data_2JUK # _entry.id 2JUK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _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 2JUK pdb_00002juk 10.2210/pdb2juk/pdb RCSB RCSB100308 ? ? WWPDB D_1000100308 ? ? # 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 2007-11-20 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-03-16 4 'Structure model' 1 3 2024-05-29 # _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' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Data collection' # 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 3 'Structure model' database_2 2 3 'Structure model' pdbx_nmr_software 3 3 'Structure model' pdbx_struct_assembly 4 3 'Structure model' pdbx_struct_oper_list 5 3 'Structure model' struct_site 6 4 'Structure model' chem_comp_atom 7 4 'Structure model' chem_comp_bond # 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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_nmr_software.name' 4 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 5 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 6 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2JUK _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-08-30 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Staple, D.W.' 1 'Venditti, V.' 2 'Niccolai, N.' 3 'Elson-Schwab, L.' 4 'Tor, Y.' 5 'Butcher, S.E.' 6 # _citation.id primary _citation.title 'Guanidinoneomycin B Recognition of an HIV-1 RNA Helix.' _citation.journal_abbrev Chembiochem _citation.journal_volume 9 _citation.page_first 93 _citation.page_last 102 _citation.year 2008 _citation.journal_id_ASTM ? _citation.country GE _citation.journal_id_ISSN 1439-4227 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18058789 _citation.pdbx_database_id_DOI 10.1002/cbic.200700251 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Staple, D.W.' 1 ? primary 'Venditti, V.' 2 ? primary 'Niccolai, N.' 3 ? primary 'Elson-Schwab, L.' 4 ? primary 'Tor, Y.' 5 ? primary 'Butcher, S.E.' 6 ? # 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 'HIV-1 frameshift site RNA' 7071.299 1 ? ? ? ? 2 non-polymer syn ;(1S,2R,3S,4R,6S)-4,6-bis{[amino(iminio)methyl]amino}-2-{[3-O-(2,6-bis{[amino(iminio)methyl]amino}-2,6-dideoxy-beta-L-glucopyranosyl)-beta-D-arabinofuranosyl]oxy}-3-hydroxycyclohexyl 2,6-bis{[amino(iminio)methyl]amino}-2,6-dideoxy-beta-L-glucopyranoside ; 872.931 1 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code GGCCUUCCCACAAGGGAAGGCC _entity_poly.pdbx_seq_one_letter_code_can GGCCUUCCCACAAGGGAAGGCC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name ;(1S,2R,3S,4R,6S)-4,6-bis{[amino(iminio)methyl]amino}-2-{[3-O-(2,6-bis{[amino(iminio)methyl]amino}-2,6-dideoxy-beta-L-glucopyranosyl)-beta-D-arabinofuranosyl]oxy}-3-hydroxycyclohexyl 2,6-bis{[amino(iminio)methyl]amino}-2,6-dideoxy-beta-L-glucopyranoside ; _pdbx_entity_nonpoly.comp_id G0B # 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 G n 1 3 C n 1 4 C n 1 5 U n 1 6 U n 1 7 C n 1 8 C n 1 9 C n 1 10 A n 1 11 C n 1 12 A n 1 13 A n 1 14 G n 1 15 G n 1 16 G n 1 17 A n 1 18 A n 1 19 G n 1 20 G n 1 21 C n 1 22 C n # 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 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 G0B non-polymer . ;(1S,2R,3S,4R,6S)-4,6-bis{[amino(iminio)methyl]amino}-2-{[3-O-(2,6-bis{[amino(iminio)methyl]amino}-2,6-dideoxy-beta-L-glucopyranosyl)-beta-D-arabinofuranosyl]oxy}-3-hydroxycyclohexyl 2,6-bis{[amino(iminio)methyl]amino}-2,6-dideoxy-beta-L-glucopyranoside ; ? 