data_2LIB # _entry.id 2LIB # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2LIB RCSB RCSB102419 BMRB 17887 WWPDB D_1000102419 # _pdbx_database_related.db_id 17887 _pdbx_database_related.db_name BMRB _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2LIB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-08-27 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Johnson, C.N.' 1 'Spring, A.M.' 2 'Cunningham, R.P.' 3 'Germann, M.W.' 4 # _citation.id primary _citation.title 'DNA sequence context conceals alpha-anomeric lesions.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 416 _citation.page_first 425 _citation.page_last 437 _citation.year 2012 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22227386 _citation.pdbx_database_id_DOI 10.1016/j.jmb.2011.12.051 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Johnson, C.N.' 1 primary 'Spring, A.M.' 2 primary 'Desai, S.' 3 primary 'Cunningham, R.P.' 4 primary 'Germann, M.W.' 5 # 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*TP*CP*CP*(A3A)P*GP*GP*AP*CP*G)-3') ; 3070.018 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*CP*GP*TP*CP*CP*TP*GP*GP*AP*C)-3') ; 3020.979 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 yes '(DG)(DT)(DC)(DC)(A3A)(DG)(DG)(DA)(DC)(DG)' GTCCAGGACG A ? 2 polydeoxyribonucleotide no no '(DC)(DG)(DT)(DC)(DC)(DT)(DG)(DG)(DA)(DC)' CGTCCTGGAC 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 DT n 1 3 DC n 1 4 DC n 1 5 A3A n 1 6 DG n 1 7 DG n 1 8 DA n 1 9 DC n 1 10 DG n 2 1 DC n 2 2 DG n 2 3 DT n 2 4 DC n 2 5 DC n 2 6 DT n 2 7 DG n 2 8 DG n 2 9 DA n 2 10 DC n # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 2LIB 2LIB 1 ? ? ? 2 PDB 2LIB 2LIB 2 ? ? ? # 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 2LIB A 1 ? 10 ? 2LIB 1 ? 10 ? 1 10 2 2 2LIB B 1 ? 10 ? 2LIB 11 ? 20 ? 11 20 # 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 A3A 'DNA linking' n "2'DEOXY-ALPHA-ANOMERIC-ADENOSINE-5'-PHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 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.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '1-1 jump return' 1 2 1 '1D NOE' 1 3 1 '1-1 NOESY 2D 150 ms' 2 4 2 'Low Flip COSY' 2 5 2 TOCYS 2 6 2 '2D 1H 1H NOESY 75 ms' 2 7 2 '2D 1H 1H NOESY 125 ms' 2 8 2 '2D 1H-1H NOESY 250 ms' 2 9 2 'Constant Time COSY' 2 10 2 '2D 1H-13C HSQC' 2 11 2 '2D 1H-31P CORR' 2 12 2 '1D 31P' # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.temperature_units 1 50 6.65 ambient ? 276 K 2 50 ? ambient ? 298 K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system ;0.75 mM DNA (5'-D(*GP*TP*CP*CP*A3A*GP*GP*AP*CP*G)-3'), 0.75 mM DNA (5'-D(*CP*GP*TP*CP*CP*TP*GP*GP*AP*C)-3'), 10 mM sodium phosphate, 50 mM sodium chloride, 10 % D2O, 0.2 uM DSS, 2 mM EDTA, 90% H2O/10% D2O ; 1 '90% H2O/10% D2O' ;0.75 mM DNA (5'-D(*GP*TP*CP*CP*A3A*GP*GP*AP*CP*G)-3'), 0.75 mM DNA (5'-D(*CP*GP*TP*CP*CP*TP*GP*GP*AP*C)-3'), 10 mM sodium phosphate, 50 mM sodium chloride, 100 % D2O, 0.2 uM DSS, 2 mM EDTA, 100% D2O ; 2 '100% D2O' # _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model Avance _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'Bruker Avance' # _pdbx_nmr_refine.entry_id 2LIB _pdbx_nmr_refine.method 'restrained molecular dynamics' _pdbx_nmr_refine.details 'CORMA AMBER MARDIGRAS cycles with restrained molecular dynamics' _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'lowest AMBER violations' _pdbx_nmr_ensemble.conformers_calculated_total_number 10 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2LIB _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2LIB _pdbx_nmr_representative.selection_criteria 'lowest amber violations' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm' 'structure solution' AMBER 9.0 1 Goddard 'chemical shift assignment' SPARKY 3.3 2 'Bruker Biospin' 'data analysis' TOPSPIN ? 