data_1FJB # _entry.id 1FJB # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.355 _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 1FJB pdb_00001fjb 10.2210/pdb1fjb/pdb WWPDB D_1000173308 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1FJB _pdbx_database_status.recvd_initial_deposition_date 1995-12-15 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _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 'Chen, H.' 1 'Johnson, F.' 2 'Grollman, A.P.' 3 'Patel, D.J.' 4 # _citation.id primary _citation.title ;Structural Studies of the Ionizing Radiation Adduct 7,8-Dihydro-8-Oxoadenine (A Oxo) Positioned Opposite Thymine and Guanine in DNA Duplexes ; _citation.journal_abbrev MAGN.RESON.CHEM. _citation.journal_volume 34 _citation.page_first 23 _citation.page_last ? _citation.year 1996 _citation.journal_id_ASTM MRCHEG _citation.country UK _citation.journal_id_ISSN 0749-1581 _citation.journal_id_CSD 0731 _citation.book_publisher ? _citation.pdbx_database_id_PubMed -1 _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chen, H.' 1 ? primary 'Johnson, F.' 2 ? primary 'Grollman, A.P.' 3 ? primary 'Patel, D.J.' 4 ? # _cell.entry_id 1FJB _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1FJB _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*GP*CP*AP*TP*GP*TP*GP*TP*AP*CP*G)-3') ; 3389.221 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*CP*GP*TP*AP*CP*(A38)P*CP*AP*TP*GP*C)-3') ; 3334.186 1 ? ? ? 'DNA DUPLEX' # 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 '(DG)(DC)(DA)(DT)(DG)(DT)(DG)(DT)(DA)(DC)(DG)' GCATGTGTACG A ? 2 polydeoxyribonucleotide no yes '(DC)(DG)(DT)(DA)(DC)(A38)(DC)(DA)(DT)(DG)(DC)' CGTACACATGC B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DC n 1 3 DA n 1 4 DT n 1 5 DG n 1 6 DT n 1 7 DG n 1 8 DT n 1 9 DA n 1 10 DC n 1 11 DG n 2 1 DC n 2 2 DG n 2 3 DT n 2 4 DA n 2 5 DC n 2 6 A38 n 2 7 DC n 2 8 DA n 2 9 DT n 2 10 DG n 2 11 DC n # 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 1FJB 1FJB ? ? ? 2 2 PDB 1FJB 1FJB ? ? ? # 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 1FJB A 1 ? 11 ? 1FJB 1 ? 11 ? 1 11 2 2 1FJB B 1 ? 11 ? 1FJB 12 ? 22 ? 12 22 # 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 A38 'DNA linking' n ;8-OXY DEOXYADENOSINE-5'-MONOPHOSPHATE ; ? 'C10 H14 N5 O7 P' 347.221 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 # _pdbx_nmr_ensemble.entry_id 1FJB _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 2 _pdbx_nmr_ensemble.conformer_selection_criteria ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_software.classification refinement _pdbx_nmr_software.name X-PLOR _pdbx_nmr_software.version ? _pdbx_nmr_software.authors BRUNGER _pdbx_nmr_software.ordinal 1 # _exptl.entry_id 1FJB _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1FJB _struct.title 'NMR Study of an 11-Mer DNA Duplex Containing 7,8-Dihydro-8-Oxoadenine (AOXO) Opposite Thymine' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1FJB _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 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? B DC 5 "O3'" ? ? ? 1_555 B A38 6 P ? ? B DC 16 B A38 17 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale2 covale one ? B A38 6 "O3'" ? ? ? 