data_1S2F # _entry.id 1S2F # _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 1S2F pdb_00001s2f 10.2210/pdb1s2f/pdb RCSB RCSB021281 ? ? WWPDB D_1000021281 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1S2F _pdbx_database_status.recvd_initial_deposition_date 2004-01-08 _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 'Cabello-Villegas, J.' 1 'Giles, K.E.' 2 'Soto, A.M.' 3 'Yu, P.' 4 'Beemon, K.L.' 5 'Wang, Y.X.' 6 # _citation.id primary _citation.title ;Solution structure of the pseudo-5' splice site of a retroviral splicing suppressor. ; _citation.journal_abbrev Rna _citation.journal_volume 10 _citation.page_first 1388 _citation.page_last 1398 _citation.year 2004 _citation.journal_id_ASTM RNARFU _citation.country UK _citation.journal_id_ISSN 1355-8382 _citation.journal_id_CSD 2122 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15317975 _citation.pdbx_database_id_DOI 10.1261/rna.7020804 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Cabello-Villegas, J.' 1 ? primary 'Giles, K.E.' 2 ? primary 'Soto, A.M.' 3 ? primary 'Yu, P.' 4 ? primary 'Mougin, A.' 5 ? primary 'Beemon, K.L.' 6 ? primary 'Wang, Y.X.' 7 ? # _cell.entry_id 1S2F _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 1S2F _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-R(*GP*GP*GP*GP*AP*GP*UP*GP*GP*UP*UP*UP*GP*UP*AP*UP*CP*CP*UP*UP*CP*CP*C)-3'" _entity.formula_weight 7350.335 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ;Pseudo 5'-splice site ; _entity.details ? # _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 GGGGAGUGGUUUGUAUCCUUCCC _entity_poly.pdbx_seq_one_letter_code_can GGGGAGUGGUUUGUAUCCUUCCC _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 G n 1 3 G n 1 4 G n 1 5 A n 1 6 G n 1 7 U n 1 8 G n 1 9 G n 1 10 U n 1 11 U n 1 12 U n 1 13 G n 1 14 U n 1 15 A n 1 16 U n 1 17 C n 1 18 C n 1 19 U n 1 20 U n 1 21 C n 1 22 C n 1 23 C n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'In vitro transcription' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1S2F _struct_ref.pdbx_db_accession 1S2F _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1S2F _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 23 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1S2F _struct_ref_seq.db_align_beg 907 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 929 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 907 _struct_ref_seq.pdbx_auth_seq_align_end 929 # 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 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 1 1 3D_13C-separated_NOESY 3 1 1 HNN-COSY 4 1 1 DQF-COSY # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH 6.5 _pdbx_nmr_exptl_sample_conditions.ionic_strength '25 mM NaCl, 10 mM NaPi' _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents 'RNA Residues 907-929 from NRS (NRS23)' _pdbx_nmr_sample_details.solvent_system '10 mM Sodium Phosphate, 25 mM NaCl, pH 6.5' # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.field_strength 1 ? Varian INOVA 500 2 ? Varian INOVA 600 3 ? Varian INOVA 800 4 ? Bruker DRX 500 # _pdbx_nmr_refine.entry_id 1S2F _pdbx_nmr_refine.method 'Simulated annealing. Torsion angle dynamics in refinement.' _pdbx_nmr_refine.details ;100 structurews were calculated, the minimized average from the 15 lowest energy structures is presented. Constraints used: 423 distance, 63 torsion angle, 117 orientation (RDC). The DELPIC database was employed in the refinement as follows: torsion angle database active for all residues, base-base positional database active for