data_1OSR # _entry.id 1OSR # _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 1OSR pdb_00001osr 10.2210/pdb1osr/pdb RCSB RCSB018631 ? ? WWPDB D_1000018631 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1OSR _pdbx_database_status.recvd_initial_deposition_date 2003-03-20 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Maufrais, C.' 1 'Fazakerley, G.V.' 2 'Cadet, J.' 3 'Boulard, Y.' 4 # _citation.id primary _citation.title ;Structural study of DNA duplex containing an N-(2-deoxy-beta-D-erythro-pentofuranosyl) formamide frameshift by NMR and restrained molecular dynamics. ; _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 31 _citation.page_first 5930 _citation.page_last 5940 _citation.year 2003 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 14530441 _citation.pdbx_database_id_DOI 10.1093/nar/gkg803 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Maufrais, C.' 1 ? primary 'Fazakerley, G.V.' 2 ? primary 'Cadet, J.' 3 ? primary 'Boulard, Y.' 4 ? # _symmetry.entry_id 1OSR _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 "5'-D(*AP*GP*GP*AP*CP*CP*AP*CP*G)-3'" 2749.826 1 ? ? ? ? 2 polymer syn "5'-D(*CP*GP*TP*GP*GP*(2DF)P*TP*CP*CP*T)-3'" 2945.905 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DA)(DG)(DG)(DA)(DC)(DC)(DA)(DC)(DG)' AGGACCACG A ? 2 polydeoxyribonucleotide no yes '(DC)(DG)(DT)(DG)(DG)(2DF)(DT)(DC)(DC)(DT)' CGTGGNTCCT B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DA n 1 2 DG n 1 3 DG n 1 4 DA n 1 5 DC n 1 6 DC n 1 7 DA n 1 8 DC n 1 9 DG n 2 1 DC n 2 2 DG n 2 3 DT n 2 4 DG n 2 5 DG n 2 6 2DF n 2 7 DT n 2 8 DC n 2 9 DC n 2 10 DT 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 1OSR 1OSR ? ? ? 2 2 PDB 1OSR 1OSR ? ? ? # 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 1OSR A 1 ? 9 ? 1OSR 1 ? 9 ? 1 9 2 2 1OSR B 1 ? 10 ? 1OSR 10 ? 19 ? 10 19 # 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 2DF 'DNA linking' . 'N-(2-DEOXY-BETA-D-ERYTHO-PENTOFURANOSYL-5-PHOSPHATE) FORMAMIDE' ? 'C6 H12 N O7 P' 241.136 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_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 NOESY 1 2 1 COSY 1 3 1 DQFCOSY 1 4 1 TOCSY 1 5 1 'HSQC 1H-31P' 1 # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature_units 1 290 AMBIENT 6.5 '10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA' ? K 2 278 AMBIENT 5.5 '10 mM PHOSPHATE BUFFER, 150 mM NACL, 0.2 mM EDTA' ? K # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 '2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA' '99.9% D2O' 2 '2 MM DNA, 10 MM PHOSPHATE BUFFER, 50 MM NACL, 0.2 MM EDTA' '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 AVANCE Bruker 600 ? 2 AVANCE Bruker 500 ? # _pdbx_nmr_refine.entry_id 1OSR _pdbx_nmr_refine.method 'MOLECULAR MODELING; SIMULATED ANNEALING; RESTRAINED MOLECULAR DYNAMICS SIMULATIONS' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1OSR _pdbx_nmr_details.text ;THE STRUCTURES WERE DETERMINED USING PROTON NMR FOLLOWED BY DISTANCE RESTRAINED MOLECULAR DYNAMICS SIMULATIONS. TWO REPRESENTATIVE STRUCTURES OF THE TWO ISOMER CIS AND TRANS FOR THE FORMAMIDE RESIDUE ARE PRESENTED. ; # _pdbx_nmr_ensemble.entry_id 1OSR _pdbx_nmr_ensemble.conformers_submitted_total_number 2 _pdbx_nmr_ensemble.conformers_calculated_total_number . _pdbx_nmr_ensemble.conformer_selection_criteria . _pdbx_nmr_ensemble.average_constraint_violations_per_residue . # _pdbx_nmr_representative.entry_id 1OSR _pdbx_nmr_representative.conformer_id 2 _pdbx_nmr_representative.selection_criteria 'those which were used to initiate molecular dynamic simulations' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement Amber ? KOLLMAN 1 refinement MORCAD ? LEBRET 2 refinement MOLMOL 2.6 'Koradi, Wuthrich' 3 processing XwinNMR 2.5 BRUKER 4 # _exptl.entry_id 1OSR _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1OSR _struct.title ;Structural study of dna duplex containaing a n-(2-deoxy-beta-erytho-pentofuranosyl) formamide frameshift by nmr and restrained molecular dynamics ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1OSR _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'MODIFIED BASE, MUTAGENESIS, 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 ? B DG 5 "O3'" ? ? ? 