1_555 B DC 7 P ? ? B A38 17 B DC 18 1_555 ? ? ? ? ? ? ? 1.610 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 1 B DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 1 B DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 1 B DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 2 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 2 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 2 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 B DT 9 N3 ? ? A DA 3 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 B DT 9 O4 ? ? A DA 3 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 8 N1 ? ? A DT 4 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 8 N6 ? ? A DT 4 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 5 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 5 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 5 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B A38 6 N1 ? ? A DT 6 B A38 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B A38 6 N6 ? ? A DT 6 B A38 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 7 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 7 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 7 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 4 N1 ? ? A DT 8 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 4 N6 ? ? A DT 8 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DA 9 N1 ? ? ? 1_555 B DT 3 N3 ? ? A DA 9 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DA 9 N6 ? ? ? 1_555 B DT 3 O4 ? ? A DA 9 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 10 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 11 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 11 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 11 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 11 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 11 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 11 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _database_PDB_matrix.entry_id 1FJB _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 # _atom_sites.entry_id 1FJB _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_ _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 DG 1 1 1 DG G A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DT 4 4 4 DT T A . n A 1 5 DG 5 5 5 DG G 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 DT 8 8 8 DT T A . n A 1 9 DA 9 9 9 DA A A . n A 1 10 DC 10 10 10 DC C A . n A 1 11 DG 11 11 11 DG G A . n B 2 1 DC 1 12 12 DC C B . n B 2 2 DG 2 13 13 DG G B . n B 2 3 DT 3 14 14 DT T B . n B 2 4 DA 4 15 15 DA A B . n B 2 5 DC 5 16 16 DC C B . n B 2 6 A38 6 17 17 A38 +A B . n B 2 7 DC 7 18 18 DC C B . n B 2 8 DA 8 19 19 DA A B . n B 2 9 DT 9 20 20 DT T B . n B 2 10 DG 10 21 21 DG G B . n B 2 11 DC 11 22 22 DC C B . n # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id B _pdbx_struct_mod_residue.label_comp_id A38 _pdbx_struct_mod_residue.label_seq_id 6 _pdbx_struct_mod_residue.auth_asym_id B _pdbx_struct_mod_residue.auth_comp_id A38 _pdbx_struct_mod_residue.auth_seq_id 17 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DA _pdbx_struct_mod_residue.details ;8-OXY DEOXYADENOSINE-5'-MONOPHOSPHATE ; # _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 # 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 1996-06-10 2 'Structure model' 1 1 2008-03-25 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-23 # _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 4 'Structure model' Other # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' database_2 2 4 'Structure model' pdbx_database_status 3 4 'Structure model' pdbx_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list 5 4 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_database_status.process_site' 4 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 X-PLOR refinement . ? 2 X-PLOR phasing . ? 3 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 C5 A DT 4 ? ? C7 A DT 4 ? ? 1.534 1.496 0.038 0.006 N 2 1 C5 A DT 6 ? ? C7 A DT 6 ? ? 1.535 1.496 0.039 0.006 N 3 1 C5 A DT 8 ? ? C7 A DT 8 ? ? 1.536 1.496 0.040 0.006 N 4 2 C5 B DT 14 ? ? C7 B DT 14 ? ? 1.532 1.496 0.036 0.006 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 116.42 113.10 3.32 0.50 N 2 1 C8 A DG 1 ? ? N9 A DG 1 ? ? C4 A DG 1 ? ? 103.88 106.40 -2.52 0.40 N 3 1 "C3'" A DG 1 ? ? "O3'" A DG 1 ? ? P A DC 2 ? ? 130.46 119.70 10.76 1.20 Y 4 1 "C4'" A DC 2 ? ? "C3'" A DC 2 ? ? "C2'" A DC 2 ? ? 96.86 102.20 -5.34 0.70 N 5 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? "C2'" A DC 2 ? ? 100.59 105.90 -5.31 0.80 N 6 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 110.96 108.30 2.66 0.30 N 7 1 N1 A DC 2 ? ? C2 A DC 2 ? ? O2 A DC 2 ? ? 122.67 118.90 3.77 0.60 N 8 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? "C2'" A DT 4 ? ? 99.67 105.90 -6.23 0.80 N 9 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 112.82 108.30 4.52 0.30 N 10 1 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 118.67 122.90 -4.23 0.60 N 11 1 "O4'" A DG 5 ? ? "C1'" A DG 5 ? ? "C2'" A DG 5 ? ? 100.74 105.90 -5.16 0.80 N 12 1 N7 A DG 5 ? ? C8 A DG 5 ? ? N9 A DG 5 ? ? 116.56 113.10 3.46 0.50 N 13 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? "C2'" A DT 6 ? ? 100.07 105.90 -5.83 0.80 N 14 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 110.73 108.30 2.43 0.30 N 15 1 C6 A DT 6 ? ? C5 A DT 6 ? ? C7 A DT 6 ? ? 119.04 122.90 -3.86 0.60 N 16 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? "C2'" A DG 7 ? ? 101.04 105.90 -4.86 0.80 N 17 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.51 108.30 3.21 0.30 N 18 1 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 117.09 113.10 3.99 0.50 N 19 1 "O4'" A DC 10 ? ? "C1'" A DC 10 ? ? "C2'" A DC 10 ? ? 100.60 105.90 -5.30 0.80 N 20 1 N1 A DC 10 ? ? C2 A DC 10 ? ? O2 A DC 10 ? ? 122.60 118.90 3.70 0.60 N 21 1 C5 A DG 11 ? ? N7 A DG 11 ? ? C8 A DG 11 ? ? 101.30 104.30 -3.00 0.50 N 22 1 N7 A DG 11 ? ? C8 A DG 11 ? ? N9 A DG 11 ? ? 116.80 113.10 3.70 0.50 N 23 1 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? "C2'" B DC 12 ? ? 99.94 105.90 -5.96 0.80 N 24 1 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 113.69 108.30 5.39 0.30 N 25 1 N7 B DG 13 ? ? C8 B DG 13 ? ? N9 B DG 13 ? ? 116.20 113.10 3.10 0.50 N 26 1 C6 B DT 14 ? ? C5 B DT 14 ? ? C7 B DT 14 ? ? 118.95 122.90 -3.95 0.60 N 27 1 "O4'" B DA 15 ? ? "C1'" B DA 15 ? ? N9 B DA 15 ? ? 113.71 108.30 5.41 0.30 N 28 1 N1 B DC 16 ? ? C2 B DC 16 ? ? O2 B DC 16 ? ? 