data_1NAJ # _entry.id 1NAJ # _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 1NAJ pdb_00001naj 10.2210/pdb1naj/pdb RCSB RCSB017718 ? ? WWPDB D_1000017718 ? ? # 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 2003-07-08 2 'Structure model' 1 1 2008-04-28 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' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 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_nmr_software 3 4 'Structure model' pdbx_nmr_spectrometer 4 4 'Structure model' pdbx_struct_assembly 5 4 'Structure model' pdbx_struct_oper_list 6 5 'Structure model' chem_comp_atom 7 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' '_pdbx_nmr_software.name' 4 4 'Structure model' '_pdbx_nmr_spectrometer.model' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1NAJ _pdbx_database_status.recvd_initial_deposition_date 2002-11-27 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _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_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1BNA . unspecified PDB 355D . unspecified PDB 1DUF . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Wu, Z.' 1 'Delaglio, F.' 2 'Tjandra, N.' 3 'Zhurkin, V.' 4 'Bax, A.' 5 # _citation.id primary _citation.title ;Overall structure and sugar dynamics of a DNA dodecamer from homo- and heteronuclear dipolar couplings and (31)P chemical shift anisotropy. ; _citation.journal_abbrev J.Biomol.Nmr _citation.journal_volume 26 _citation.page_first 297 _citation.page_last 315 _citation.year 2003 _citation.journal_id_ASTM JBNME9 _citation.country NE _citation.journal_id_ISSN 0925-2738 _citation.journal_id_CSD 0800 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 12815257 _citation.pdbx_database_id_DOI 10.1023/A:1024047103398 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wu, Z.' 1 ? primary 'Delaglio, F.' 2 ? primary 'Tjandra, N.' 3 ? primary 'Zhurkin, V.B.' 4 ? primary 'Bax, A.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'" _entity.formula_weight 3663.392 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # 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 DA n 1 7 DT n 1 8 DT n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 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 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC CYT A . n A 1 2 DG 2 2 2 DG GUA A . n A 1 3 DC 3 3 3 DC CYT A . n A 1 4 DG 4 4 4 DG GUA A . n A 1 5 DA 5 5 5 DA ADE A . n A 1 6 DA 6 6 6 DA ADE A . n A 1 7 DT 7 7 7 DT THY A . n A 1 8 DT 8 8 8 DT THY A . n A 1 9 DC 9 9 9 DC CYT A . n A 1 10 DG 10 10 10 DG GUA A . n A 1 11 DC 11 11 11 DC CYT A . n A 1 12 DG 12 12 12 DG GUA A . n B 1 1 DC 1 13 13 DC CYT B . n B 1 2 DG 2 14 14 DG GUA B . n B 1 3 DC 3 15 15 DC CYT B . n B 1 4 DG 4 16 16 DG GUA B . n B 1 5 DA 5 17 17 DA ADE B . n B 1 6 DA 6 18 18 DA ADE B . n B 1 7 DT 7 19 19 DT THY B . n B 1 8 DT 8 20 20 DT THY B . n B 1 9 DC 9 21 21 DC CYT B . n B 1 10 DG 10 22 22 DG GUA B . n B 1 11 DC 11 23 23 DC CYT B . n B 1 12 DG 12 24 24 DG GUA B . n # _exptl.entry_id 1NAJ _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 1NAJ _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 1NAJ _struct.title 'High resolution NMR Structure Of DNA Dodecamer Determined In Aqueous Dilute Liquid Crystalline Phase' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1NAJ _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Dickerson Dodecamer, 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 1 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1NAJ _struct_ref.pdbx_db_accession 1NAJ _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1NAJ A 1 ? 12 ? 1NAJ 1 ? 12 ? 1 12 2 1 1NAJ B 1 ? 12 ? 1NAJ 13 ? 24 ? 13 24 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.56 2 1 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.57 3 2 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.51 4 2 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.54 5 2 O6 A DG 12 ? ? H41 B DC 13 ? ? 1.56 6 2 H41 A DC 1 ? ? O6 B DG 24 ? ? 1.58 7 3 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.53 8 3 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.54 9 4 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.54 10 4 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.55 11 5 O2 A DC 11 ? ? H21 B DG 14 ? ? 1.58 12 5 H21 A DG 2 ? ? O2 B DC 23 ? ? 