residues 907-912, 914-916, and 921-929. DELPHIC database reference: Clore, G.M. Kuszewski, J. J. Am. Chem. Soc. 125: 1518-1525 ; _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1S2F _pdbx_nmr_details.text 'Exchangeable proton spectra collected at 15 Celsius' # _pdbx_nmr_ensemble.entry_id 1S2F _pdbx_nmr_ensemble.conformers_calculated_total_number ? _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? # _pdbx_nmr_representative.entry_id 1S2F _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'minimized average structure' # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal Xplor-NIH xplor-nih-2.0.6 refinement 'C.D. Schwieters, J.J. Kuszewski,N. Tjandra, and G.M. Clore' 1 NMRPipe 4.1 'data analysis' 'F. Delaglio, S. Grzesiek, G. Vuister, G. Zhu, J. Pfeifer, and A. Bax' 2 VNMR 6.1C collection 'varian inc.' 3 NMRView 5.0.4 'data analysis' 'Johnson, B.A.' 4 # _exptl.entry_id 1S2F _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? _exptl_crystal.density_Matthews ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _struct.entry_id 1S2F _struct.title ;Average solution structure of a pseudo-5'-splice site from the negative regulator of splicing of Rous Sarcoma virus ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 1S2F _struct_keywords.pdbx_keywords RNA _struct_keywords.text ;NRS, U1 snRNP binding site, 5' splice site, 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 # 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 23 N3 ? ? A G 907 A C 929 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 23 O2 ? ? A G 907 A C 929 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 23 N4 ? ? A G 907 A C 929 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 22 N3 ? ? A G 908 A C 928 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 22 O2 ? ? A G 908 A C 928 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 22 N4 ? ? A G 908 A C 928 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 21 N3 ? ? A G 909 A C 927 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 A C 21 O2 ? ? A G 909 A C 927 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 A C 21 N4 ? ? A G 909 A C 927 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N1 ? ? ? 1_555 A U 20 O2 ? ? A G 910 A U 926 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A U 20 N3 ? ? A G 910 A U 926 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 19 N3 ? ? A A 911 A U 925 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 19 O4 ? ? A A 911 A U 925 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 N1 ? ? ? 1_555 A C 18 N3 ? ? A G 912 A C 924 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 6 N2 ? ? ? 1_555 A C 18 O2 ? ? A G 912 A C 924 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 6 O6 ? ? ? 1_555 A C 18 N4 ? ? A G 912 A C 924 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 8 N1 ? ? ? 1_555 A C 17 N3 ? ? A G 914 A C 923 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 8 N2 ? ? ? 1_555 A C 17 O2 ? ? A G 914 A C 923 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 8 O6 ? ? ? 1_555 A C 17 N4 ? ? A G 914 A C 923 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 9 N1 ? ? ? 1_555 A U 16 O2 ? ? A G 915 A U 922 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog21 hydrog ? ? A G 9 O6 ? ? ? 1_555 A U 16 N3 ? ? A G 915 A U 922 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog22 hydrog ? ? A U 10 N3 ? ? ? 1_555 A A 15 N1 ? ? A U 916 A A 921 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A U 10 O4 ? ? ? 