data_1AF1 # _entry.id 1AF1 # _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 1AF1 pdb_00001af1 10.2210/pdb1af1/pdb WWPDB D_1000170735 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1AFZ _pdbx_database_related.details 'MINIMIZED AVERAGE STRUCTURE' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1AF1 _pdbx_database_status.recvd_initial_deposition_date 1997-03-20 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _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 'Zegar, I.S.' 1 'Stone, M.P.' 2 # _citation.id primary _citation.title ;Styrene oxide adducts in an oligodeoxynucleotide containing the human N-ras codon 12 sequence: structural refinement of the minor groove R(12,2)- and S(12,2)-alpha-(N2-guanyl) stereoisomers from 1H NMR. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 35 _citation.page_first 4334 _citation.page_last 4348 _citation.year 1996 _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 8605182 _citation.pdbx_database_id_DOI 10.1021/bi952086s # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Zegar, I.S.' 1 ? primary 'Setayesh, F.R.' 2 ? primary 'DeCorte, B.L.' 3 ? primary 'Harris, C.M.' 4 ? primary 'Harris, T.M.' 5 ? primary 'Stone, M.P.' 6 ? # _cell.entry_id 1AF1 _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 1AF1 _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*GP*CP*AP*GP*GSRP*TP*GP*GP*TP*G)-3') ; 3590.406 1 ? ? ? 'R-STYRENE-CODON 12 ADDUCT' 2 polymer syn ;DNA (5'-D(*CP*AP*CP*CP*AP*CP*CP*TP*GP*CP*C)-3') ; 3239.127 1 ? ? ? 'R-STYRENE-CODON 12 ADDUCT' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no yes '(DG)(DG)(DC)(DA)(DG)(GSR)(DT)(DG)(DG)(DT)(DG)' GGCAGGTGGTG A ? 2 polydeoxyribonucleotide no no '(DC)(DA)(DC)(DC)(DA)(DC)(DC)(DT)(DG)(DC)(DC)' CACCACCTGCC 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 DG n 1 3 DC n 1 4 DA n 1 5 DG n 1 6 GSR n 1 7 DT n 1 8 DG n 1 9 DG n 1 10 DT n 1 11 DG n 2 1 DC n 2 2 DA n 2 3 DC n 2 4 DC n 2 5 DA n 2 6 DC n 2 7 DC n 2 8 DT n 2 9 DG n 2 10 DC 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 1AF1 1AF1 ? ? ? 2 2 PDB 1AF1 1AF1 ? ? ? # 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 1AF1 A 1 ? 11 ? 1AF1 1 ? 11 ? 1 11 2 2 1AF1 B 1 ? 11 ? 1AF1 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 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 GSR 'DNA linking' n ;2'-DEOXY-N2-(R)STYRENE OXIDE GUANOSINE MONOPHOSPHATE ; ? 'C18 H22 N5 O8 P' 467.370 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 NOESY 1 2 1 2QF-COSY 1 3 1 'AND TOCSY' 1 4 1 2QF-COSY 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 303 _pdbx_nmr_exptl_sample_conditions.pressure ? _pdbx_nmr_exptl_sample_conditions.pH 6.9 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.pressure_units . _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model AMX500 _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 500 # _pdbx_nmr_refine.entry_id 1AF1 _pdbx_nmr_refine.method 'NOE-RESTRAINED MOLECULAR DYNAMICS/SIMULATED ANNEALING' _pdbx_nmr_refine.details 'REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE.' _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 1AF1 _pdbx_nmr_ensemble.conformers_calculated_total_number 1 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'THIS STRUCTURE PROVIDED THE BEST-FIT FOR THE NOE DATA BASED ON THE RELAXATION MATRIX ANALYSIS USING CORMA.' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement X-PLOR 3.1 BRUNGER 1 'structure solution' Felix ? ? 2 'structure solution' X-PLOR ? ? 3 'structure solution' MARDIGRAS ? ? 4 'structure solution' CORMA ? ? 