data_2L9E # _entry.id 2L9E # _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 2L9E RCSB RCSB102121 BMRB 17449 WWPDB D_1000102121 # _pdbx_database_related.db_id 17449 _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 2L9E _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-02-08 _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.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Vendeix, F.A.P.' 1 'Murphy IV, F.V.' 2 'Cantara, W.' 3 'Leszczynska, G.' 4 'Gustilo, E.M.' 5 'Sproat, B.' 6 'Malkiewicz, A.A.P.' 7 'Agris, P.F.' 8 # _citation.id primary _citation.title 'Solution Structure of the human Anti-codon Stem and loop(hASL) of transfer RNA Lysine 3 (tRNALys3)' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Vendeix, F.A.P.' 1 primary 'Murphy IV, F.V.' 2 primary 'Cantara, W.' 3 primary 'Leszczynska, G.' 4 primary 'Gustilo, E.M.' 5 primary 'Sproat, B.' 6 primary 'Malkiewicz, A.A.P.' 7 primary 'Agris, P.F.' 8 # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;RNA (5'-R(*GP*CP*AP*GP*AP*CP*UP*(70U)P*UP*UP*(12A)P*AP*UP*CP*UP*GP*C)-3') ; _entity.formula_weight 5644.539 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'GCAGACU(70U)UU(12A)AUCUGC' _entity_poly.pdbx_seq_one_letter_code_can GCAGACUUUUAAUCUGC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 C n 1 3 A n 1 4 G n 1 5 A n 1 6 C n 1 7 U n 1 8 70U n 1 9 U n 1 10 U n 1 11 12A n 1 12 A n 1 13 U n 1 14 C n 1 15 U n 1 16 G n 1 17 C n # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 2L9E _struct_ref.pdbx_db_accession 2L9E _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2L9E _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 17 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2L9E _struct_ref_seq.db_align_beg 27 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 43 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 27 _struct_ref_seq.pdbx_auth_seq_align_end 43 # 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 12A 'RNA linking' n "2-METHYLTHIO-N6-(AMINOCARBONYL-L-THREONYL)-ADENOSINE-5'-MONOPHOSPHATE" ? 'C16 H23 N6 O11 P S' 538.426 70U 'RNA linking' n "5-(O-METHYLACETO)-2-THIO-2-DEOXY-URIDINE-5'-MONOPHOSPHATE" ? 'C12 H17 N2 O10 P S' 412.310 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D 1H-1H NOESY' 2 2 1 '2D 1H-1H TOCSY' 2 3 2 '2D 1H-1H COSY' 2 4 2 '2D DQF-COSY' 2 5 2 '2D 1H-1H NOESY' 2 6 2 '2D 1H-1H TOCSY' 2 7 2 '2D 1H-13C HSQC' 2 8 2 '2D 1H-31P HETCOR' 2 9 1 '2D 1H-1H NOESY' # 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 unknown 6.2 ambient ? 275 K 2 unknown 6.2 ambient ? 295 K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system ;1.50 mM RNA (5'-R(*GP*CP*AP*GP*AP*CP*UP*(70U)P*UP*UP*(12A)P*AP*UP*CP*UP*GP*C)-3'), 90% H2O/10% D2O ; 1 '90% H2O/10% D2O' ;1.50 mM RNA (5'-R(*GP*CP*AP*GP*AP*CP*UP*(70U)P*UP*UP*(12A)P*AP*UP*CP*UP*GP*C)-3'), 100% D2O ; 2 '100% D2O' # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 500 Bruker DRX 1 'Bruker DRX' 600 Varian UNITY 2 'Varian Unity' # _pdbx_nmr_refine.entry_id 2L9E _pdbx_nmr_refine.method 'torsion angle dynamics' _pdbx_nmr_refine.details ? _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 'structures with the lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 80 _pdbx_nmr_ensemble.conformers_submitted_total_number 11 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2L9E _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 2L9E _pdbx_nmr_representative.selection_criteria 'minimized average structure' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Bruker Biospin' collection xwinnmr ? 