCCGATGC A ? 2 polydeoxyribonucleotide no no '(DG)(DC)(DA)(DA)(DT)(DT)(DC)(DG)(DG)(DG)' GCAATTCGGG B ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name ;SPIRO[[7-METHOXY-5-METHYL-1,2-DIHYDRO-NAPHTHALENE]-3,1'-[5-HYDROXY-9-[2-METHYLAMINO-2,6-DIDEOXYGALACTOPYRANOSYL-OXY]-5-(2-OXO-[1,3]DIOXOLAN-4-YL)-3A,5,9,9A-TETRAHYDRO-3H-1-OXA-CYCLOPENTA[A]-S-INDACEN-2-ONE]] ; _pdbx_entity_nonpoly.comp_id NCS # 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 DC n 1 4 DG n 1 5 DA n 1 6 DT n 1 7 DG n 1 8 DC n 2 1 DG n 2 2 DC n 2 3 DA n 2 4 DA n 2 5 DT n 2 6 DT n 2 7 DC n 2 8 DG n 2 9 DG n 2 10 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 NCS non-polymer . ;SPIRO[[7-METHOXY-5-METHYL-1,2-DIHYDRO-NAPHTHALENE]-3,1'-[5-HYDROXY-9-[2-METHYLAMINO-2,6-DIDEOXYGALACTOPYRANOSYL-OXY]-5-(2-OXO-[1,3]DIOXOLAN-4-YL)-3A,5,9,9A-TETRAHYDRO-3H-1-OXA-CYCLOPENTA[A]-S-INDACEN-2-ONE]] ; ? 'C35 H36 N O12 1' 662.660 # 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 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 DT 6 6 6 DT T A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DC 8 8 8 DC C A . n B 2 1 DG 1 9 9 DG G B . n B 2 2 DC 2 10 10 DC C B . n B 2 3 DA 3 11 11 DA A B . n B 2 4 DA 4 12 12 DA A B . n B 2 5 DT 5 13 13 DT T B . n B 2 6 DT 6 14 14 DT T B . n B 2 7 DC 7 15 15 DC C B . n B 2 8 DG 8 16 16 DG G B . n B 2 9 DG 9 17 17 DG G B . n B 2 10 DG 10 18 18 DG G B . n # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id NCS _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 21 _pdbx_nonpoly_scheme.auth_seq_num 21 _pdbx_nonpoly_scheme.pdb_mon_id NCS _pdbx_nonpoly_scheme.auth_mon_id PEA _pdbx_nonpoly_scheme.pdb_strand_id B _pdbx_nonpoly_scheme.pdb_ins_code . # _exptl.entry_id 1KVH _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 ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _database_PDB_matrix.entry_id 1KVH _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 1KVH _struct.title ;NCSi-gb-bulge-DNA complex induced formation of a DNA bulge structure by a molecular wedge ligand-post-activated neocarzinostatin chromophore ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1KVH _struct_keywords.pdbx_keywords DNA _struct_keywords.text 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 1KVH 1KVH ? ? ? 2 2 PDB 1KVH 1KVH ? ? ? # 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 1KVH A 1 ? 8 ? 1KVH 1 ? 8 ? 1 8 2 2 1KVH B 1 ? 10 ? 1KVH 9 ? 18 ? 9 18 # _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 hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 1 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 1 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 1 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 2 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 2 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 8 N1 ? ? A DC 3 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 8 O6 ? ? A DC 3 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 8 N2 ? ? A DC 3 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 5 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 5 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 3 N1 ? ? A DT 6 B DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 3 N6 ? ? A DT 6 B DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 7 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 7 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 7 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id B _struct_site.pdbx_auth_comp_id NCS _struct_site.pdbx_auth_seq_id 21 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 8 _struct_site.details 'BINDING SITE FOR RESIDUE NCS B 21' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 8 DC A 3 ? DC A 3 . ? 1_555 ? 2 AC1 8 DG A 4 ? DG A 4 . ? 1_555 ? 3 AC1 8 DA A 5 ? DA A 5 . ? 1_555 ? 4 AC1 8 DT A 6 ? DT A 6 . ? 1_555 ? 5 AC1 8 DA B 3 ? DA B 11 . ? 1_555 ? 6 AC1 8 DA B 4 ? DA B 12 . ? 1_555 ? 7 AC1 8 DT B 5 ? DT B 13 . ? 1_555 ? 8 AC1 8 DT B 6 ? DT B 14 . ? 1_555 ? # 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 ? ? 