122.77 118.90 3.87 0.60 N 29 1 "O4'" B DC 18 ? ? "C4'" B DC 18 ? ? "C3'" B DC 18 ? ? 109.67 106.00 3.67 0.60 N 30 1 N1 B DC 18 ? ? C2 B DC 18 ? ? O2 B DC 18 ? ? 122.96 118.90 4.06 0.60 N 31 1 "O4'" B DA 19 ? ? "C1'" B DA 19 ? ? N9 B DA 19 ? ? 111.92 108.30 3.62 0.30 N 32 1 "O4'" B DT 20 ? ? "C1'" B DT 20 ? ? N1 B DT 20 ? ? 112.10 108.30 3.80 0.30 N 33 1 C5 B DG 21 ? ? N7 B DG 21 ? ? C8 B DG 21 ? ? 101.30 104.30 -3.00 0.50 N 34 1 N7 B DG 21 ? ? C8 B DG 21 ? ? N9 B DG 21 ? ? 117.09 113.10 3.99 0.50 N 35 2 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 116.45 113.10 3.35 0.50 N 36 2 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? "C2'" A DC 2 ? ? 99.37 105.90 -6.53 0.80 N 37 2 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1 A DC 2 ? ? 113.45 108.30 5.15 0.30 N 38 2 N1 A DC 2 ? ? C2 A DC 2 ? ? O2 A DC 2 ? ? 122.81 118.90 3.91 0.60 N 39 2 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? "C2'" A DT 4 ? ? 99.92 105.90 -5.98 0.80 N 40 2 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 111.68 108.30 3.38 0.30 N 41 2 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 118.05 122.90 -4.85 0.60 N 42 2 N7 A DG 5 ? ? C8 A DG 5 ? ? N9 A DG 5 ? ? 116.67 113.10 3.57 0.50 N 43 2 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? "C2'" A DT 6 ? ? 99.61 105.90 -6.29 0.80 N 44 2 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.69 108.30 3.39 0.30 N 45 2 C6 A DT 6 ? ? C5 A DT 6 ? ? C7 A DT 6 ? ? 118.54 122.90 -4.36 0.60 N 46 2 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? "C2'" A DG 7 ? ? 100.43 105.90 -5.47 0.80 N 47 2 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.66 108.30 3.36 0.30 N 48 2 N7 A DG 7 ? ? C8 A DG 7 ? ? N9 A DG 7 ? ? 116.87 113.10 3.77 0.50 N 49 2 "O4'" A DC 10 ? ? "C1'" A DC 10 ? ? "C2'" A DC 10 ? ? 100.89 105.90 -5.01 0.80 N 50 2 N1 A DC 10 ? ? C2 A DC 10 ? ? O2 A DC 10 ? ? 122.51 118.90 3.61 0.60 N 51 2 N7 A DG 11 ? ? C8 A DG 11 ? ? N9 A DG 11 ? ? 116.76 113.10 3.66 0.50 N 52 2 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? "C2'" B DC 12 ? ? 99.35 105.90 -6.55 0.80 N 53 2 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? N1 B DC 12 ? ? 110.74 108.30 2.44 0.30 N 54 2 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? "C2'" B DG 13 ? ? 100.96 105.90 -4.94 0.80 N 55 2 "O4'" B DG 13 ? ? "C1'" B DG 13 ? ? N9 B DG 13 ? ? 112.74 108.30 4.44 0.30 N 56 2 N7 B DG 13 ? ? C8 B DG 13 ? ? N9 B DG 13 ? ? 116.37 113.10 3.27 0.50 N 57 2 C6 B DT 14 ? ? C5 B DT 14 ? ? C7 B DT 14 ? ? 118.69 122.90 -4.21 0.60 N 58 2 "O4'" B DA 15 ? ? "C1'" B DA 15 ? ? N9 B DA 15 ? ? 113.78 108.30 5.48 0.30 N 59 2 N1 B DC 16 ? ? C2 B DC 16 ? ? O2 B DC 16 ? ? 122.81 118.90 3.91 0.60 N 60 2 "C3'" B A38 17 ? ? "O3'" B A38 17 ? ? P B DC 18 ? ? 128.11 119.70 8.41 1.20 Y 61 2 "O4'" B DC 18 ? ? "C4'" B DC 18 ? ? "C3'" B DC 18 ? ? 109.82 106.00 3.82 0.60 N 62 2 N1 B DC 18 ? ? C2 B DC 18 ? ? O2 B DC 18 ? ? 122.78 118.90 3.88 0.60 N 63 2 "O4'" B DA 19 ? ? "C1'" B DA 19 ? ? N9 B DA 19 ? ? 113.32 108.30 5.02 0.30 N 64 2 C6 B DT 20 ? ? C5 B DT 20 ? ? C7 B DT 20 ? ? 117.98 122.90 -4.92 0.60 N 65 2 N7 B DG 21 ? ? C8 B DG 21 ? ? N9 B DG 21 ? ? 116.75 113.10 3.65 0.50 N 66 2 N1 B DC 22 ? ? C2 B DC 22 ? ? O2 B DC 22 ? ? 