1 'Bruker Biospin' processing xwinnmr ? 2 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' processing NMRPipe ? 3 Goddard 'data analysis' SPARKY ? 4 Goddard 'chemical shift assignment' SPARKY ? 5 Goddard 'peak picking' SPARKY ? 6 'Brunger, Adams, Clore, Gros, Nilges and Read' 'geometry optimization' CNS ? 7 'Brunger, Adams, Clore, Gros, Nilges and Read' 'structure solution' CNS ? 8 'Brunger, Adams, Clore, Gros, Nilges and Read' refinement CNS ? 9 # _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 2L9E _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2L9E _struct.title 'Solution Structure of the human Anti-codon Stem and loop(hASL) of transfer RNA Lysine 3 (tRNALys3)' _struct.pdbx_descriptor "5'-R(*GP*CP*AP*GP*AP*CP*UP*(70U)P*UP*UP*(12A)P*AP*UP*CP*UP*GP*C)-3'" _struct.pdbx_model_details 'minimized average, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 2L9E _struct_keywords.pdbx_keywords RNA _struct_keywords.text RNA # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _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 covale1 covale ? ? A U 7 "O3'" ? ? ? 1_555 A 70U 8 P ? ? A U 33 A 70U 34 1_555 ? ? ? ? ? ? ? 1.614 ? covale2 covale ? ? A 70U 8 "O3'" ? ? ? 1_555 A U 9 P ? ? A 70U 34 A U 35 1_555 ? ? ? ? ? ? ? 1.608 ? covale3 covale ? ? A U 10 "O3'" ? ? ? 1_555 A 12A 11 P ? ? A U 36 A 12A 37 1_555 ? ? ? ? ? ? ? 1.610 ? covale4 covale ? ? A 12A 11 "O3'" ? ? ? 1_555 A A 12 P ? ? A 12A 37 A A 38 1_555 ? ? ? ? ? ? ? 1.605 ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 17 N3 ? ? A G 27 A C 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 17 O2 ? ? A G 27 A C 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 17 N4 ? ? A G 27 A C 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 A G 16 N1 ? ? A C 28 A G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 A G 16 O6 ? ? A C 28 A G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 A G 16 N2 ? ? A C 28 A G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 A U 15 N3 ? ? A A 29 A U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 A U 15 O4 ? ? A A 29 A U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 14 N3 ? ? A G 30 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 14 O2 ? ? A G 30 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 14 N4 ? ? A G 30 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 13 N3 ? ? A A 31 A U 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 13 O4 ? ? A A 31 A U 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? A C 6 O2 ? ? ? 1_555 A A 12 N6 ? ? A C 32 A A 38 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 2L9E _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 S # 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 G 1 27 27 G G A . n A 1 2 C 2 28 28 C C A . n A 1 3 A 3 29 29 A A A . n A 1 4 G 4 30 30 G G A . n A 1 5 A 5 31 31 A A A . n A 1 6 C 6 32 32 C C A . n A 1 7 U 7 33 33 U U A . n A 1 8 70U 8 34 34 70U 70U A . n A 1 9 U 9 35 35 U U A . n A 1 10 U 10 36 36 U U A . n A 1 11 12A 11 37 37 12A 12A A . n A 1 12 A 12 38 38 A A A . n A 1 13 U 13 39 39 U U A . n A 1 14 C 14 40 40 C C A . n A 1 15 U 15 41 41 U U A . n A 1 16 G 16 42 42 G G A . n A 1 17 C 17 43 43 C C A . n # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A 70U 8 A 70U 34 ? U ? 2 A 12A 11 A 12A 37 ? A ? # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _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 2011-03-02 2 'Structure model' 1 1 2011-07-13 # _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_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Version format compliance' # 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 ;RNA (5'-R(*GP*CP*AP*GP*AP*CP*UP*(70U)P*UP*UP*(12A)P*AP*UP*CP*UP*GP*C)-3')-1 ; 1.50 ? mM ? 