111.15 108.30 2.85 0.30 N 2 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.10 108.30 1.80 0.30 N 3 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.30 108.30 2.00 0.30 N 4 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.88 108.30 2.58 0.30 N 5 1 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.59 113.10 3.49 0.50 N 6 1 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.34 106.40 -3.06 0.40 N 7 1 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.01 113.80 3.21 0.50 N 8 1 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 103.09 105.80 -2.71 0.40 N 9 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.89 108.30 3.59 0.30 N 10 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 112.10 108.30 3.80 0.30 N 11 1 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.59 113.10 3.49 0.50 N 12 1 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.27 106.40 -3.13 0.40 N 13 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.54 108.30 2.24 0.30 N 14 1 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 111.04 108.30 2.74 0.30 N 15 1 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.71 113.10 3.61 0.50 N 16 1 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.32 106.40 -3.08 0.40 N 17 1 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.24 108.30 2.94 0.30 N 18 1 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 111.05 108.30 2.75 0.30 N 19 1 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.97 113.80 3.17 0.50 N 20 1 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.21 105.80 -2.59 0.40 N 21 1 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.64 108.30 3.34 0.30 N 22 1 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.10 113.80 3.30 0.50 N 23 1 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 103.03 105.80 -2.77 0.40 N 24 1 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 112.13 108.30 3.83 0.30 N 25 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.49 108.30 2.19 0.30 N 26 1 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.06 108.30 2.76 0.30 N 27 1 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.68 113.10 3.58 0.50 N 28 1 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.31 106.40 -3.09 0.40 N 29 1 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.18 108.30 1.88 0.30 N 30 1 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.72 113.10 3.62 0.50 N 31 1 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.33 106.40 -3.07 0.40 N 32 1 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.36 108.30 2.06 0.30 N 33 1 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.74 113.10 3.64 0.50 N 34 1 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.36 106.40 -3.04 0.40 N 35 2 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.03 108.30 2.73 0.30 N 36 2 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.14 108.30 1.84 0.30 N 37 2 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.24 108.30 1.94 0.30 N 38 2 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.90 108.30 2.60 0.30 N 39 2 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.73 113.10 3.63 0.50 N 40 2 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.27 106.40 -3.13 0.40 N 41 2 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.09 113.80 3.29 0.50 N 42 2 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 103.06 105.80 -2.74 0.40 N 43 2 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 112.12 108.30 3.82 0.30 N 44 2 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.97 108.30 3.67 0.30 N 45 2 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.65 113.10 3.55 0.50 N 46 2 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.29 106.40 -3.11 0.40 N 47 2 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.33 108.30 2.03 0.30 N 48 2 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 110.94 108.30 2.64 0.30 N 49 2 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.78 113.10 3.68 0.50 N 50 2 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.28 106.40 -3.12 0.40 N 51 2 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.36 108.30 3.06 0.30 N 52 2 