1_555 A A 15 N6 ? ? A U 916 A A 921 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A U 11 N3 ? ? ? 1_555 A A 15 N1 ? ? A U 917 A A 921 1_555 ? ? ? ? ? ? 'U-A PAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 1S2F _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 1S2F _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 G 1 907 907 G G A . n A 1 2 G 2 908 908 G G A . n A 1 3 G 3 909 909 G G A . n A 1 4 G 4 910 910 G G A . n A 1 5 A 5 911 911 A A A . n A 1 6 G 6 912 912 G G A . n A 1 7 U 7 913 913 U U A . n A 1 8 G 8 914 914 G G A . n A 1 9 G 9 915 915 G G A . n A 1 10 U 10 916 916 U U A . n A 1 11 U 11 917 917 U U A . n A 1 12 U 12 918 918 U U A . n A 1 13 G 13 919 919 G G A . n A 1 14 U 14 920 920 U U A . n A 1 15 A 15 921 921 A A A . n A 1 16 U 16 922 922 U U A . n A 1 17 C 17 923 923 C C A . n A 1 18 C 18 924 924 C C A . n A 1 19 U 19 925 925 U U A . n A 1 20 U 20 926 926 U U A . n A 1 21 C 21 927 927 C C A . n A 1 22 C 22 928 928 C C A . n A 1 23 C 23 929 929 C C A . n # _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 2004-08-31 2 'Structure model' 1 1 2008-04-29 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 # _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_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list # 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' # 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 1 "O2'" A U 917 ? ? "H5'" A U 918 ? ? 1.48 2 1 OP1 A U 920 ? ? "H5'" A A 921 ? ? 1.59 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 N7 A G 919 ? ? C8 A G 919 ? ? 1.265 1.305 -0.040 0.006 N 2 1 C8 A G 919 ? ? N9 A G 919 ? ? 1.320 1.374 -0.054 0.007 N # 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 N7 A G 907 ? ? C8 A G 907 ? ? N9 A G 907 ? ? 117.58 113.10 4.48 0.50 N 2 1 C8 A G 907 ? ? N9 A G 907 ? ? C4 A G 907 ? ? 103.76 106.40 -2.64 0.40 N 3 1 N7 A G 908 ? ? C8 A G 908 ? ? N9 A G 908 ? ? 117.60 113.10 4.50 0.50 N 4 1 C8 A G 908 ? ? N9 A G 908 ? ? C4 A G 908 ? ? 103.74 106.40 -2.66 0.40 N 5 1 N7 A G 909 ? ? C8 A G 909 ? ? N9 A G 909 ? ? 117.60 113.10 4.50 0.50 N 6 1 C8 A G 909 ? ? N9 A G 909 ? ? C4 A G 909 ? ? 103.71 106.40 -2.69 0.40 N 7 1 N7 A G 910 ? ? C8 A G 910 ? ? N9 A G 910 ? ? 117.58 113.10 4.48 0.50 N 8 1 C8 A G 910 ? ? N9 A G 910 ? ? C4 A G 910 ? ? 103.73 106.40 -2.67 0.40 N 9 1 N7 A A 911 ? ? C8 A A 911 ? ? N9 A A 911 ? ? 117.49 113.80 3.69 0.50 N 10 1 "C3'" A G 912 ? ? "C2'" A G 912 ? ? "C1'" A G 912 ? ? 107.88 101.50 6.38 0.80 N 11 1 N7 A G 912 ? ? C8 A G 912 ? ? N9 A G 912 ? ? 117.71 113.10 4.61 0.50 N 12 1 C8 A G 912 ? ? N9 A G 912 ? ? C4 A G 912 ? ? 103.62 106.40 -2.78 0.40 N 13 1 N7 A G 914 ? ? C8 A G 914 ? ? N9 A G 914 ? ? 117.61 113.10 4.51 0.50 N 14 1 C8 A G 914 ? ? N9 A G 914 ? ? C4 A G 914 ? ? 103.71 106.40 -2.69 0.40 N 15 1 N7 A G 915 ? ? C8 A G 915 ? ? N9 A G 915 ? ? 117.62 113.10 4.52 0.50 N 16 1 C8 A G 915 ? ? N9 A G 915 ? ? C4 A G 915 ? ? 103.64 106.40 -2.76 0.40 N 17 1 "O4'" A U 917 ? ? "C4'" A U 917 ? ? "C3'" A U 917 ? ? 113.84 106.10 7.74 0.80 N 18 1 "C4'" A U 917 ? ? "C3'" A U 917 ? ? "C2'" A U 917 ? ? 94.56 102.60 -8.04 1.00 N 19 1 "C3'" A U 917 ? ? "C2'" A U 917 ? ? "C1'" A U 917 ? ? 111.43 101.50 9.93 0.80 N 20 1 "O4'" A U 917 ? ? "C1'" A U 917 ? ? N1 A U 917 ? ? 116.87 108.50 8.37 0.70 N 21 1 "C4'" A U 918 ? ? "C3'" A U 918 ? ? "O3'" A U 918 ? ? 95.39 109.40 -14.01 2.10 N 22 1 "C2'" A U 918 ? ? "C3'" A U 918 ? ? "O3'" A U 918 ? ? 130.14 113.70 16.44 1.60 N 23 1 "O4'" A U 918 ? ? "C1'" A U 918 ? ? N1 A U 918 ? ? 112.97 108.50 4.47 0.70 N 24 1 "C3'" A U 918 ? ? "O3'" A U 918 ? ? P A G 919 ? ? 