'C29 H64 N18 O13 6' 872.931 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # 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 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 C 3 3 3 C C A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 U 6 6 6 U U A . n A 1 7 C 7 7 7 C C A . n A 1 8 C 8 8 8 C C A . n A 1 9 C 9 9 9 C C A . n A 1 10 A 10 10 10 A A A . n A 1 11 C 11 11 11 C C A . n A 1 12 A 12 12 12 A A A . n A 1 13 A 13 13 13 A A A . n A 1 14 G 14 14 14 G G A . n A 1 15 G 15 15 15 G G A . n A 1 16 G 16 16 16 G G A . n A 1 17 A 17 17 17 A A A . n A 1 18 A 18 18 18 A A A . n A 1 19 G 19 19 19 G G A . n A 1 20 G 20 20 20 G G A . n A 1 21 C 21 21 21 C C A . n A 1 22 C 22 22 22 C C A . n # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id G0B _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 23 _pdbx_nonpoly_scheme.auth_seq_num 23 _pdbx_nonpoly_scheme.pdb_mon_id G0B _pdbx_nonpoly_scheme.auth_mon_id G0B _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.pdb_ins_code . # _cell.entry_id 2JUK _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 2JUK _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _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 2JUK _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2JUK _struct.title 'guanidino neomycin B recognition of an HIV-1 RNA helix' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2JUK _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'HIV-1, RNA-ligand interactions, guanidinoglycosides, RNA' # 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_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2JUK _struct_ref.pdbx_db_accession 2JUK _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 2JUK _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 22 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2JUK _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 22 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 22 # _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,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 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 22 N3 ? ? A G 1 A C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 22 O2 ? ? A G 1 A C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 22 N4 ? ? A G 1 A C 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 21 N3 ? ? A G 2 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 21 O2 ? ? A G 2 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 21 N4 ? ? A G 2 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 20 N1 ? ? A C 3 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 20 O6 ? ? A C 3 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 20 N2 ? ? A C 3 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 N3 ? ? ? 