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 111.07 108.30 2.77 0.30 N 53 2 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.83 113.80 3.03 0.50 N 54 2 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.24 105.80 -2.56 0.40 N 55 2 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.53 108.30 3.23 0.30 N 56 2 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.05 113.80 3.25 0.50 N 57 2 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 103.04 105.80 -2.76 0.40 N 58 2 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 111.85 108.30 3.55 0.30 N 59 2 C6 B DT 13 ? ? C5 B DT 13 ? ? C7 B DT 13 ? ? 119.11 122.90 -3.79 0.60 N 60 2 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.40 108.30 2.10 0.30 N 61 2 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 110.99 108.30 2.69 0.30 N 62 2 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.66 113.10 3.56 0.50 N 63 2 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.36 106.40 -3.04 0.40 N 64 2 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.13 108.30 1.83 0.30 N 65 2 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.69 113.10 3.59 0.50 N 66 2 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.34 106.40 -3.06 0.40 N 67 2 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.38 108.30 2.08 0.30 N 68 2 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.67 113.10 3.57 0.50 N 69 2 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.30 106.40 -3.10 0.40 N 70 3 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.43 108.30 3.13 0.30 N 71 3 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.34 108.30 2.04 0.30 N 72 3 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.39 108.30 2.09 0.30 N 73 3 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 111.03 108.30 2.73 0.30 N 74 3 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.60 113.10 3.50 0.50 N 75 3 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.38 106.40 -3.02 0.40 N 76 3 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.07 113.80 3.27 0.50 N 77 3 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 103.11 105.80 -2.69 0.40 N 78 3 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.89 108.30 3.59 0.30 N 79 3 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.90 108.30 3.60 0.30 N 80 3 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.67 113.10 3.57 0.50 N 81 3 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.30 106.40 -3.10 0.40 N 82 3 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.54 108.30 2.24 0.30 N 83 3 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 111.18 108.30 2.88 0.30 N 84 3 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.72 113.10 3.62 0.50 N 85 3 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.33 106.40 -3.07 0.40 N 86 3 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.11 108.30 2.81 0.30 N 87 3 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 110.90 108.30 2.60 0.30 N 88 3 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.84 113.80 3.04 0.50 N 89 3 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.26 105.80 -2.54 0.40 N 90 3 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.80 108.30 3.50 0.30 N 91 3 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.09 113.80 3.29 0.50 N 92 3 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 103.02 105.80 -2.78 0.40 N 93 3 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 112.07 108.30 3.77 0.30 N 94 3 C6 B DT 13 ? ? C5 B DT 13 ? ? C7 B DT 13 ? ? 119.10 122.90 -3.80 0.60 N 95 3 C6 B DT 14 ? ? C5 B DT 14 ? ? C7 B DT 14 ? ? 