1.58 # 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 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 109.41 103.10 6.31 0.90 N 2 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 108.83 103.10 5.73 0.90 N 3 1 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.70 103.10 6.60 0.90 N 4 1 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 108.91 103.10 5.81 0.90 N 5 1 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.12 103.10 6.02 0.90 N 6 1 C6 A DT 7 ? ? C5 A DT 7 ? ? C7 A DT 7 ? ? 119.11 122.90 -3.79 0.60 N 7 1 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.59 103.10 6.49 0.90 N 8 1 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.30 103.10 6.20 0.90 N 9 1 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.72 103.10 6.62 0.90 N 10 1 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.78 103.10 6.68 0.90 N 11 1 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 110.28 103.10 7.18 0.90 N 12 1 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 108.71 103.10 5.61 0.90 N 13 1 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.80 103.10 6.70 0.90 N 14 1 "C4'" B DG 16 ? ? "C3'" B DG 16 ? ? "C2'" B DG 16 ? ? 108.56 103.10 5.46 0.90 N 15 1 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.01 103.10 5.91 0.90 N 16 1 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.11 103.10 6.01 0.90 N 17 1 C6 B DT 19 ? ? C5 B DT 19 ? ? C7 B DT 19 ? ? 118.96 122.90 -3.94 0.60 N 18 1 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.52 103.10 6.42 0.90 N 19 1 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.28 103.10 6.18 0.90 N 20 1 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.82 103.10 6.72 0.90 N 21 1 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.73 103.10 6.63 0.90 N 22 2 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 110.20 103.10 7.10 0.90 N 23 2 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 108.73 103.10 5.63 0.90 N 24 2 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.84 103.10 6.74 0.90 N 25 2 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? 108.60 103.10 5.50 0.90 N 26 2 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.16 103.10 6.06 0.90 N 27 2 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.30 103.10 6.20 0.90 N 28 2 C6 A DT 7 ? ? C5 A DT 7 ? ? C7 A DT 7 ? ? 119.21 122.90 -3.69 0.60 N 29 2 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.53 103.10 6.43 0.90 N 30 2 C6 A DT 8 ? ? C5 A DT 8 ? ? C7 A DT 8 ? ? 119.28 122.90 -3.62 0.60 N 31 2 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.10 103.10 6.00 0.90 N 32 2 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 108.53 103.10 5.43 0.90 N 33 2 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.89 103.10 6.79 0.90 N 34 2 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.79 103.10 6.69 0.90 N 35 2 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 110.20 103.10 7.10 0.90 N 36 2 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 108.66 103.10 5.56 0.90 N 37 2 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.76 103.10 6.66 0.90 N 38 2 "C4'" B DG 16 ? ? "C3'" B DG 16 ? ? "C2'" B DG 16 ? ? 108.57 103.10 5.47 0.90 N 39 2 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.15 103.10 6.05 0.90 N 40 2 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.38 103.10 6.28 0.90 N 41 2 C6 B DT 19 ? ? C5 B DT 19 ? ? C7 B DT 19 ? ? 119.23 122.90 -3.67 0.60 N 42 2 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.47 103.10 6.37 0.90 N 43 2 C6 B DT 20 ? ? C5 B DT 20 ? ? C7 B DT 20 ? ? 119.14 122.90 -3.76 0.60 N 44 2 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.06 103.10 5.96 0.90 N 45 2 "C4'" B DG 22 ? ? "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? 108.52 103.10 5.42 0.90 N 46 2 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.97 103.10 6.87 0.90 N 47 2 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.64 103.10 6.54 0.90 N 48 3 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 110.03 103.10 6.93 0.90 N 49 3 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 108.50 103.10 5.40 0.90 N 50 3 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.63 103.10 6.53 0.90 N 51 3 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? 