1_555 A G 19 N1 ? ? A C 4 A G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 4 N4 ? ? ? 1_555 A G 19 O6 ? ? A C 4 A G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 4 O2 ? ? ? 1_555 A G 19 N2 ? ? A C 4 A G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 N3 ? ? ? 1_555 A A 18 N1 ? ? A U 5 A A 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 5 O4 ? ? ? 1_555 A A 18 N6 ? ? A U 5 A A 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 N3 ? ? ? 1_555 A A 17 N1 ? ? A U 6 A A 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A U 6 O4 ? ? ? 1_555 A A 17 N6 ? ? A U 6 A A 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 7 N3 ? ? ? 1_555 A G 16 N1 ? ? A C 7 A G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 7 N4 ? ? ? 1_555 A G 16 O6 ? ? A C 7 A G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 7 O2 ? ? ? 1_555 A G 16 N2 ? ? A C 7 A G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 8 N3 ? ? ? 1_555 A G 15 N1 ? ? A C 8 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 8 N4 ? ? ? 1_555 A G 15 O6 ? ? A C 8 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 8 O2 ? ? ? 1_555 A G 15 N2 ? ? A C 8 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 14 N1 ? ? A C 9 A G 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 14 O6 ? ? A C 9 A G 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 14 N2 ? ? A C 9 A G 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A A 10 N3 ? ? ? 1_555 A A 13 N6 ? ? A A 10 A A 13 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id G0B _struct_site.pdbx_auth_seq_id 23 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 10 _struct_site.details 'BINDING SITE FOR RESIDUE G0B A 23' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 10 C A 3 ? C A 3 . ? 1_555 ? 2 AC1 10 C A 4 ? C A 4 . ? 1_555 ? 3 AC1 10 U A 5 ? U A 5 . ? 1_555 ? 4 AC1 10 U A 6 ? U A 6 . ? 1_555 ? 5 AC1 10 C A 7 ? C A 7 . ? 1_555 ? 6 AC1 10 C A 8 ? C A 8 . ? 1_555 ? 7 AC1 10 C A 9 ? C A 9 . ? 1_555 ? 8 AC1 10 A A 10 ? A A 10 . ? 1_555 ? 9 AC1 10 C A 11 ? C A 11 . ? 1_555 ? 10 AC1 10 A A 17 ? A A 17 . ? 1_555 ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 13 _pdbx_validate_close_contact.auth_atom_id_1 "HO2'" _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 C _pdbx_validate_close_contact.auth_seq_id_1 11 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 OP2 _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 A _pdbx_validate_close_contact.auth_seq_id_2 12 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.57 # 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 C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 112.80 108.50 4.30 0.70 N 2 2 "O4'" A C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 113.16 108.50 4.66 0.70 N 3 2 "O4'" A A 13 ? ? "C1'" A A 13 ? ? N9 A A 13 ? ? 112.82 108.50 4.32 0.70 N 4 2 "O4'" A G 14 ? ? "C1'" A G 14 ? ? N9 A G 14 ? ? 