119.30 122.90 -3.60 0.60 N 96 3 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.69 108.30 2.39 0.30 N 97 3 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.16 108.30 2.86 0.30 N 98 3 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.77 113.10 3.67 0.50 N 99 3 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.32 106.40 -3.08 0.40 N 100 3 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.22 108.30 1.92 0.30 N 101 3 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.66 113.10 3.56 0.50 N 102 3 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.36 106.40 -3.04 0.40 N 103 3 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.19 108.30 1.89 0.30 N 104 3 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.72 113.10 3.62 0.50 N 105 3 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.33 106.40 -3.07 0.40 N 106 4 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.63 108.30 3.33 0.30 N 107 4 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.30 108.30 2.00 0.30 N 108 4 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.79 108.30 2.49 0.30 N 109 4 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.69 113.10 3.59 0.50 N 110 4 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.39 106.40 -3.01 0.40 N 111 4 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.10 113.80 3.30 0.50 N 112 4 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 103.02 105.80 -2.78 0.40 N 113 4 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.58 108.30 3.28 0.30 N 114 4 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 112.30 108.30 4.00 0.30 N 115 4 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.64 113.10 3.54 0.50 N 116 4 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.26 106.40 -3.14 0.40 N 117 4 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.60 108.30 2.30 0.30 N 118 4 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 111.14 108.30 2.84 0.30 N 119 4 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.77 113.10 3.67 0.50 N 120 4 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.28 106.40 -3.12 0.40 N 121 4 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.06 108.30 2.76 0.30 N 122 4 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 110.64 108.30 2.34 0.30 N 123 4 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.91 113.80 3.11 0.50 N 124 4 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.20 105.80 -2.60 0.40 N 125 4 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.51 108.30 3.21 0.30 N 126 4 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.12 113.80 3.32 0.50 N 127 4 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 103.08 105.80 -2.72 0.40 N 128 4 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 112.21 108.30 3.91 0.30 N 129 4 C6 B DT 14 ? ? C5 B DT 14 ? ? C7 B DT 14 ? ? 119.22 122.90 -3.68 0.60 N 130 4 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.45 108.30 2.15 0.30 N 131 4 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.15 108.30 2.85 0.30 N 132 4 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.64 113.10 3.54 0.50 N 133 4 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.36 106.40 -3.04 0.40 N 134 4 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.45 108.30 2.15 0.30 N 135 4 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.67 113.10 3.57 0.50 N 136 4 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.35 106.40 -3.05 0.40 N 137 4 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.28 108.30 1.98 0.30 N 138 4 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.73 113.10 3.63 0.50 N 139 4 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.31 106.40 -3.09 0.40 N 140 5 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.37 108.30 3.07 0.30 N 141 5 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.13 108.30 1.83 0.30 N 142 5 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.24 108.30 1.94 0.30 N 143 5 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.95 108.30 2.65 0.30 N 144 5 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.66 113.10 3.56 0.50 N 145 5 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.33 106.40 -3.07 0.40 N 146 5 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.05 113.80 3.25 0.50 N 147 5 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 103.07 105.80 -2.73 0.40 N 148 5 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.93 108.30 3.63 0.30 N 149 5 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.92 108.30 3.62 0.30 N 150 5 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.63 113.10 