122.56 118.90 3.66 0.60 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1FJB 'double helix' 1FJB '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 DG 1 1_555 B DC 11 1_555 -0.457 -0.340 -0.164 -7.992 -6.401 -2.418 1 A_DG1:DC22_B A 1 ? B 22 ? 19 1 1 A DC 2 1_555 B DG 10 1_555 0.606 -0.416 0.133 -5.220 -10.917 -3.886 2 A_DC2:DG21_B A 2 ? B 21 ? 19 1 1 A DA 3 1_555 B DT 9 1_555 0.073 -0.226 0.145 -1.826 -9.898 -2.752 3 A_DA3:DT20_B A 3 ? B 20 ? 20 1 1 A DT 4 1_555 B DA 8 1_555 -0.192 -0.174 0.220 1.554 -9.111 -4.026 4 A_DT4:DA19_B A 4 ? B 19 ? 20 1 1 A DG 5 1_555 B DC 7 1_555 -0.637 -0.356 0.139 1.236 -7.706 -1.469 5 A_DG5:DC18_B A 5 ? B 18 ? 19 1 1 A DT 6 1_555 B A38 6 1_555 -0.337 -0.131 0.092 1.370 -12.225 -3.628 6 A_DT6:A3817_B A 6 ? B 17 ? 20 1 1 A DG 7 1_555 B DC 5 1_555 -0.629 -0.397 0.484 7.880 -7.197 -3.800 7 A_DG7:DC16_B A 7 ? B 16 ? 19 1 1 A DT 8 1_555 B DA 4 1_555 -0.293 -0.262 0.372 1.842 -14.780 -6.345 8 A_DT8:DA15_B A 8 ? B 15 ? 20 1 1 A DA 9 1_555 B DT 3 1_555 0.336 -0.196 0.554 15.414 -20.299 -2.083 9 A_DA9:DT14_B A 9 ? B 14 ? 20 1 1 A DC 10 1_555 B DG 2 1_555 0.577 -0.360 0.140 11.530 -18.847 -1.797 10 A_DC10:DG13_B A 10 ? B 13 ? 19 1 1 A DG 11 1_555 B DC 1 1_555 -0.641 -0.443 0.011 5.242 -11.837 -0.294 11 A_DG11:DC12_B A 11 ? B 12 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 1 1_555 B DC 11 1_555 A DC 2 1_555 B DG 10 1_555 -0.617 -0.765 3.492 -1.116 -12.547 36.414 0.573 0.783 3.571 -19.379 1.723 38.461 1 AA_DG1DC2:DG21DC22_BB A 1 ? B 22 ? A 2 ? B 21 ? 1 A DC 2 1_555 B DG 10 1_555 A DA 3 1_555 B DT 9 1_555 1.191 -0.161 3.103 2.986 4.155 39.988 -0.684 -1.405 3.149 6.046 -4.344 40.300 2 AA_DC2DA3:DT20DG21_BB A 2 ? B 21 ? A 3 ? B 20 ? 1 A DA 3 1_555 B DT 9 1_555 A DT 4 1_555 B DA 8 1_555 0.503 -1.592 3.133 -0.183 -1.272 27.099 -3.082 -1.116 3.200 -2.713 0.390 27.129 3 AA_DA3DT4:DA19DT20_BB A 3 ? B 20 ? A 4 ? B 19 ? 1 A DT 4 1_555 B DA 8 1_555 A DG 5 1_555 B DC 7 1_555 -0.561 -1.455 2.852 -1.973 8.125 31.168 -3.809 0.722 2.436 14.791 3.592 32.243 4 AA_DT4DG5:DC18DA19_BB A 4 ? B 19 ? A 5 ? B 18 ? 1 A DG 5 1_555 B DC 7 1_555 A DT 6 1_555 B A38 6 1_555 0.382 -1.162 3.216 2.452 -2.231 36.505 -1.543 -0.272 3.297 -3.552 -3.904 36.650 5 AA_DG5DT6:A3817DC18_BB A 5 ? B 18 ? A 6 ? B 17 ? 1 A DT 6 1_555 B A38 6 1_555 A DG 7 1_555 B DC 5 1_555 -0.143 -1.052 2.819 -6.038 5.729 34.085 -2.470 -0.524 2.600 9.598 10.115 35.057 6 AA_DT6DG7:DC16A3817_BB A 6 ? B 17 ? A 7 ? B 16 ? 1 A DG 7 1_555 B DC 5 1_555 A DT 8 1_555 B DA 4 1_555 -0.513 -1.147 3.453 -1.682 0.726 38.809 -1.817 0.555 3.450 1.092 2.530 38.850 7 AA_DG7DT8:DA15DC16_BB A 7 ? B 16 ? A 8 ? B 15 ? 1 A DT 8 1_555 B DA 4 1_555 A DA 9 1_555 B DT 3 1_555 -0.059 -0.769 2.833 -0.390 0.840 36.657 -1.321 0.048 2.816 1.335 0.621 36.668 8 AA_DT8DA9:DT14DA15_BB A 8 ? B 15 ? A 9 ? B 14 ? 1 A DA 9 1_555 B DT 3 1_555 A DC 10 1_555 B DG 2 1_555 0.605 -1.050 3.303 1.339 -6.842 37.190 -0.703 -0.753 3.454 -10.614 -2.077 37.816 9 AA_DA9DC10:DG13DT14_BB A 9 ? B 14 ? A 10 ? B 13 ? 1 A DC 10 1_555 B DG 2 1_555 A DG 11 1_555 B DC 1 1_555 -0.228 -1.948 3.354 -2.141 8.397 25.776 -6.126 -0.020 2.611 18.181 4.635 27.170 10 AA_DC10DG11:DC12DG13_BB A 10 ? B 13 ? A 11 ? B 12 ? #