112.78 108.50 4.28 0.70 N 5 3 "C5'" A A 12 ? ? "C4'" A A 12 ? ? "C3'" A A 12 ? ? 106.59 115.20 -8.61 1.40 N 6 4 "O4'" A C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 113.04 108.50 4.54 0.70 N 7 15 "O4'" A C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 112.74 108.50 4.24 0.70 N 8 16 "O4'" A A 12 ? ? "C1'" A A 12 ? ? N9 A A 12 ? ? 112.73 108.50 4.23 0.70 N 9 16 "O4'" A A 13 ? ? "C1'" A A 13 ? ? N9 A A 13 ? ? 113.03 108.50 4.53 0.70 N 10 17 "O4'" A C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 114.05 108.50 5.55 0.70 N 11 19 "O4'" A C 11 ? ? "C1'" A C 11 ? ? N1 A C 11 ? ? 112.74 108.50 4.24 0.70 N # _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 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2JUK _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 2JUK _pdbx_nmr_representative.selection_criteria 'lowest energy' # _pdbx_nmr_sample_details.contents '1mM mM HIV-1 frameshift site RNA, 0.5mM mM [U,G,C,A] 100% 15N, 100% 13C HIV-1 frameshift site RNA, 100% D2O' _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.solvent_system '100% D2O' # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id 'HIV-1 frameshift site RNA' 1 mM ? 1 'HIV-1 frameshift site RNA' 0.5 mM '[U,G,C,A] 100% 15N, 100% 13C' 2 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 50 _pdbx_nmr_exptl_sample_conditions.pH 6.8 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 303 _pdbx_nmr_exptl_sample_conditions.temperature_units K # 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' 1 2 1 '2D 1H-1H TOCSY' 1 3 1 '2D HMBC' 1 4 1 '2D 1H-13C HSQC' 1 5 1 '2D 1H-13C HSQC' # _pdbx_nmr_refine.entry_id 2JUK _pdbx_nmr_refine.method 'molecular dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Case, D.A. et al.' refinement Amber ? 1 'Brunger, A.T. et al.' 'structure solution' CNS ? 2 'Koradi, R. et al.' 'structure visualization' MOLMOL ? 3 'Goddard, T.D. et al.' 'chemical shift assignment' Sparky ? 4 'Schwieters, C.D. et al.' 'structure solution' 'X-PLOR NIH' ? 5 'Bruker Biospin' collection XwinNMR ? 6 'Delaglio, F. et al.' collection NMRPipe ? 7 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 G0B C1 C N R 111 G0B O18 O N N 112 G0B C2 C N S 113 G0B N8 N N N 114 G0B C3 C N S 115 G0B O16 O N N 116 G0B C4 C N R 117 G0B O17 O N N 118 G0B C5 C N S 119 G0B O7 O N N 120 G0B C6 C N N 121 G0B C19 C N R 122 G0B N25 N N N 123 G0B C24 C N S 124 G0B C23 C N R 125 G0B O34 O N N 126 G0B C22 C N S 127 G0B C21 C N S 128 G0B N29 N N N 129 G0B C20 C N N 130 G0B C35 C N S 131 G0B C36 C N S 132 G0B C37 C N S 133 G0B C38 C N R 134 G0B O40 O N N 135 G0B C39 C N N 136 G0B C47 C N R 137 G0B C46 C N S 138 G0B C45 C N S 139 G0B C44 C N R 140 G0B O43 O N N 141 G0B C48 C N S 142 G0B O50 O N N 143 G0B C49 C N N 144 G0B N12 N N N 145 G0B O41 O N N 146 G0B O59 O N N 147 G0B O60 O N N 148 G0B O42 O N N 149 G0B O33 O N N 150 G0B N55 N N N 151 G0B N51 N N N 152 G0B C9 C N N 153 G0B N10 N N N 154 G0B N11 N N N 155 G0B C13 C N N 156 G0B N14 N N N 157 G0B N15 N N N 158 G0B C26 C N N 159 G0B