1_555 B 2DF 6 P ? ? B DG 14 B 2DF 15 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale2 covale both ? B 2DF 6 "O3'" ? ? ? 1_555 B DT 7 P ? ? B 2DF 15 B DT 16 1_555 ? ? ? ? ? ? ? 1.611 ? ? hydrog1 hydrog ? ? A DA 1 N1 ? ? ? 1_555 B DT 10 N3 ? ? A DA 1 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 10 O4 ? ? A DA 1 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 2 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 2 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 2 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 3 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 3 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 3 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 4 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 4 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 5 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 5 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 5 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 6 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 6 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 6 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 3 N3 ? ? A DA 7 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 3 O4 ? ? A DA 7 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 8 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 8 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 8 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 9 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 9 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 9 B DC 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 1OSR _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 DA 1 1 1 DA A A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DC 6 6 6 DC C A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 DC 8 8 8 DC C A . n A 1 9 DG 9 9 9 DG G A . n B 2 1 DC 1 10 10 DC C B . n B 2 2 DG 2 11 11 DG G B . n B 2 3 DT 3 12 12 DT T B . n B 2 4 DG 4 13 13 DG G B . n B 2 5 DG 5 14 14 DG G B . n B 2 6 2DF 6 15 15 2DF 2DF B . n B 2 7 DT 7 16 16 DT T B . n B 2 8 DC 8 17 17 DC C B . n B 2 9 DC 9 18 18 DC C B . n B 2 10 DT 10 19 19 DT T B . n # _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 2003-10-14 2 'Structure model' 1 1 2008-04-29 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' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # 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 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_nmr_software.name' 4 4 'Structure model' '_pdbx_nmr_spectrometer.model' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # 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 DA 1 ? ? "C1'" A DA 1 ? ? N9 A DA 1 ? ? 111.39 108.30 3.09 0.30 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.24 108.30 1.94 0.30 N 3 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 110.22 108.30 1.92 0.30 N 4 1 "O4'" A DC 6 ? ? "C1'" A DC 6 ? ? N1 A DC 6 ? ? 110.57 108.30 2.27 0.30 N 5 1 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 110.69 108.30 2.39 0.30 N 6 1 "O4'" B DT 12 ? ? "C1'" B DT 12 ? ? N1 B DT 12 ? ? 110.69 108.30 2.39 0.30 N 7 1 C6 B DT 12 ? ? C5 B DT 12 ? ? C7 B DT 12 ? ? 119.20 122.90 -3.70 0.60 N 8 1 "O4'" B DT 16 ? ? "C1'" B DT 16 ? ? N1 B DT 16 ? ? 