3.53 0.50 N 151 5 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.25 106.40 -3.15 0.40 N 152 5 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.59 108.30 2.29 0.30 N 153 5 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 111.08 108.30 2.78 0.30 N 154 5 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.76 113.10 3.66 0.50 N 155 5 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.29 106.40 -3.11 0.40 N 156 5 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.22 108.30 2.92 0.30 N 157 5 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 110.99 108.30 2.69 0.30 N 158 5 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.90 113.80 3.10 0.50 N 159 5 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.18 105.80 -2.62 0.40 N 160 5 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.70 108.30 3.40 0.30 N 161 5 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.14 113.80 3.34 0.50 N 162 5 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 103.01 105.80 -2.79 0.40 N 163 5 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 112.03 108.30 3.73 0.30 N 164 5 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.32 108.30 2.02 0.30 N 165 5 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.19 108.30 2.89 0.30 N 166 5 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.76 113.10 3.66 0.50 N 167 5 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.32 106.40 -3.08 0.40 N 168 5 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.26 108.30 1.96 0.30 N 169 5 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.71 113.10 3.61 0.50 N 170 5 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.39 106.40 -3.01 0.40 N 171 5 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.42 108.30 2.12 0.30 N 172 5 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.70 113.10 3.60 0.50 N 173 5 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.37 106.40 -3.03 0.40 N 174 6 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.35 108.30 3.05 0.30 N 175 6 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.13 108.30 1.83 0.30 N 176 6 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.30 108.30 2.00 0.30 N 177 6 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 110.89 108.30 2.59 0.30 N 178 6 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.66 113.10 3.56 0.50 N 179 6 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.31 106.40 -3.09 0.40 N 180 6 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.10 113.80 3.30 0.50 N 181 6 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 103.09 105.80 -2.71 0.40 N 182 6 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.97 108.30 3.67 0.30 N 183 6 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.99 108.30 3.69 0.30 N 184 6 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.65 113.10 3.55 0.50 N 185 6 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.26 106.40 -3.14 0.40 N 186 6 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.46 108.30 2.16 0.30 N 187 6 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 111.05 108.30 2.75 0.30 N 188 6 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.76 113.10 3.66 0.50 N 189 6 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.26 106.40 -3.14 0.40 N 190 6 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.23 108.30 2.93 0.30 N 191 6 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 110.79 108.30 2.49 0.30 N 192 6 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.85 113.80 3.05 0.50 N 193 6 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.23 105.80 -2.57 0.40 N 194 6 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.74 108.30 3.44 0.30 N 195 6 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.11 113.80 3.31 0.50 N 196 6 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 103.04 105.80 -2.76 0.40 N 197 6 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 111.97 108.30 3.67 0.30 N 198 6 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.37 108.30 2.07 0.30 N 199 6 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.13 