N27 N N N 160 G0B N28 N N N 161 G0B C30 C N N 162 G0B N31 N N N 163 G0B N32 N N N 164 G0B C52 C N N 165 G0B N53 N N N 166 G0B N54 N N N 167 G0B C56 C N N 168 G0B N57 N N N 169 G0B N58 N N N 170 G0B HN58 H N N 171 G0B HN5A H N N 172 G0B HN55 H N N 173 G0B H49 H N N 174 G0B H49A H N N 175 G0B H48 H N N 176 G0B H44 H N N 177 G0B H37 H N N 178 G0B H36 H N N 179 G0B HO41 H N N 180 G0B H35 H N N 181 G0B H38 H N N 182 G0B H39 H N N 183 G0B H39A H N N 184 G0B HO42 H N N 185 G0B H23 H N N 186 G0B H24 H N N 187 G0B HO33 H N N 188 G0B HN25 H N N 189 G0B HN28 H N N 190 G0B HN2A H N N 191 G0B H20 H N N 192 G0B H20A H N N 193 G0B H21 H N N 194 G0B HN29 H N N 195 G0B HN32 H N N 196 G0B HN3A H N N 197 G0B H1 H N N 198 G0B H5 H N N 199 G0B H6 H N N 200 G0B H6A H N N 201 G0B HN12 H N N 202 G0B HN15 H N N 203 G0B HN1A H N N 204 G0B H4 H N N 205 G0B HO17 H N N 206 G0B H3 H N N 207 G0B HO16 H N N 208 G0B H2 H N N 209 G0B HN8 H N N 210 G0B HN11 H N N 211 G0B HN1B H N N 212 G0B H45 H N N 213 G0B HN51 H N N 214 G0B HN54 H N N 215 G0B HN5B H N N 216 G0B H46 H N N 217 G0B HO59 H N N 218 G0B H47 H N N 219 G0B HO60 H N N 220 G0B H22 H N N 221 G0B H19 H N N 222 G0B HN10 H N N 223 G0B HN14 H N N 224 G0B HN27 H N N 225 G0B HN31 H N N 226 G0B HN53 H N N 227 G0B HN57 H N N 228 G0B HN3B H N N 229 G0B HN2B H N N 230 G0B HN5C H N N 231 G0B HN1C H N N 232 G0B HN5D H N N 233 G0B HN1D H N N 234 U OP3 O N N 235 U P P N N 236 U OP1 O N N 237 U OP2 O N N 238 U "O5'" O N N 239 U "C5'" C N N 240 U "C4'" C N R 241 U "O4'" O N N 242 U "C3'" C N S 243 U "O3'" O N N 244 U "C2'" C N R 245 U "O2'" O N N 246 U "C1'" C N R 247 U N1 N N N 248 U C2 C N N 249 U O2 O N N 250 U N3 N N N 251 U C4 C N N 252 U O4 O N N 253 U C5 C N N 254 U C6 C N N 255 U HOP3 H N N 256 U HOP2 H N N 257 U "H5'" H N N 258 U "H5''" H N N 259 U "H4'" H N N 260 U "H3'" H N N 261 U "HO3'" H N N 262 U "H2'" H N N 263 U "HO2'" H N N 264 U "H1'" H N N 265 U H3 H N N 266 U H5 H N N 267 U H6 H N N 268 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 G0B O18 C1 sing N N 116 G0B O7 C1 sing N N 117 G0B C2 C1 sing N N 118 G0B C1 H1 sing N N 119 G0B O18 C22 sing N N 120 G0B H2 C2 sing N N 121 G0B C2 N8 sing N N 122 G0B C2 C3 sing N N 123 G0B C9 N8 sing N N 124 G0B N8 HN8 sing N N 125 G0B O16 C3 sing N N 126 G0B C4 C3 sing N N 127 G0B C3 H3 sing N N 128 G0B O16 HO16 sing N N 129 G0B H4 C4 sing N N 130 G0B C4 C5 sing N N 131 G0B C4 O17 sing N N 132 G0B HO17 O17 sing N N 133 G0B O7 C5 sing N N 134 G0B C6 C5 sing N N 135 G0B C5 H5 sing N N 136 G0B H6 C6 sing N N 137 G0B C6 H6A sing N N 138 G0B C6 N12 sing N N 139 G0B N25 C19 sing N N 140 G0B C20 C19 sing N N 141 G0B C19 H19 sing N N 142 G0B C19 C24 sing N N 143 G0B HN25 N25 sing N N 144 G0B C26 N25 sing N N 145 G0B H24 C24 sing N N 146 G0B C24 O33 sing N N 147 G0B C24 C23 sing N N 148 G0B C22 C23 sing N N 149 G0B C23 H23 sing N N 150 G0B C23 O34 sing N N 151 G0B O34 C35 sing N N 152 G0B C21 C22 sing N N 153 G0B C22 H22 sing N N 154 G0B C20 C21 sing N N 155 G0B N29 C21 sing N N 156 G0B C21 H21 sing N N 157 G0B C30 N29 