3 'Thomas James' 'structure solution' CORMA ? 4 'Thomas James' 'structure solution' MARDGIRAS ? 5 'Richard Lavery' analysis CURVES 5.1 6 'Heinz Sklenar' analysis CURVES 5.1 7 'Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm' refinement AMBER ? 8 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2LIB _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2LIB _struct.title 'DNA sequence context conceals alpha anomeric lesion' _struct.pdbx_descriptor "5'-D(*GP*TP*CP*CP*(A3A)P*GP*GP*AP*CP*G)-3'" _struct.pdbx_model_details 'lowest AMBER violations, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2LIB _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;Alpha anomeric adenosine, DNA damage, Flanking sequence effects, Structural perturbation, Structural distortion, Minor groove distortion, Endonuclease IV, Enzyme recognition, Helical axis kink, Enzyme modulation, DNA repair, DNA perturbation, 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 hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A DT 2 N3 ? ? ? 1_555 B DA 9 N1 ? ? A DT 2 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A DT 2 O4 ? ? ? 1_555 B DA 9 N6 ? ? A DT 2 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 8 N1 ? ? A DC 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 8 O6 ? ? A DC 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 8 N2 ? ? A DC 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 7 N1 ? ? A DC 4 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 7 O6 ? ? A DC 4 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 7 N2 ? ? A DC 4 B DG 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 7 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 7 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 7 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 3 N3 ? ? A DA 8 B DT 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 3 O4 ? ? A DA 8 B DT 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog25 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 2LIB _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 DT 2 2 2 DT T A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DC 4 4 4 DC C A . n A 1 5 A3A 5 5 5 A3A ADA A . n A 1 6 DG 6 6 6 DG G A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DA 8 8 8 DA A A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DG 10 10 10 DG G A . n B 2 1 DC 1 11 11 DC C B . n B 2 2 DG 2 12 12 DG G B . n B 2 3 DT 3 13 13 DT T B . n B 2 4 DC 4 14 14 DC C B . n B 2 5 DC 5 15 15 DC C B . n B 2 6 DT 6 16 16 DT T B . n B 2 7 DG 7 17 17 DG G B . n B 2 8 DG 8 18 18 DG G B . n B 2 9 DA 9 19 19 DA A B . n B 2 10 DC 10 20 20 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 A3A _pdbx_struct_mod_residue.label_seq_id 5 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id A3A _pdbx_struct_mod_residue.auth_seq_id 5 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DA _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 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2012-08-08 # _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 ? # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id ;DNA (5'-D(*GP*TP*CP*CP*A3A*GP*GP*AP*CP*G)-3')-1 ; 0.75 ? mM ? 1 ;DNA (5'-D(*CP*GP*TP*CP*CP*TP*GP*GP*AP*C)-3')-2 ; 0.75 ? mM ? 