108.30 2.83 0.30 N 200 6 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.73 113.10 3.63 0.50 N 201 6 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.35 106.40 -3.05 0.40 N 202 6 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.32 108.30 2.02 0.30 N 203 6 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.66 113.10 3.56 0.50 N 204 6 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.35 106.40 -3.05 0.40 N 205 6 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.24 108.30 1.94 0.30 N 206 6 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.66 113.10 3.56 0.50 N 207 6 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.37 106.40 -3.03 0.40 N 208 7 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 111.49 108.30 3.19 0.30 N 209 7 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.17 108.30 1.87 0.30 N 210 7 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.39 108.30 2.09 0.30 N 211 7 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 111.19 108.30 2.89 0.30 N 212 7 N7 A DG 4 ? ? C8 A DG 4 ? ? N9 A DG 4 ? ? 116.65 113.10 3.55 0.50 N 213 7 C8 A DG 4 ? ? N9 A DG 4 ? ? C4 A DG 4 ? ? 103.42 106.40 -2.98 0.40 N 214 7 N7 A DA 5 ? ? C8 A DA 5 ? ? N9 A DA 5 ? ? 117.17 113.80 3.37 0.50 N 215 7 C8 A DA 5 ? ? N9 A DA 5 ? ? C4 A DA 5 ? ? 102.54 105.80 -3.26 0.40 N 216 7 N1 A DA 5 ? ? C6 A DA 5 ? ? N6 A DA 5 ? ? 114.17 118.60 -4.43 0.60 N 217 7 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.96 108.30 3.66 0.30 N 218 7 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 112.08 108.30 3.78 0.30 N 219 7 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.59 113.10 3.49 0.50 N 220 7 C8 A DG 7 ? ? N9 A DG 7 ? ? C4 A DG 7 ? ? 103.35 106.40 -3.05 0.40 N 221 7 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1 A DC 8 ? ? 110.36 108.30 2.06 0.30 N 222 7 "O4'" B DG 9 ? ? "C1'" B DG 9 ? ? N9 B DG 9 ? ? 110.95 108.30 2.65 0.30 N 223 7 N7 B DG 9 ? ? C8 B DG 9 ? ? N9 B DG 9 ? ? 116.71 113.10 3.61 0.50 N 224 7 C8 B DG 9 ? ? N9 B DG 9 ? ? C4 B DG 9 ? ? 103.31 106.40 -3.09 0.40 N 225 7 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 111.25 108.30 2.95 0.30 N 226 7 "O4'" B DA 11 ? ? "C1'" B DA 11 ? ? N9 B DA 11 ? ? 110.74 108.30 2.44 0.30 N 227 7 N7 B DA 11 ? ? C8 B DA 11 ? ? N9 B DA 11 ? ? 116.82 113.80 3.02 0.50 N 228 7 C8 B DA 11 ? ? N9 B DA 11 ? ? C4 B DA 11 ? ? 103.24 105.80 -2.56 0.40 N 229 7 "O4'" B DA 12 ? ? "C1'" B DA 12 ? ? N9 B DA 12 ? ? 111.15 108.30 2.85 0.30 N 230 7 N7 B DA 12 ? ? C8 B DA 12 ? ? N9 B DA 12 ? ? 117.27 113.80 3.47 0.50 N 231 7 C8 B DA 12 ? ? N9 B DA 12 ? ? C4 B DA 12 ? ? 102.98 105.80 -2.82 0.40 N 232 7 "O4'" B DT 13 ? ? "C1'" B DT 13 ? ? N1 B DT 13 ? ? 112.68 108.30 4.38 0.30 N 233 7 C6 B DT 13 ? ? C5 B DT 13 ? ? C7 B DT 13 ? ? 119.08 122.90 -3.82 0.60 N 234 7 "C3'" B DT 13 ? ? "O3'" B DT 13 ? ? P B DT 14 ? ? 128.13 119.70 8.43 1.20 Y 235 7 C4 B DT 14 ? ? C5 B DT 14 ? ? C6 B DT 14 ? ? 121.66 118.00 3.66 0.60 N 236 7 C6 B DT 14 ? ? C5 B DT 14 ? ? C7 B DT 14 ? ? 118.85 122.90 -4.05 0.60 N 237 7 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 111.06 108.30 2.76 0.30 N 238 7 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.07 108.30 2.77 0.30 N 239 7 N7 B DG 16 ? ? C8 B DG 16 ? ? N9 B DG 16 ? ? 116.67 113.10 3.57 0.50 N 240 7 C8 B DG 16 ? ? N9 B DG 16 ? ? C4 B DG 16 ? ? 103.34 106.40 -3.06 0.40 N 241 7 "O4'" B DG 17 ? ? "C1'" B DG 17 ? ? N9 B DG 17 ? ? 110.44 108.30 2.14 0.30 N 242 7 N7 B DG 17 ? ? C8 B DG 17 ? ? N9 B DG 17 ? ? 116.70 113.10 3.60 0.50 N 243 7 C8 B DG 17 ? ? N9 B DG 17 ? ? C4 B DG 17 ? ? 103.33 106.40 -3.07 0.40 N 244 7 "O4'" B DG 18 ? ? "C1'" B DG 18 ? ? N9 B DG 18 ? ? 110.36 108.30 2.06 0.30 N 245 7 N7 B DG 18 ? ? C8 B DG 18 ? ? N9 B DG 18 ? ? 116.65 113.10 3.55 0.50 N 246 7 C8 B DG 18 ? ? N9 B DG 18 ? ? C4 B DG 18 ? ? 103.34 106.40 -3.06 0.40 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DT B 14 ? ? 0.072 'SIDE CHAIN' 2 2 DT B 14 ? ? 0.075 'SIDE CHAIN' 3 3 DT B 14 ? ? 0.074 'SIDE CHAIN' 4 4 DT B 14 ? ? 0.070 'SIDE CHAIN' 5 5 DT B 14 ? ? 0.074 'SIDE CHAIN' 6 6 DT B 14 ? ? 0.074 'SIDE CHAIN' 7 7 DA A 5 ? ? 