sing N N 158 G0B HN29 N29 sing N N 159 G0B H20A C20 sing N N 160 G0B H20 C20 sing N N 161 G0B C35 H35 sing N N 162 G0B C35 O40 sing N N 163 G0B C35 C36 sing N N 164 G0B O41 C36 sing N N 165 G0B C36 H36 sing N N 166 G0B C36 C37 sing N N 167 G0B H37 C37 sing N N 168 G0B C37 C38 sing N N 169 G0B C37 O43 sing N N 170 G0B O40 C38 sing N N 171 G0B C38 C39 sing N N 172 G0B C38 H38 sing N N 173 G0B O42 C39 sing N N 174 G0B C39 H39A sing N N 175 G0B C39 H39 sing N N 176 G0B C48 C47 sing N N 177 G0B O60 C47 sing N N 178 G0B C46 C47 sing N N 179 G0B C47 H47 sing N N 180 G0B H46 C46 sing N N 181 G0B C45 C46 sing N N 182 G0B C46 O59 sing N N 183 G0B C44 C45 sing N N 184 G0B N51 C45 sing N N 185 G0B C45 H45 sing N N 186 G0B H44 C44 sing N N 187 G0B C44 O43 sing N N 188 G0B C44 O50 sing N N 189 G0B H48 C48 sing N N 190 G0B C48 O50 sing N N 191 G0B C48 C49 sing N N 192 G0B N55 C49 sing N N 193 G0B H49 C49 sing N N 194 G0B C49 H49A sing N N 195 G0B HN12 N12 sing N N 196 G0B N12 C13 sing N N 197 G0B HO41 O41 sing N N 198 G0B O59 HO59 sing N N 199 G0B O60 HO60 sing N N 200 G0B HO42 O42 sing N N 201 G0B O33 HO33 sing N N 202 G0B C56 N55 sing N N 203 G0B HN55 N55 sing N N 204 G0B HN51 N51 sing N N 205 G0B N51 C52 sing N N 206 G0B N11 C9 doub N N 207 G0B C9 N10 sing N N 208 G0B HN1C N10 sing N N 209 G0B N10 HN10 sing N N 210 G0B HN11 N11 sing N N 211 G0B HN1B N11 sing N N 212 G0B C13 N14 doub N N 213 G0B C13 N15 sing N N 214 G0B HN14 N14 sing N N 215 G0B N14 HN1D sing N N 216 G0B HN15 N15 sing N N 217 G0B N15 HN1A sing N N 218 G0B N27 C26 doub N N 219 G0B C26 N28 sing N N 220 G0B HN27 N27 sing N N 221 G0B HN2B N27 sing N N 222 G0B HN28 N28 sing N N 223 G0B N28 HN2A sing N N 224 G0B N31 C30 doub N N 225 G0B C30 N32 sing N N 226 G0B HN3B N31 sing N N 227 G0B HN31 N31 sing N N 228 G0B HN32 N32 sing N N 229 G0B N32 HN3A sing N N 230 G0B N54 C52 doub N N 231 G0B C52 N53 sing N N 232 G0B N53 HN5D sing N N 233 G0B N53 HN53 sing N N 234 G0B HN5B N54 sing N N 235 G0B N54 HN54 sing N N 236 G0B N57 C56 doub N N 237 G0B C56 N58 sing N N 238 G0B HN57 N57 sing N N 239 G0B HN5C N57 sing N N 240 G0B HN5A N58 sing N N 241 G0B N58 HN58 sing N N 242 U OP3 P sing N N 243 U OP3 HOP3 sing N N 244 U P OP1 doub N N 245 U P OP2 sing N N 246 U P "O5'" sing N N 247 U OP2 HOP2 sing N N 248 U "O5'" "C5'" sing N N 249 U "C5'" "C4'" sing N N 250 U "C5'" "H5'" sing N N 251 U "C5'" "H5''" sing N N 252 U "C4'" "O4'" sing N N 253 U "C4'" "C3'" sing N N 254 U "C4'" "H4'" sing N N 255 U "O4'" "C1'" sing N N 256 U "C3'" "O3'" sing N N 257 U "C3'" "C2'" sing N N 258 U "C3'" "H3'" sing N N 259 U "O3'" "HO3'" sing N N 260 U "C2'" "O2'" sing N N 261 U "C2'" "C1'" sing N N 262 U "C2'" "H2'" sing N N 263 U "O2'" "HO2'" sing N N 264 U "C1'" N1 sing N N 265 U "C1'" "H1'" sing N N 266 U N1 C2 sing N N 267 U N1 C6 sing N N 268 U C2 O2 doub N N 269 U C2 N3 sing N N 270 U N3 C4 sing N N 271 U N3 H3 sing N N 272 U C4 O4 doub N N 273 U C4 C5 sing N N 274 U C5 C6 doub N N 275 U C5 H5 sing N N 276 U C6 H6 sing N N 277 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2JUK 'double helix' 2JUK 'a-form double helix' 2JUK 'hairpin loop' 2JUK '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 22 1_555 -0.072 -0.045 -0.634 -19.998 -7.300 -1.727 1 A_G1:C22_A A 1 ? A 22 ? 