1 'sodium phosphate-3' 10 ? mM ? 1 'sodium chloride-4' 50 ? mM ? 1 D2O-5 10 ? % ? 1 DSS-6 0.2 ? uM ? 1 EDTA-7 2 ? mM ? 1 ;DNA (5'-D(*GP*TP*CP*CP*A3A*GP*GP*AP*CP*G)-3')-8 ; 0.75 ? mM ? 2 ;DNA (5'-D(*CP*GP*TP*CP*CP*TP*GP*GP*AP*C)-3')-9 ; 0.75 ? mM ? 2 'sodium phosphate-10' 10 ? mM ? 2 'sodium chloride-11' 50 ? mM ? 2 D2O-12 100 ? % ? 2 DSS-13 0.2 ? uM ? 2 EDTA-14 2 ? mM ? 2 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2LIB _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count ? _pdbx_nmr_constraints.NOE_constraints_total 246 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count ? _pdbx_nmr_constraints.NOE_long_range_total_count ? _pdbx_nmr_constraints.NOE_medium_range_total_count ? _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count ? _pdbx_nmr_constraints.protein_chi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_other_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_phi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_psi_angle_constraints_total_count ? # 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 ? ? 110.46 108.30 2.16 0.30 N 2 1 N3 A DC 3 ? ? C2 A DC 3 ? ? O2 A DC 3 ? ? 117.14 121.90 -4.76 0.70 N 3 1 N3 A DC 4 ? ? C2 A DC 4 ? ? O2 A DC 4 ? ? 117.43 121.90 -4.47 0.70 N 4 1 "O3'" A DC 4 ? ? P A A3A 5 ? ? "O5'" A A3A 5 ? ? 77.39 104.00 -26.61 1.90 Y 5 1 "O4'" A DA 8 ? ? "C4'" A DA 8 ? ? "C3'" A DA 8 ? ? 111.12 106.00 5.12 0.60 N 6 1 C4 A DA 8 ? ? C5 A DA 8 ? ? C6 A DA 8 ? ? 113.43 117.00 -3.57 0.50 N 7 1 C5 A DA 8 ? ? C6 A DA 8 ? ? N1 A DA 8 ? ? 121.73 117.70 4.03 0.50 N 8 1 N1 A DA 8 ? ? C6 A DA 8 ? ? N6 A DA 8 ? ? 113.48 118.60 -5.12 0.60 N 9 1 "O4'" A DC 9 ? ? "C4'" A DC 9 ? ? "C3'" A DC 9 ? ? 109.71 106.00 3.71 0.60 N 10 1 N3 A DC 9 ? ? C2 A DC 9 ? ? O2 A DC 9 ? ? 117.68 121.90 -4.22 0.70 N 11 1 "O4'" B DC 11 ? ? "C4'" B DC 11 ? ? "C3'" B DC 11 ? ? 109.93 106.00 3.93 0.60 N 12 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 114.06 108.30 5.76 0.30 N 13 1 N3 B DC 11 ? ? C2 B DC 11 ? ? O2 B DC 11 ? ? 117.24 121.90 -4.66 0.70 N 14 1 "O4'" B DG 12 ? ? "C4'" B DG 12 ? ? "C3'" B DG 12 ? ? 109.93 106.00 3.93 0.60 N 15 1 N1 B DG 12 ? ? C6 B DG 12 ? ? O6 B DG 12 ? ? 116.28 119.90 -3.62 0.60 N 16 1 "O4'" B DT 13 ? ? "C4'" B DT 13 ? ? "C3'" B DT 13 ? ? 110.22 106.00 4.22 0.60 N 17 1 "O4'" B DC 14 ? ? "C4'" B DC 14 ? ? "C3'" B DC 14 ? ? 109.76 106.00 3.76 0.60 N 18 1 "O4'" B DC 14 ? ? "C1'" B DC 14 ? ? N1 B DC 14 ? ? 110.29 108.30 1.99 0.30 N 19 1 "O4'" B DC 15 ? ? "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? 110.90 106.00 4.90 0.60 N 20 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 110.67 108.30 2.37 0.30 N 21 1 "O4'" B DT 16 ? ? "C1'" B DT 16 ? ? "C2'" B DT 16 ? ? 98.93 105.90 -6.97 0.80 N 22 1 C6 B DT 16 ? ? C5 B DT 16 ? ? C7 B DT 16 ? ? 119.16 122.90 -3.74 0.60 N 23 1 "O4'" B DA 19 ? ? "C4'" B DA 19 ? ? "C3'" B DA 19 ? ? 110.17 106.00 4.17 0.60 N 24 1 C4 B DA 19 ? ? C5 B DA 19 ? ? C6 B DA 19 ? ? 113.13 117.00 -3.87 0.50 N 25 1 C5 B DA 19 ? ? C6 B DA 19 ? ? N1 B DA 19 ? ? 121.15 117.70 3.45 0.50 N 26 1 N1 B DA 19 ? ? C6 B DA 19 ? ? N6 B DA 19 ? ? 113.43 118.60 -5.17 0.60 N 27 1 "O4'" B DC 20 ? ? "C1'" B DC 20 ? ? N1 B DC 20 ? ? 111.54 108.30 3.24 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 DG A 10 ? ? 0.095 'SIDE CHAIN' 2 1 DC B 11 ? ? 0.112 'SIDE CHAIN' 3 1 DG B 18 ? ? 0.068 'SIDE CHAIN' 4 1 DC B 20 ? ? 