5 # _exptl.entry_id 1AF1 _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1AF1 _struct.title ;THE SOLUTION NMR STRUCTURE OF AN R-STYRENE OXIDE ADDUCT AT THE N2 POSITION OF GUANINE OF AN 11 BASE-PAIR OLIGONUCLEOTIDE SEQUENCE CODING FOR AMINO ACIDS 11-13 OF THE PRODUCT OF THE N-RAS PROTOONCOGENE, MINIMIZED AVERAGE STRUCTURE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1AF1 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DNA DUPLEX, HUMAN N-RAS GENE, CODON 12 SEQUENCE, R-STYRENE OXIDE, MINOR GROOVE ADDUCT, DEOXYRIBONUCLEIC ACID, 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 # 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 ? A DG 5 "O3'" ? ? ? 1_555 A GSR 6 P ? ? A DG 5 A GSR 6 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale2 covale both ? A GSR 6 "O3'" ? ? ? 1_555 A DT 7 P ? ? A GSR 6 A DT 7 1_555 ? ? ? ? ? ? ? 1.614 ? ? 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 DG 2 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 2 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 2 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 2 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 3 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 3 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 3 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 4 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 4 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 5 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 5 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 5 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A GSR 6 N1 ? ? ? 1_555 B DC 6 N3 ? ? A GSR 6 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A GSR 6 N2 ? ? ? 1_555 B DC 6 O2 ? ? A GSR 6 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A GSR 6 O6 ? ? ? 1_555 B DC 6 N4 ? ? A GSR 6 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 7 B DA 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 7 B DA 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 8 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 8 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 8 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 8 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 8 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 8 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 9 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 9 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 9 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DT 10 N3 ? ? ? 1_555 B DA 2 N1 ? ? A DT 10 B DA 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DT 10 O4 ? ? ? 1_555 B DA 2 N6 ? ? A DT 10 B DA 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 11 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 11 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DG 11 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 11 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 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 1AF1 _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 1AF1 _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 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DG 5 5 5 DG G A . n A 1 6 GSR 6 6 6 GSR GSR A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DG 8 8 8 DG G A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DT 10 10 10 DT T 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 DA 2 13 13 DA A B . n B 2 3 DC 3 14 14 DC C B . n B 2 4 DC 4 15 15 DC C B . n B 2 5 DA 5 16 16 DA A B . n B 2 6 DC 6 17 17 DC C B . n B 2 7 DC 7 18 18 DC C B . n B 2 8 DT 8 19 19 DT T B . n B 2 9 DG 9 20 20 DG G B . n B 2 10 DC 10 21 21 DC C B . n B 2 11 DC 11 22 22 DC C B . n # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id GSR _pdbx_struct_mod_residue.label_seq_id 6 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id GSR _pdbx_struct_mod_residue.auth_seq_id 6 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DG _pdbx_struct_mod_residue.details ? # _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 1997-08-20 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-16 # _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 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_nmr_software 4 4 'Structure model' pdbx_struct_assembly 5 4 'Structure model' pdbx_struct_oper_list 6 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' '_pdbx_nmr_software.name' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 9 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 10 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 11 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 12 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 13 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 14 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 15 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.1 ? 1 X-PLOR refinement 3.1 ? 2 X-PLOR phasing 3.1 ? 3 # 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 DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 110.95 108.30 2.65 0.30 N 2 1 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.60 113.10 4.50 0.50 N 3 1 C8 A DG 1 ? ? N9 A DG 1 ? ? C4 A DG 1 ? ? 103.68 106.40 -2.72 0.40 N 4 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.78 108.30 2.48 0.30 N 5 1 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.65 113.10 4.55 0.50 N 6 1 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.56 106.40 -2.84 0.40 N 7 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 111.18 108.30 2.88 0.30 N 8 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 110.94 108.30 2.64 0.30 N 9 1 N7 A DA 4 ? ? C8 A DA 4 ? ? N9 A DA 4 ? ? 117.50 113.80 3.70 0.50 N 10 1 "O4'" A DG 5 ? ? "C1'" A DG 5 ? ? N9 A DG 5 ? ? 111.61 108.30 3.31 0.30 N 11 1 N7 A DG 5 ? ? C8 A DG 5 ? ? N9 A DG 5 ? ? 117.43 113.10 4.33 0.50 N 12 1 C8 A DG 5 ? ? N9 A DG 5 ? ? C4 A DG 5 ? ? 103.84 106.40 -2.56 0.40 N 13 1 "O4'" A DT 7 ? ? "C1'" A DT 7 ? ? N1 A DT 7 ? ? 111.02 108.30 2.72 0.30 N 14 1 N7 A DG 8 ? ? C8 A DG 8 ? ? N9 A DG 8 ? ? 117.63 113.10 4.53 0.50 N 15 1 C8 A DG 8 ? ? N9 A DG 8 ? ? C4 A DG 8 ? ? 103.52 106.40 -2.88 0.40 N 16 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 111.53 108.30 3.23 0.30 N 17 1 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.61 113.10 4.51 0.50 N 18 1 C8 A DG 9 ? ? N9 A DG 9 ? ? C4 A DG 9 ? ? 103.69 106.40 -2.71 0.40 N 19 1 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.84 108.30 2.54 0.30 N 20 1 "O4'" A DG 11 ? ? "C1'" A DG 11 ? ? N9 A DG 11 ? ? 111.25 108.30 2.95 0.30 N 21 1 N7 A DG 11 ? ? C8 A DG 11 ? ? N9 A DG 11 ? ? 117.65 113.10 4.55 0.50 N 22 1 C8 A DG 11 ? ? N9 A DG 11 ? ? C4 A DG 11 ? ? 103.71 106.40 -2.69 0.40 N 23 1 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? N1 B DC 12 ? ? 110.94 108.30 2.64 0.30 N 24 1 N7 B DA 13 ? ? C8 B DA 13 ? ? N9 B DA 13 ? ? 117.64 113.80 3.84 0.50 N 25 1 C8 B DA 13 ? ? N9 B DA 13 ? ? C4 B DA 13 ? ? 103.20 105.80 -2.60 0.40 N 26 1 "O4'" B DC 14 ? ? "C1'" B DC 14 ? ? N1 B DC 14 ? ? 110.41 108.30 2.11 0.30 N 27 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.83 108.30 2.53 0.30 N 28 1 "O4'" B DA 16 ? ? "C1'" B DA 16 ? ? N9 B DA 16 ? ? 111.28 108.30 2.98 0.30 N 29 1 N7 B DA 16 ? ? C8 B DA 16 ? ? N9 B DA 16 ? ? 117.53 113.80 3.73 0.50 N 30 1 "O4'" B DC 17 ? ? "C1'" B DC 17 ? ? N1 B DC 17 ? ? 