0.084 'SIDE CHAIN' 8 7 DT B 14 ? ? 0.111 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 1KVH _pdbx_nmr_ensemble.conformers_calculated_total_number 7 _pdbx_nmr_ensemble.conformers_submitted_total_number 7 _pdbx_nmr_ensemble.conformer_selection_criteria 'all calculated structures submitted' _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 ? # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 'ca. 1 mM NCSi-gb-bulge-DNA complex; 0.1 M NaCl, 10 mM sodium phosphate, and 0.1 mM EDTA buffer (pH 6.4); 90% H2O, 10% D2O' '90% H2O/10% D2O' 2 'ca. 1 mM NCSi-gb-bulge-DNA complex; 0.1 M NaCl, 10 mM sodium phosphate, and 0.1 mM EDTA buffer (pH 6.4); 99.96% D2O' '99.96% D2O' # 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 1 270 ? 6.4 '0.1M NACL, 10 mM SODIUM PHOSPHATE' ? K 2 278 ? 6.4 '0.1M NACL, 10 mM SODIUM PHOSPHATE' ? K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 2 2 '2D NOESY' 3 2 2 DQF-COSY 4 2 2 PE-COSY 5 2 2 'TOCSY, H-P COSY' # _pdbx_nmr_details.entry_id 1KVH _pdbx_nmr_details.text 'This structure was determined using 2D homonuclear and heteronuclear techniques' # _pdbx_nmr_refine.entry_id 1KVH _pdbx_nmr_refine.method 'distance geometry (DG), restrained molecular dynamics (rMDS), and relaxation matrix refinement' _pdbx_nmr_refine.details ;A total of 681 NMR restraints is used to derive the final refined structures. The total restraints consist of 590 of NOE-derived distance restraints and 91 of dihedral angle restraints. Especially, 85 of intermolecular distance restraints are derived which represent the interaction between the drug and the bulge duplex. ; _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_software.name X-PLOR _pdbx_nmr_software.version 3.01 _pdbx_nmr_software.classification refinement _pdbx_nmr_software.authors Brunger _pdbx_nmr_software.ordinal 1 # 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 NCS C1 C Y N 144 NCS C2 C Y N 145 NCS C3 C Y N 146 NCS C4 C Y N 147 NCS C5 C Y N 148 NCS C6 C Y N 149 NCS C7 C N N 150 NCS C8 C N N 151 NCS C9 C N R 152 NCS O9 O N N 153 NCS C10 C N R 154 NCS C11 C N R 155 NCS C12 C N R 156 NCS C13 C N R 157 NCS O14 O N N 158 NCS C15 C N N 159 NCS O15 O N N 160 NCS O16 O N N 161 NCS C17 C N N 162 NCS O18 O N N 163 NCS C19 C N N 164 NCS O19 O N N 165 NCS C20 C N S 166 NCS C21 C N N 167 NCS O21 O N N 168 NCS C22 C N N 169 NCS C23 C N N 170 NCS C24 C Y N 171 NCS C25 C Y N 172 NCS C26 C Y N 173 NCS C27 C Y N 174 NCS O27 O N N 175 NCS C28 C Y N 176 NCS C29 C Y N 177 NCS C30 C N N 178 NCS C31 C N N 179 NCS "O1'" O N N 180 NCS "C1'" C N R 181 NCS "C2'" C N R 182 NCS "N2'" N N N 183 NCS C2M C N N 184 NCS "C3'" C N R 185 NCS "O3'" O N N 186 NCS "C4'" C N R 187 NCS "O4'" O N N 188 NCS "C5'" C N R 189 NCS C5M C N N 190 NCS "O5'" O N N 191 NCS H2 H N N 192 NCS H5 H N N 193 NCS H7 H N N 194 NCS H8 H N N 195 NCS HO9 H N N 196 NCS H10 H N N 197 NCS H11 H N N 198 NCS H12 H N N 199 NCS H13 H N N 200 NCS H171 H N N 201 NCS H172 H N N 202 NCS H22 H N N 203 NCS H23 H N N 204 NCS H26 H N N 205 NCS H28 H N N 206 NCS H301 H N N 207 NCS H302 H N N 208 NCS H303 H N N 209 NCS H311 H N N 210 NCS H312 H N N 211 NCS H313 H N N 212 NCS "H1'" H N N 213 NCS "H2'" H N N 214 NCS HN21 H N N 215 NCS HN22 H N N 216 NCS HM21 H N N 217 NCS HM22 H N N 218 NCS HM23 H N N 219 NCS "H3'" H N N 220 NCS "HO3'" H N N 221 NCS "H4'" H N N 222 NCS "HO4'" H N N 223 NCS "H5'" H N N 224 NCS HM51 H N N 225 NCS HM52 H N N 226 NCS HM53 H N N 227 # 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 NCS C1 C2 doub Y N 150 NCS C1 C6 sing Y N 151 NCS C1 C12 sing N N 152 NCS C2 C3 sing Y N 153 NCS C2 H2 sing N N 154 NCS C3 C4 doub Y N 155 NCS C3 C7 sing N N 156 NCS C4 C5 sing Y N 157 NCS C4 C9 sing N N 158 NCS C5 C6 doub Y N 159 NCS C5 H5 sing N N 160 NCS C6 C10 sing N N 161 NCS C7 C8 doub N N 162 NCS C7 H7 sing N N 163 NCS C8 C9 sing N N 164 NCS C8 H8 sing N N 165 NCS C9 O9 sing N N 166 NCS C9 C13 sing N N 167 NCS O9 HO9 sing N N 168 NCS C10 C11 sing N N 169 NCS C10 C20 sing N N 170 NCS C10 H10 sing N N 171 NCS C11 C12 sing N N 172 NCS C11 O18 sing N N 173 