108.52 103.10 5.42 0.90 N 52 3 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 108.99 103.10 5.89 0.90 N 53 3 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.20 103.10 6.10 0.90 N 54 3 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.45 103.10 6.35 0.90 N 55 3 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 108.98 103.10 5.88 0.90 N 56 3 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.70 103.10 6.60 0.90 N 57 3 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.87 103.10 6.77 0.90 N 58 3 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 110.16 103.10 7.06 0.90 N 59 3 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 108.52 103.10 5.42 0.90 N 60 3 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.66 103.10 6.56 0.90 N 61 3 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.06 103.10 5.96 0.90 N 62 3 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.15 103.10 6.05 0.90 N 63 3 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.55 103.10 6.45 0.90 N 64 3 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.02 103.10 5.92 0.90 N 65 3 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.82 103.10 6.72 0.90 N 66 3 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.88 103.10 6.78 0.90 N 67 4 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 110.20 103.10 7.10 0.90 N 68 4 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 108.70 103.10 5.60 0.90 N 69 4 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.75 103.10 6.65 0.90 N 70 4 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.03 103.10 5.93 0.90 N 71 4 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.21 103.10 6.11 0.90 N 72 4 C6 A DT 7 ? ? C5 A DT 7 ? ? C7 A DT 7 ? ? 119.20 122.90 -3.70 0.60 N 73 4 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.45 103.10 6.35 0.90 N 74 4 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.10 103.10 6.00 0.90 N 75 4 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 108.55 103.10 5.45 0.90 N 76 4 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.89 103.10 6.79 0.90 N 77 4 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.63 103.10 6.53 0.90 N 78 4 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 110.32 103.10 7.22 0.90 N 79 4 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 108.66 103.10 5.56 0.90 N 80 4 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.64 103.10 6.54 0.90 N 81 4 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.11 103.10 6.01 0.90 N 82 4 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.31 103.10 6.21 0.90 N 83 4 C6 B DT 19 ? ? C5 B DT 19 ? ? C7 B DT 19 ? ? 119.21 122.90 -3.69 0.60 N 84 4 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.51 103.10 6.41 0.90 N 85 4 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 109.09 103.10 5.99 0.90 N 86 4 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.86 103.10 6.76 0.90 N 87 4 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.79 103.10 6.69 0.90 N 88 5 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 110.17 103.10 7.07 0.90 N 89 5 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 108.65 103.10 5.55 0.90 N 90 5 "C4'" A DC 3 ? ? "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 109.64 103.10 6.54 0.90 N 91 5 "C4'" A DA 6 ? ? "C3'" A DA 6 ? ? "C2'" A DA 6 ? ? 109.14 103.10 6.04 0.90 N 92 5 "C4'" A DT 7 ? ? "C3'" A DT 7 ? ? "C2'" A DT 7 ? ? 109.43 103.10 6.33 0.90 N 93 5 C6 A DT 7 ? ? C5 A DT 7 ? ? C7 A DT 7 ? ? 119.23 122.90 -3.67 0.60 N 94 5 "C4'" A DT 8 ? ? "C3'" A DT 8 ? ? "C2'" A DT 8 ? ? 109.53 103.10 6.43 0.90 N 95 5 "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? "C2'" A DC 9 ? ? 109.07 103.10 5.97 0.90 N 96 5 "C4'" A DG 10 ? ? "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? 108.51 103.10 5.41 0.90 N 97 5 "C4'" A DC 11 ? ? "C3'" A DC 11 ? ? "C2'" A DC 11 ? ? 109.82 103.10 6.72 0.90 N 98 5 "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? "C2'" A DG 12 ? ? 109.87 103.10 6.77 0.90 N 99 5 "C4'" B DC 13 ? ? "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? 109.26 103.10 6.16 0.90 N 100 5 "C4'" B DG 14 ? ? "C3'" B DG 14 ? ? "C2'" B DG 14 ? ? 108.72 103.10 5.62 0.90 N 101 5 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.73 103.10 6.63 0.90 N 102 5 "C4'" B DA 18 ? ? "C3'" B DA 18 ? ? "C2'" B DA 18 ? ? 109.05 103.10 5.95 0.90 N 103 5 "C4'" B DT 19 ? ? "C3'" B DT 19 ? ? "C2'" B DT 19 ? ? 109.30 103.10 6.20 0.90 N 104 5 C6 B DT 19 ? ? C5 B DT 19 ? ? C7 B DT 19 ? ? 119.21 122.90 -3.69 0.60 N 105 5 "C4'" B DT 20 ? ? "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? 109.53 103.10 6.43 0.90 N 106 5 "C4'" B DC 21 ? ? "C3'" B DC 21 ? ? "C2'" B DC 21 ? ? 108.97 103.10 5.87 0.90 N 107 5 "C4'" B DC 23 ? ? "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 109.88 103.10 6.78 0.90 N 108 5 "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? "C2'" B DG 24 ? ? 