19 1 1 A G 2 1_555 A C 21 1_555 -0.441 -0.112 0.196 13.838 4.599 -1.363 2 A_G2:C21_A A 2 ? A 21 ? 19 1 1 A C 3 1_555 A G 20 1_555 0.143 -0.046 -1.006 33.293 -12.032 -1.639 3 A_C3:G20_A A 3 ? A 20 ? 19 1 1 A C 4 1_555 A G 19 1_555 0.295 -0.281 -1.189 20.782 -16.964 2.585 4 A_C4:G19_A A 4 ? A 19 ? 19 1 1 A U 5 1_555 A A 18 1_555 0.617 -0.232 -0.739 -41.610 -15.721 -13.033 5 A_U5:A18_A A 5 ? A 18 ? 20 1 1 A U 6 1_555 A A 17 1_555 -0.061 -0.018 0.324 -24.930 6.605 3.784 6 A_U6:A17_A A 6 ? A 17 ? 20 1 1 A C 7 1_555 A G 16 1_555 0.443 -0.160 -0.554 15.562 0.492 -2.718 7 A_C7:G16_A A 7 ? A 16 ? 19 1 1 A C 8 1_555 A G 15 1_555 0.069 -0.171 -1.129 26.207 -3.289 -5.053 8 A_C8:G15_A A 8 ? A 15 ? 19 1 1 A C 9 1_555 A G 14 1_555 -0.033 -0.250 -0.561 -2.682 20.353 -7.648 9 A_C9:G14_A A 9 ? A 14 ? 19 1 1 A A 10 1_555 A A 13 1_555 5.775 -4.399 1.537 17.366 24.643 7.497 10 A_A10:A13_A A 10 ? A 13 ? ? ? # 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 22 1_555 A G 2 1_555 A C 21 1_555 0.004 -0.925 2.641 -5.584 1.326 21.758 -2.762 -1.654 2.501 3.436 14.471 22.494 1 AA_G1G2:C21C22_AA A 1 ? A 22 ? A 2 ? A 21 ? 1 A G 2 1_555 A C 21 1_555 A C 3 1_555 A G 20 1_555 0.208 -1.253 3.036 6.669 7.354 28.486 -3.746 0.811 2.619 14.403 -13.061 30.132 2 AA_G2C3:G20C21_AA A 2 ? A 21 ? A 3 ? A 20 ? 1 A C 3 1_555 A G 20 1_555 A C 4 1_555 A G 19 1_555 0.631 -1.742 3.871 2.446 14.043 32.132 -5.179 -0.648 2.919 23.954 -4.172 35.076 3 AA_C3C4:G19G20_AA A 3 ? A 20 ? A 4 ? A 19 ? 1 A C 4 1_555 A G 19 1_555 A U 5 1_555 A A 18 1_555 -0.374 -2.382 5.230 1.924 32.499 32.994 -6.797 0.700 2.149 45.720 -2.707 46.031 4 AA_C4U5:A18G19_AA A 4 ? A 19 ? A 5 ? A 18 ? 1 A U 5 1_555 A A 18 1_555 A U 6 1_555 A A 17 1_555 0.533 -0.948 3.236 -8.497 4.255 25.826 -2.981 -3.090 2.737 9.136 18.242 27.491 5 AA_U5U6:A17A18_AA A 5 ? A 18 ? A 6 ? A 17 ? 1 A U 6 1_555 A A 17 1_555 A C 7 1_555 A G 16 1_555 -0.238 -1.117 2.565 4.701 -1.531 25.104 -2.180 1.589 2.541 -3.479 -10.682 25.579 6 AA_U6C7:G16A17_AA A 6 ? A 17 ? A 7 ? A 16 ? 1 A C 7 1_555 A G 16 1_555 A C 8 1_555 A G 15 1_555 -0.065 -1.481 3.361 1.496 9.421 25.085 -5.501 0.507 2.633 20.757 -3.297 26.811 7 AA_C7C8:G15G16_AA A 7 ? A 16 ? A 8 ? A 15 ? 1 A C 8 1_555 A G 15 1_555 A C 9 1_555 A G 14 1_555 -1.542 -1.847 4.566 -7.566 34.350 32.819 -5.690 1.154 2.133 47.160 10.387 47.750 8 AA_C8C9:G14G15_AA A 8 ? A 15 ? A 9 ? A 14 ? 1 A C 9 1_555 A G 14 1_555 A A 10 1_555 A A 13 1_555 -0.173 -0.441 2.743 -7.350 20.626 57.012 -1.261 -0.123 2.471 20.784 7.406 60.742 9 AA_C9A10:A13G14_AA A 9 ? A 14 ? A 10 ? A 13 ? # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 750 Bruker DMX 1 'Bruker DMX' 600 Bruker DMX 2 'Bruker DMX' 900 Varian INOVA 3 'Varian INOVA' 800 Varian INOVA 4 'Varian INOVA' # _atom_sites.entry_id 2JUK _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_