0.109 'SIDE CHAIN' # _pdbx_unobs_or_zero_occ_atoms.id 1 _pdbx_unobs_or_zero_occ_atoms.PDB_model_num 1 _pdbx_unobs_or_zero_occ_atoms.polymer_flag Y _pdbx_unobs_or_zero_occ_atoms.occupancy_flag 1 _pdbx_unobs_or_zero_occ_atoms.auth_asym_id A _pdbx_unobs_or_zero_occ_atoms.auth_comp_id A3A _pdbx_unobs_or_zero_occ_atoms.auth_seq_id 5 _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code ? _pdbx_unobs_or_zero_occ_atoms.auth_atom_id O1 _pdbx_unobs_or_zero_occ_atoms.label_alt_id ? _pdbx_unobs_or_zero_occ_atoms.label_asym_id A _pdbx_unobs_or_zero_occ_atoms.label_comp_id A3A _pdbx_unobs_or_zero_occ_atoms.label_seq_id 5 _pdbx_unobs_or_zero_occ_atoms.label_atom_id O1 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2LIB 'double helix' 2LIB '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 10 1_555 -0.403 -0.119 0.022 -8.505 -18.702 -0.041 1 A_DG1:DC20_B A 1 ? B 20 ? 19 1 1 A DT 2 1_555 B DA 9 1_555 -0.025 -0.049 -0.131 -6.942 -18.443 -1.423 2 A_DT2:DA19_B A 2 ? B 19 ? 20 1 1 A DC 3 1_555 B DG 8 1_555 0.035 -0.041 -0.180 -0.248 -2.814 -2.929 3 A_DC3:DG18_B A 3 ? B 18 ? 19 1 1 A DC 4 1_555 B DG 7 1_555 0.052 -0.121 0.021 3.192 -2.242 -4.329 4 A_DC4:DG17_B A 4 ? B 17 ? 19 1 1 A A3A 5 1_555 B DT 6 1_555 -0.123 1.106 -0.010 10.626 8.540 162.983 5 A_A3A5:DT16_B A 5 ? B 16 ? 21 2 1 A DG 6 1_555 B DC 5 1_555 0.031 -0.076 0.120 4.500 4.068 -2.726 6 A_DG6:DC15_B A 6 ? B 15 ? 19 1 1 A DG 7 1_555 B DC 4 1_555 -0.267 -0.112 -0.230 11.005 -7.646 -1.711 7 A_DG7:DC14_B A 7 ? B 14 ? 19 1 1 A DA 8 1_555 B DT 3 1_555 0.093 -0.040 -0.188 6.895 -19.271 -4.141 8 A_DA8:DT13_B A 8 ? B 13 ? 20 1 1 A DC 9 1_555 B DG 2 1_555 0.413 -0.036 -0.049 7.059 -14.139 4.652 9 A_DC9:DG12_B A 9 ? B 12 ? 19 1 1 A DG 10 1_555 B DC 1 1_555 -0.438 -0.274 -1.015 -3.948 -22.427 8.609 10 A_DG10:DC11_B A 10 ? B 11 ? 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 10 1_555 A DT 2 1_555 B DA 9 1_555 -0.436 -1.270 3.281 3.112 0.060 33.687 -2.192 1.250 3.227 0.103 -5.355 33.827 1 AA_DG1DT2:DA19DC20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DT 2 1_555 B DA 9 1_555 A DC 3 1_555 B DG 8 1_555 0.415 0.165 3.117 1.737 5.109 37.941 -0.363 -0.423 3.127 7.810 -2.655 38.309 2 AA_DT2DC3:DG18DA19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DC 3 1_555 B DG 8 1_555 A DC 4 1_555 B DG 7 1_555 -1.233 -0.314 3.270 -1.808 5.178 30.813 -1.564 1.944 3.240 9.649 3.369 31.286 3 AA_DC3DC4:DG17DG18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DC 4 1_555 B DG 7 1_555 A A3A 5 1_555 B DT 6 1_555 2.101 2.706 0.046 163.386 -54.357 -100.372 -1.391 0.940 -0.693 27.464 82.550 -175.002 4 AA_DC4A3A5:DT16DG17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A A3A 5 1_555 B DT 6 1_555 A DG 6 1_555 B DC 5 1_555 -1.805 -2.787 -0.599 102.954 -146.124 11.434 -1.181 1.052 1.173 -73.522 -51.801 178.757 5 AA_A3A5DG6:DC15DT16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A DG 6 1_555 B DC 5 1_555 A DG 7 1_555 B DC 4 1_555 -0.016 -0.732 3.301 3.933 4.601 26.008 -2.774 1.051 3.091 10.051 -8.592 26.691 6 AA_DG6DG7:DC14DC15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DG 7 1_555 B DC 4 1_555 A DA 8 1_555 B DT 3 1_555 -0.946 0.237 3.289 -4.261 5.195 42.739 -0.199 0.857 3.369 7.076 5.804 43.239 7 AA_DG7DA8:DT13DC14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DA 8 1_555 B DT 3 1_555 A DC 9 1_555 B DG 2 1_555 1.047 -0.222 3.255 0.700 -1.755 34.742 -0.104 -1.644 3.282 -2.937 -1.171 34.792 8 AA_DA8DC9:DG12DT13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DC 9 1_555 B DG 2 1_555 A DG 10 1_555 B DC 1 1_555 0.746 -0.887 4.359 -0.380 12.089 28.083 -4.761 -1.514 3.664 23.577 0.741 30.529 9 AA_DC9DG10:DC11DG12_BB A 9 ? B 12 ? A 10 ? B 11 ? #