109.77 103.10 6.67 0.90 N # _pdbx_nmr_ensemble.entry_id 1NAJ _pdbx_nmr_ensemble.conformers_calculated_total_number 20 _pdbx_nmr_ensemble.conformers_submitted_total_number 5 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 1NAJ _pdbx_nmr_representative.conformer_id 3 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 ;0.5 MM unlabeled DUPLEX DNA, 40MM SODIUM PHOSPHATE, PH 7.0 ; '100% D2O' 2 ;0.5 MM U-13C/15N DUPLEX DNA, 40MM SODIUM PHOSPHATE, PH 7.0 ; '90% H2O/10% D2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 308 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength 40mM _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.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 'H-31P-HSQC, HP-ctNOESY-DIF, COSY' 2 2 1 'COSY,2D NOESY,13C-HSQC-J-MODULATED,13C-HSQC-F1-COUPLED, 15N-HSQC-F1-COUPLED' # _pdbx_nmr_refine.entry_id 1NAJ _pdbx_nmr_refine.method ;SIMULATED ANNEALING, MOLECULAR DYNAMICS ; _pdbx_nmr_refine.details ;THE STRUCTURE IS BASED ON A TOTAL OF 162 NOE, 32 HYDROGEN BOND, AND 24 DIHEDRAL RESTRAINTS; AS WELL AS 262 CH AND 16 NH ONE-BOND DIPOLAR COUPLING RESTRAINTS, 200 APPROXIMATE PROTON-PROTON DIPOLAR COUPLINGS, 300 quantitative proton-proton dipolar restraints, 22 31P-1H dipolar couplings, and 22 31P chemical shift anisotropy restraints. THE COORDINATE OF THE ALIGNMENT TENSOR IS DEFINED BY molecule 500 and 501. ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal NMRPipe '1.7 REV 1999.039.11.31' 'data analysis' 'Delaglio, Frank' 1 XwinNMR 'VERSION 2.4 and 2.6' collection Bruker 2 X-PLOR 3.841 refinement BRUNGER 3 CosyView ? 'data analysis' 'Delaglio, Frank' 4 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 # 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 # _ndb_struct_conf_na.entry_id 1NAJ _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 12 1_555 0.445 -0.514 -0.347 -10.607 -17.869 3.168 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.201 -0.370 0.337 -3.957 -16.799 0.592 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.551 -0.511 -0.246 -3.438 -17.186 2.920 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.348 -0.394 -0.052 -0.317 -15.544 0.647 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 -0.309 -0.336 -0.251 -4.448 -19.861 0.298 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 -0.065 -0.309 -0.334 -3.428 -22.919 -1.784 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 0.102 -0.329 -0.335 3.300 -23.095 -1.631 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 0.301 -0.350 -0.287 4.793 -20.085 0.830 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.311 -0.388 -0.033 -0.060 -15.355 0.472 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.534 -0.496 -0.191 2.687 -17.359 2.489 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.130 -0.345 0.328 3.026 -16.262 0.691 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.424 -0.506 -0.401 9.505 -18.114 2.796 12 A_DG12:DC13_B A 12 ? B 13 ? 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 12 1_555 A DG 2 1_555 B DC 11 1_555 0.318 0.270 3.220 -3.003 10.389 30.798 -1.319 -1.087 3.102 18.847 5.449 32.598 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.042 -0.200 3.085 4.543 -0.087 39.526 -0.284 0.436 3.072 -0.128 -6.690 39.776 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 0.265 0.102 3.396 1.228 8.315 31.710 -1.315 -0.249 3.324 14.892 -2.199 32.778 3 AA_DC3DG4:DC21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 -0.293 -0.085 3.157 -0.886 5.576 36.931 -0.843 0.345 3.118 8.739 1.388 37.345 4 AA_DG4DA5:DT20DC21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 -0.429 -0.225 3.125 -0.829 1.035 38.142 -0.469 0.556 3.127 1.584 1.269 38.164 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.032 -0.658 2.849 0.105 -3.544 34.335 -0.625 0.069 2.900 -5.984 -0.178 34.512 6 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 0.399 -0.150 3.114 1.193 1.057 38.169 -0.355 -0.466 3.120 1.615 -1.824 38.201 7 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 0.283 0.001 3.186 0.564 6.048 37.102 -0.768 -0.368 3.152 9.427 -0.879 37.579 8 AA_DT8DC9:DG16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 -0.234 0.116 3.426 -1.372 8.230 31.940 -1.270 0.167 3.358 14.647 2.441 32.984 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 0.034 -0.214 3.089 -4.158 -0.001 38.615 -0.323 -0.530 3.069 -0.001 6.266 38.830 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 -0.402 0.393 3.301 3.225 9.921 31.183 -1.046 1.277 3.216 17.840 -5.800 32.840 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.field_strength 1 ? Bruker DMX 600 2 ? Bruker AVANCE 800 # _atom_sites.entry_id 1NAJ _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_