110.61 108.30 2.31 0.30 N 9 1 "O4'" B DC 18 ? ? "C1'" B DC 18 ? ? N1 B DC 18 ? ? 110.58 108.30 2.28 0.30 N 10 1 "O4'" B DT 19 ? ? "C1'" B DT 19 ? ? N1 B DT 19 ? ? 111.25 108.30 2.95 0.30 N 11 2 "O4'" A DA 1 ? ? "C1'" A DA 1 ? ? N9 A DA 1 ? ? 111.73 108.30 3.43 0.30 N 12 2 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.41 108.30 2.11 0.30 N 13 2 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 110.43 108.30 2.13 0.30 N 14 2 "O4'" A DC 6 ? ? "C1'" A DC 6 ? ? N1 A DC 6 ? ? 111.00 108.30 2.70 0.30 N 15 2 "O4'" B DC 10 ? ? "C1'" B DC 10 ? ? N1 B DC 10 ? ? 110.55 108.30 2.25 0.30 N 16 2 "O4'" B DT 12 ? ? "C1'" B DT 12 ? ? N1 B DT 12 ? ? 111.04 108.30 2.74 0.30 N 17 2 "O4'" B DT 16 ? ? "C1'" B DT 16 ? ? N1 B DT 16 ? ? 110.98 108.30 2.68 0.30 N 18 2 "O4'" B DC 18 ? ? "C1'" B DC 18 ? ? N1 B DC 18 ? ? 110.37 108.30 2.07 0.30 N 19 2 "O4'" B DT 19 ? ? "C1'" B DT 19 ? ? N1 B DT 19 ? ? 111.19 108.30 2.89 0.30 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DA A 1 ? ? 0.064 'SIDE CHAIN' 2 1 DG A 9 ? ? 0.059 'SIDE CHAIN' 3 1 DC B 18 ? ? 0.064 'SIDE CHAIN' 4 2 DA A 1 ? ? 0.078 'SIDE CHAIN' # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1OSR 'double helix' 1OSR 'b-form double helix' 1OSR 'bulge loop' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DA 1 1_555 B DT 10 1_555 -0.563 -0.192 -0.047 -20.071 -3.873 -10.630 1 A_DA1:DT19_B A 1 ? B 19 ? 20 1 1 A DG 2 1_555 B DC 9 1_555 0.609 -0.030 -0.318 -12.890 -10.584 -6.941 2 A_DG2:DC18_B A 2 ? B 18 ? 19 1 1 A DG 3 1_555 B DC 8 1_555 0.079 -0.028 0.105 -4.452 -6.491 -4.326 3 A_DG3:DC17_B A 3 ? B 17 ? 19 1 1 A DA 4 1_555 B DT 7 1_555 0.490 0.126 0.094 -5.201 0.109 -7.564 4 A_DA4:DT16_B A 4 ? B 16 ? 20 1 1 A DC 5 1_555 B DG 5 1_555 -0.036 0.024 0.270 -3.299 -4.383 -4.528 5 A_DC5:DG14_B A 5 ? B 14 ? 19 1 1 A DC 6 1_555 B DG 4 1_555 0.033 -0.024 0.063 2.696 -7.327 -3.681 6 A_DC6:DG13_B A 6 ? B 13 ? 19 1 1 A DA 7 1_555 B DT 3 1_555 0.168 0.026 0.419 7.486 -3.196 -4.892 7 A_DA7:DT12_B A 7 ? B 12 ? 20 1 1 A DC 8 1_555 B DG 2 1_555 -0.605 -0.080 0.493 4.372 -6.209 -6.566 8 A_DC8:DG11_B A 8 ? B 11 ? 19 1 1 A DG 9 1_555 B DC 1 1_555 0.688 -0.148 1.024 22.312 -5.550 -8.167 9 A_DG9:DC10_B A 9 ? B 10 ? 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 DA 1 1_555 B DT 10 1_555 A DG 2 1_555 B DC 9 1_555 -0.178 -0.490 3.189 5.355 -1.007 40.062 -0.600 0.843 3.152 -1.462 -7.774 40.415 1 AA_DA1DG2:DC18DT19_BB A 1 ? B 19 ? A 2 ? B 18 ? 1 A DG 2 1_555 B DC 9 1_555 A DG 3 1_555 B DC 8 1_555 -0.033 -0.141 2.995 -4.191 -3.592 33.771 0.280 -0.552 2.976 -6.132 7.154 34.206 2 AA_DG2DG3:DC17DC18_BB A 2 ? B 18 ? A 3 ? B 17 ? 1 A DG 3 1_555 B DC 8 1_555 A DA 4 1_555 B DT 7 1_555 -0.051 -0.447 3.312 0.363 -6.059 39.550 0.057 0.118 3.341 -8.891 -0.533 39.995 3 AA_DG3DA4:DT16DC17_BB A 3 ? B 17 ? A 4 ? B 16 ? 1 A DA 4 1_555 B DT 7 1_555 A DC 5 1_555 B DG 5 1_555 0.056 -0.475 3.304 -0.450 1.145 32.705 -1.043 -0.178 3.284 2.033 0.799 32.727 4 AA_DA4DC5:DG14DT16_BB A 4 ? B 16 ? A 5 ? B 14 ? 1 A DC 5 1_555 B DG 5 1_555 A DC 6 1_555 B DG 4 1_555 0.237 -0.045 3.245 1.317 -5.102 35.678 0.647 -0.197 3.227 -8.271 -2.135 36.053 5 AA_DC5DC6:DG13DG14_BB A 5 ? B 14 ? A 6 ? B 13 ? 1 A DC 6 1_555 B DG 4 1_555 A DA 7 1_555 B DT 3 1_555 -0.078 -0.190 3.249 -2.824 -3.253 40.013 0.092 -0.206 3.252 -4.737 4.112 40.234 6 AA_DC6DA7:DT12DG13_BB A 6 ? B 13 ? A 7 ? B 12 ? 1 A DA 7 1_555 B DT 3 1_555 A DC 8 1_555 B DG 2 1_555 -0.155 -0.546 3.342 -0.107 -0.941 31.551 -0.825 0.264 3.357 -1.729 0.197 31.565 7 AA_DA7DC8:DG11DT12_BB A 7 ? B 12 ? A 8 ? B 11 ? 1 A DC 8 1_555 B DG 2 1_555 A DG 9 1_555 B DC 1 1_555 0.034 -0.359 2.782 -4.677 -8.723 40.802 0.282 -0.467 2.778 -12.295 6.591 41.936 8 AA_DC8DG9:DC10DG11_BB A 8 ? B 11 ? A 9 ? B 10 ? #