127.73 119.70 8.03 1.20 Y 25 1 "C4'" A G 919 ? ? "C3'" A G 919 ? ? "O3'" A G 919 ? ? 126.43 113.00 13.43 2.00 N 26 1 "C2'" A G 919 ? ? "C3'" A G 919 ? ? "O3'" A G 919 ? ? 92.98 109.50 -16.52 2.20 N 27 1 N7 A G 919 ? ? C8 A G 919 ? ? N9 A G 919 ? ? 118.21 113.10 5.11 0.50 N 28 1 C8 A G 919 ? ? N9 A G 919 ? ? C4 A G 919 ? ? 102.81 106.40 -3.59 0.40 N 29 1 "C5'" A U 920 ? ? "C4'" A U 920 ? ? "C3'" A U 920 ? ? 105.97 115.20 -9.23 1.40 N 30 1 "C2'" A U 920 ? ? "C3'" A U 920 ? ? "O3'" A U 920 ? ? 123.59 113.70 9.89 1.60 N 31 1 "C3'" A U 920 ? ? "C2'" A U 920 ? ? "C1'" A U 920 ? ? 108.88 101.50 7.38 0.80 N 32 1 N7 A A 921 ? ? C8 A A 921 ? ? N9 A A 921 ? ? 117.64 113.80 3.84 0.50 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id U _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 917 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.100 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1S2F 'double helix' 1S2F 'a-form double helix' 1S2F 'hairpin loop' 1S2F 'bulge loop' 1S2F '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 23 1_555 0.520 -0.051 -0.055 -9.615 -11.654 -1.818 1 A_G907:C929_A A 907 ? A 929 ? 19 1 1 A G 2 1_555 A C 22 1_555 -0.152 -0.179 0.055 -7.302 -22.638 -2.101 2 A_G908:C928_A A 908 ? A 928 ? 19 1 1 A G 3 1_555 A C 21 1_555 -0.211 -0.139 0.183 -5.767 -6.042 -1.915 3 A_G909:C927_A A 909 ? A 927 ? 19 1 1 A G 4 1_555 A U 20 1_555 -1.787 -0.345 -0.086 -3.006 -15.599 -0.021 4 A_G910:U926_A A 910 ? A 926 ? 28 1 1 A A 5 1_555 A U 19 1_555 0.058 -0.127 -0.364 -5.113 -19.642 1.176 5 A_A911:U925_A A 911 ? A 925 ? 20 1 1 A G 6 1_555 A C 18 1_555 0.132 -0.091 -0.323 -0.818 -13.207 -2.793 6 A_G912:C924_A A 912 ? A 924 ? 19 1 1 A G 8 1_555 A C 17 1_555 -0.927 -0.385 -0.221 5.441 -15.821 2.858 7 A_G914:C923_A A 914 ? A 923 ? 19 1 1 A G 9 1_555 A U 16 1_555 -2.028 -0.452 -0.539 4.442 -8.902 2.394 8 A_G915:U922_A A 915 ? A 922 ? 28 1 1 A U 11 1_555 A A 15 1_555 0.630 -0.427 1.290 24.236 7.179 31.231 9 A_U917:A921_A A 917 ? A 921 ? ? 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 23 1_555 A G 2 1_555 A C 22 1_555 -0.006 -1.911 2.976 0.353 8.341 28.096 -5.273 0.075 2.324 16.719 -0.709 29.286 1 AA_G907G908:C928C929_AA A 907 ? A 929 ? A 908 ? A 928 ? 1 A G 2 1_555 A C 22 1_555 A G 3 1_555 A C 21 1_555 0.302 -1.908 3.169 -1.753 10.397 29.311 -5.289 -0.854 2.349 19.759 3.331 31.110 2 AA_G908G909:C927C928_AA A 908 ? A 928 ? A 909 ? A 927 ? 1 A G 3 1_555 A C 21 1_555 A G 4 1_555 A U 20 1_555 0.152 -2.299 2.886 -1.122 17.636 23.361 -7.063 -0.461 0.942 37.442 2.382 29.218 3 AA_G909G910:U926C927_AA A 909 ? A 927 ? A 910 ? A 926 ? 1 A G 4 1_555 A U 20 1_555 A A 5 1_555 A U 19 1_555 -0.068 -1.432 3.271 -0.050 7.863 39.719 -2.917 0.093 2.947 11.437 0.072 40.459 4 AA_G910A911:U925U926_AA A 910 ? A 926 ? A 911 ? A 925 ? 1 A A 5 1_555 A U 19 1_555 A G 6 1_555 A C 18 1_555 -0.296 -1.451 2.958 0.531 13.055 30.320 -4.374 0.595 2.161 23.629 -0.962 32.954 5 AA_A911G912:C924U925_AA A 911 ? A 925 ? A 912 ? A 924 ? 1 A G 6 1_555 A C 18 1_555 A G 8 1_555 A C 17 1_555 -2.478 -1.522 3.771 4.025 10.193 43.183 -3.017 3.670 3.120 13.590 -5.366 44.487 6 AA_G912G914:C923C924_AA A 912 ? A 924 ? A 914 ? A 923 ? 1 A G 8 1_555 A C 17 1_555 A G 9 1_555 A U 16 1_555 -0.363 -1.918 3.305 -3.826 6.387 25.129 -5.873 -0.180 2.765 14.284 8.557 26.192 7 AA_G914G915:U922C923_AA A 914 ? A 923 ? A 915 ? A 922 ? 1 A G 9 1_555 A U 16 1_555 A U 11 1_555 A A 15 1_555 -0.212 -0.979 3.970 1.638 17.828 53.911 -2.207 0.331 3.505 19.082 -1.754 56.594 8 AA_G915U917:A921U922_AA A 915 ? A 922 ? A 917 ? A 921 ? #