NCS C11 H11 sing N N 174 NCS C12 "O1'" sing N N 175 NCS C12 H12 sing N N 176 NCS C13 O14 sing N N 177 NCS C13 C17 sing N N 178 NCS C13 H13 sing N N 179 NCS O14 C15 sing N N 180 NCS C15 O15 doub N N 181 NCS C15 O16 sing N N 182 NCS O16 C17 sing N N 183 NCS C17 H171 sing N N 184 NCS C17 H172 sing N N 185 NCS O18 C19 sing N N 186 NCS C19 O19 doub N N 187 NCS C19 C20 sing N N 188 NCS C20 C21 sing N N 189 NCS C20 C25 sing N N 190 NCS C21 O21 doub N N 191 NCS C21 C22 sing N N 192 NCS C22 C23 doub N N 193 NCS C22 H22 sing N N 194 NCS C23 C24 sing N N 195 NCS C23 H23 sing N N 196 NCS C24 C25 doub Y N 197 NCS C24 C29 sing Y N 198 NCS C25 C26 sing Y N 199 NCS C26 C27 doub Y N 200 NCS C26 H26 sing N N 201 NCS C27 O27 sing N N 202 NCS C27 C28 sing Y N 203 NCS O27 C31 sing N N 204 NCS C28 C29 doub Y N 205 NCS C28 H28 sing N N 206 NCS C29 C30 sing N N 207 NCS C30 H301 sing N N 208 NCS C30 H302 sing N N 209 NCS C30 H303 sing N N 210 NCS C31 H311 sing N N 211 NCS C31 H312 sing N N 212 NCS C31 H313 sing N N 213 NCS "O1'" "C1'" sing N N 214 NCS "C1'" "C2'" sing N N 215 NCS "C1'" "O5'" sing N N 216 NCS "C1'" "H1'" sing N N 217 NCS "C2'" "N2'" sing N N 218 NCS "C2'" "C3'" sing N N 219 NCS "C2'" "H2'" sing N N 220 NCS "N2'" C2M sing N N 221 NCS "N2'" HN21 sing N N 222 NCS "N2'" HN22 sing N N 223 NCS C2M HM21 sing N N 224 NCS C2M HM22 sing N N 225 NCS C2M HM23 sing N N 226 NCS "C3'" "O3'" sing N N 227 NCS "C3'" "C4'" sing N N 228 NCS "C3'" "H3'" sing N N 229 NCS "O3'" "HO3'" sing N N 230 NCS "C4'" "O4'" sing N N 231 NCS "C4'" "C5'" sing N N 232 NCS "C4'" "H4'" sing N N 233 NCS "O4'" "HO4'" sing N N 234 NCS "C5'" C5M sing N N 235 NCS "C5'" "O5'" sing N N 236 NCS "C5'" "H5'" sing N N 237 NCS C5M HM51 sing N N 238 NCS C5M HM52 sing N N 239 NCS C5M HM53 sing N N 240 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1KVH 'b-form double helix' 1KVH 'bulge loop' # 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 10 1_555 0.733 -0.305 0.038 4.829 -0.424 -1.476 1 A_DC1:DG18_B A 1 ? B 18 ? 19 1 1 A DC 2 1_555 B DG 9 1_555 0.450 -0.127 0.595 -28.410 1.877 -1.678 2 A_DC2:DG17_B A 2 ? B 17 ? 19 1 1 A DC 3 1_555 B DG 8 1_555 0.632 -0.265 0.228 -5.893 -2.623 -1.669 3 A_DC3:DG16_B A 3 ? B 16 ? 19 1 1 A DG 4 1_555 B DC 7 1_555 -0.639 -0.213 0.371 19.792 8.468 -0.974 4 A_DG4:DC15_B A 4 ? B 15 ? 19 1 1 A DA 5 1_555 B DT 6 1_555 0.081 -0.361 -0.636 27.436 -13.468 9.375 5 A_DA5:DT14_B A 5 ? B 14 ? 20 1 1 A DT 6 1_555 B DA 3 1_555 0.516 -0.165 0.520 -42.910 -10.776 4.033 6 A_DT6:DA11_B A 6 ? B 11 ? 20 1 1 A DG 7 1_555 B DC 2 1_555 -0.578 -0.077 -0.697 -36.705 -15.975 -0.002 7 A_DG7:DC10_B A 7 ? B 10 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.468 -0.140 0.331 -24.298 5.233 -1.406 8 A_DC8:DG9_B A 8 ? B 9 ? 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 10 1_555 A DC 2 1_555 B DG 9 1_555 0.630 2.192 5.178 -4.015 41.255 31.965 -2.966 -1.252 4.906 53.702 5.227 51.910 1 AA_DC1DC2:DG17DG18_BB A 1 ? B 18 ? A 2 ? B 17 ? 1 A DC 2 1_555 B DG 9 1_555 A DC 3 1_555 B DG 8 1_555 0.302 1.271 3.068 0.575 1.847 30.915 2.042 -0.461 3.142 3.461 -1.077 30.974 2 AA_DC2DC3:DG16DG17_BB A 2 ? B 17 ? A 3 ? B 16 ? 1 A DC 3 1_555 B DG 8 1_555 A DG 4 1_555 B DC 7 1_555 0.460 0.287 3.242 -2.001 7.241 18.498 -2.567 -2.267 3.065 21.416 5.917 19.953 3 AA_DC3DG4:DC15DG16_BB A 3 ? B 16 ? A 4 ? B 15 ? 1 A DG 4 1_555 B DC 7 1_555 A DA 5 1_555 B DT 6 1_555 -0.071 1.535 3.600 12.665 16.761 31.485 -0.273 2.111 3.665 27.403 -20.707 37.702 4 AA_DG4DA5:DT14DC15_BB A 4 ? B 15 ? A 5 ? B 14 ? 1 A DT 6 1_555 B DA 3 1_555 A DG 7 1_555 B DC 2 1_555 0.094 -0.236 3.133 4.054 16.001 29.460 -2.877 0.463 2.652 28.794 -7.295 33.679 5 AA_DT6DG7:DC10DA11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A DG 7 1_555 B DC 2 1_555 A DC 8 1_555 B DG 1 1_555 -0.723 0.682 3.299 -6.102 5.603 33.216 0.234 0.222 3.440 9.617 10.472 34.205 6 AA_DG7DC8:DG9DC10_BB A 7 ? B 10 ? A 8 ? B 9 ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model AMX _pdbx_nmr_spectrometer.field_strength 600 # _atom_sites.entry_id 1KVH _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_