1 ;RNA (5'-R(*GP*CP*AP*GP*AP*CP*UP*(70U)P*UP*UP*(12A)P*AP*UP*CP*UP*GP*C)-3')-2 ; 1.50 ? mM ? 2 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 2 H61 A A 31 ? ? O4 A U 39 ? ? 1.43 2 2 O2 A C 28 ? ? H22 A G 42 ? ? 1.46 3 2 H22 A G 27 ? ? O2 A C 43 ? ? 1.48 4 2 N1 A A 29 ? ? H3 A U 41 ? ? 1.53 5 2 H61 A A 29 ? ? O4 A U 41 ? ? 1.56 6 3 O2 A C 28 ? ? H22 A G 42 ? ? 1.40 7 3 H22 A G 30 ? ? O2 A C 40 ? ? 1.46 8 3 H22 A G 27 ? ? O2 A C 43 ? ? 1.47 9 3 H61 A A 31 ? ? O4 A U 39 ? ? 1.52 10 3 N1 A A 29 ? ? H3 A U 41 ? ? 1.59 11 4 H61 A A 31 ? ? O4 A U 39 ? ? 1.46 12 4 H22 A G 30 ? ? O2 A C 40 ? ? 1.55 13 5 H61 A A 31 ? ? O4 A U 39 ? ? 1.41 14 5 N1 A A 31 ? ? H3 A U 39 ? ? 1.55 15 5 H22 A G 30 ? ? O2 A C 40 ? ? 1.55 16 6 H61 A A 31 ? ? O4 A U 39 ? ? 1.42 17 6 N1 A A 31 ? ? H3 A U 39 ? ? 1.54 18 7 H22 A G 30 ? ? O2 A C 40 ? ? 1.41 19 7 O2 A C 28 ? ? H22 A G 42 ? ? 1.48 20 7 H61 A A 31 ? ? O4 A U 39 ? ? 1.54 21 7 N1 A A 31 ? ? H3 A U 39 ? ? 1.56 22 8 O2 A C 28 ? ? H22 A G 42 ? ? 1.39 23 8 H22 A G 27 ? ? O2 A C 43 ? ? 1.47 24 8 H22 A G 30 ? ? O2 A C 40 ? ? 1.48 25 8 H61 A A 31 ? ? O4 A U 39 ? ? 1.52 26 8 N1 A A 29 ? ? H3 A U 41 ? ? 1.58 27 9 H22 A G 27 ? ? O2 A C 43 ? ? 1.50 28 9 O2 A C 28 ? ? H22 A G 42 ? ? 1.52 29 9 H61 A A 29 ? ? O4 A U 41 ? ? 1.54 30 9 H61 A A 31 ? ? O4 A U 39 ? ? 1.58 31 10 O2 A C 28 ? ? H22 A G 42 ? ? 1.40 32 10 H22 A G 27 ? ? O2 A C 43 ? ? 1.42 33 10 H22 A G 30 ? ? O2 A C 40 ? ? 1.45 34 10 N1 A A 29 ? ? H3 A U 41 ? ? 1.60 35 11 O2 A C 28 ? ? H22 A G 42 ? ? 1.43 36 11 H22 A G 27 ? ? O2 A C 43 ? ? 1.48 37 11 H22 A G 30 ? ? O2 A C 40 ? ? 1.49 38 11 N1 A A 29 ? ? H3 A U 41 ? ? 1.53 39 11 H61 A A 31 ? ? O4 A U 39 ? ? 1.55 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2L9E 'a-form double helix' 2L9E 'hairpin loop' 2L9E 'mismatched base pair' # 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 G 1 1_555 A C 17 1_555 -0.435 -0.030 -0.032 2.207 2.901 -0.023 1 A_G27:C43_A A 27 ? A 43 ? 19 1 1 A C 2 1_555 A G 16 1_555 -0.251 -0.085 0.020 1.416 2.099 2.078 2 A_C28:G42_A A 28 ? A 42 ? 19 1 1 A A 3 1_555 A U 15 1_555 0.211 -0.095 -0.066 -0.165 2.273 -0.636 3 A_A29:U41_A A 29 ? A 41 ? 20 1 1 A G 4 1_555 A C 14 1_555 -0.313 -0.133 0.000 -2.457 -0.354 -0.919 4 A_G30:C40_A A 30 ? A 40 ? 19 1 1 A A 5 1_555 A U 13 1_555 0.202 0.354 0.028 -2.405 -0.984 -2.421 5 A_A31:U39_A A 31 ? A 39 ? 20 1 1 A C 6 1_555 A A 12 1_555 3.512 -0.379 -0.627 -9.688 8.377 -17.358 6 A_C32:A38_A A 32 ? A 38 ? ? 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 G 1 1_555 A C 17 1_555 A C 2 1_555 A G 16 1_555 0.011 -1.730 3.178 -1.488 10.293 33.975 -4.192 -0.214 2.559 17.124 2.476 35.487 1 AA_G27C28:G42C43_AA A 27 ? A 43 ? A 28 ? A 42 ? 1 A C 2 1_555 A G 16 1_555 A A 3 1_555 A U 15 1_555 -0.201 -1.662 3.392 0.162 5.430 32.691 -3.826 0.379 3.082 9.565 -0.286 33.127 2 AA_C28A29:U41G42_AA A 28 ? A 42 ? A 29 ? A 41 ? 1 A A 3 1_555 A U 15 1_555 A G 4 1_555 A C 14 1_555 0.044 -1.788 3.324 0.379 7.483 30.007 -4.735 -0.012 2.807 14.177 -0.717 30.907 3 AA_A29G30:C40U41_AA A 29 ? A 41 ? A 30 ? A 40 ? 1 A G 4 1_555 A C 14 1_555 A A 5 1_555 A U 13 1_555 -0.114 -1.590 3.306 0.979 4.783 34.959 -3.316 0.329 3.064 7.915 -1.619 35.288 4 AA_G30A31:U39C40_AA A 30 ? A 40 ? A 31 ? A 39 ? 1 A A 5 1_555 A U 13 1_555 A C 6 1_555 A A 12 1_555 -0.720 -2.227 3.591 3.893 7.593 42.576 -3.774 1.364 3.094 10.332 -5.298 43.384 5 AA_A31C32:A38U39_AA A 31 ? A 39 ? A 32 ? A 38 ? #