111.08 108.30 2.78 0.30 N 31 1 "O4'" B DC 18 ? ? "C1'" B DC 18 ? ? N1 B DC 18 ? ? 110.83 108.30 2.53 0.30 N 32 1 "O4'" B DT 19 ? ? "C1'" B DT 19 ? ? N1 B DT 19 ? ? 111.49 108.30 3.19 0.30 N 33 1 "O4'" B DG 20 ? ? "C1'" B DG 20 ? ? N9 B DG 20 ? ? 110.81 108.30 2.51 0.30 N 34 1 N7 B DG 20 ? ? C8 B DG 20 ? ? N9 B DG 20 ? ? 117.65 113.10 4.55 0.50 N 35 1 C8 B DG 20 ? ? N9 B DG 20 ? ? C4 B DG 20 ? ? 103.65 106.40 -2.75 0.40 N 36 1 "O4'" B DC 21 ? ? "C1'" B DC 21 ? ? N1 B DC 21 ? ? 111.38 108.30 3.08 0.30 N 37 1 "O4'" B DC 22 ? ? "C1'" B DC 22 ? ? N1 B DC 22 ? ? 110.85 108.30 2.55 0.30 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1AF1 'double helix' 1AF1 '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 -0.584 -0.287 -0.217 -11.567 -4.357 -1.066 1 A_DG1:DC22_B A 1 ? B 22 ? 19 1 1 A DG 2 1_555 B DC 10 1_555 -0.567 -0.222 0.061 -1.062 -8.113 -0.193 2 A_DG2:DC21_B A 2 ? B 21 ? 19 1 1 A DC 3 1_555 B DG 9 1_555 0.769 -0.353 0.247 -7.789 -3.106 -0.654 3 A_DC3:DG20_B A 3 ? B 20 ? 19 1 1 A DA 4 1_555 B DT 8 1_555 0.309 -0.005 -0.033 4.909 -4.690 -3.896 4 A_DA4:DT19_B A 4 ? B 19 ? 20 1 1 A DG 5 1_555 B DC 7 1_555 -0.701 -0.306 0.328 18.190 13.239 -1.853 5 A_DG5:DC18_B A 5 ? B 18 ? 19 1 1 A GSR 6 1_555 B DC 6 1_555 -1.129 -0.567 -0.769 0.682 -18.670 8.972 6 A_GSR6:DC17_B A 6 ? B 17 ? 19 1 1 A DT 7 1_555 B DA 5 1_555 0.915 -0.542 -1.046 5.442 -30.148 12.643 7 A_DT7:DA16_B A 7 ? B 16 ? 20 1 1 A DG 8 1_555 B DC 4 1_555 -0.808 -0.216 -0.023 -0.960 -6.155 3.557 8 A_DG8:DC15_B A 8 ? B 15 ? 19 1 1 A DG 9 1_555 B DC 3 1_555 -0.532 -0.352 -0.377 -6.928 -22.700 0.209 9 A_DG9:DC14_B A 9 ? B 14 ? 19 1 1 A DT 10 1_555 B DA 2 1_555 -0.543 -0.163 -0.162 -10.228 -15.252 -4.860 10 A_DT10:DA13_B A 10 ? B 13 ? 20 1 1 A DG 11 1_555 B DC 1 1_555 -0.663 -0.336 -0.183 -8.066 -13.222 0.537 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 DG 2 1_555 B DC 10 1_555 0.136 0.050 2.912 -2.744 6.388 34.499 -0.765 -0.590 2.857 10.637 4.570 35.172 1 AA_DG1DG2:DC21DC22_BB A 1 ? B 22 ? A 2 ? B 21 ? 1 A DG 2 1_555 B DC 10 1_555 A DC 3 1_555 B DG 9 1_555 -0.236 -0.485 3.562 -3.534 -10.539 41.421 0.505 -0.069 3.583 -14.587 4.891 42.823 2 AA_DG2DC3:DG20DC21_BB A 2 ? B 21 ? A 3 ? B 20 ? 1 A DC 3 1_555 B DG 9 1_555 A DA 4 1_555 B DT 8 1_555 0.111 -0.301 2.975 7.032 1.466 32.892 -0.738 0.855 2.920 2.550 -12.237 33.646 3 AA_DC3DA4:DT19DG20_BB A 3 ? B 20 ? A 4 ? B 19 ? 1 A DA 4 1_555 B DT 8 1_555 A DG 5 1_555 B DC 7 1_555 0.212 -0.662 2.853 -2.760 0.984 23.082 -1.933 -1.346 2.778 2.446 6.863 23.264 4 AA_DA4DG5:DC18DT19_BB A 4 ? B 19 ? A 5 ? B 18 ? 1 A DG 5 1_555 B DC 7 1_555 A GSR 6 1_555 B DC 6 1_555 0.745 -0.644 3.608 6.002 18.415 29.989 -3.949 -0.275 2.853 31.763 -10.353 35.579 5 AA_DG5GSR6:DC17DC18_BB A 5 ? B 18 ? A 6 ? B 17 ? 1 A GSR 6 1_555 B DC 6 1_555 A DT 7 1_555 B DA 5 1_555 -0.208 1.232 3.521 7.146 -15.010 52.873 2.239 0.658 3.045 -16.404 -7.809 55.245 6 AA_GSR6DT7:DA16DC17_BB A 6 ? B 17 ? A 7 ? B 16 ? 1 A DT 7 1_555 B DA 5 1_555 A DG 8 1_555 B DC 4 1_555 -0.404 0.084 3.766 -7.463 14.800 26.207 -3.227 -0.948 3.337 29.216 14.732 30.931 7 AA_DT7DG8:DC15DA16_BB A 7 ? B 16 ? A 8 ? B 15 ? 1 A DG 8 1_555 B DC 4 1_555 A DG 9 1_555 B DC 3 1_555 -0.582 0.615 3.458 -0.558 3.867 37.031 0.415 0.833 3.510 6.068 0.876 37.230 8 AA_DG8DG9:DC14DC15_BB A 8 ? B 15 ? A 9 ? B 14 ? 1 A DG 9 1_555 B DC 3 1_555 A DT 10 1_555 B DA 2 1_555 -0.545 0.003 3.307 -0.844 -9.114 37.670 1.137 0.717 3.231 -13.865 1.284 38.726 9 AA_DG9DT10:DA13DC14_BB A 9 ? B 14 ? A 10 ? B 13 ? 1 A DT 10 1_555 B DA 2 1_555 A DG 11 1_555 B DC 1 1_555 0.567 0.266 3.214 -2.648 9.090 34.843 -0.843 -1.286 3.133 14.845 4.325 36.068 10 AA_DT10DG11:DC12DA13_BB A 10 ? B 13 ? A 11 ? B 12 ? #