data_2F4X # _entry.id 2F4X # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.356 _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 2F4X pdb_00002f4x 10.2210/pdb2f4x/pdb RCSB RCSB035457 ? ? WWPDB D_1000035457 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2F4X _pdbx_database_status.recvd_initial_deposition_date 2005-11-24 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _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 'Kieken, F.' 1 'Paquet, F.' 2 'Brule, F.' 3 'Paoletti, J.' 4 'Lancelot, G.' 5 # _citation.id primary _citation.title 'A new NMR solution structure of the SL1 HIV-1Lai loop-loop dimer' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 34 _citation.page_first 343 _citation.page_last 352 _citation.year 2006 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16410614 _citation.pdbx_database_id_DOI 10.1093/nar/gkj427 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kieken, F.' 1 ? primary 'Paquet, F.' 2 ? primary 'Brule, F.' 3 ? primary 'Paoletti, J.' 4 ? primary 'Lancelot, G.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description "5'-R(P*GP*GP*UP*UP*GP*CP*UP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP*CP*AP*AP*C)-3'" _entity.formula_weight 7762.693 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details 'HIV-1 Lai packaging signal' # _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 GGUUGCUGAAGCGCGCACGGCAAC _entity_poly.pdbx_seq_one_letter_code_can GGUUGCUGAAGCGCGCACGGCAAC _entity_poly.pdbx_strand_id A,B _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 U n 1 4 U n 1 5 G n 1 6 C n 1 7 U n 1 8 G n 1 9 A n 1 10 A n 1 11 G n 1 12 C n 1 13 G n 1 14 C n 1 15 G n 1 16 C n 1 17 A n 1 18 C n 1 19 G n 1 20 G n 1 21 C n 1 22 A n 1 23 A n 1 24 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 'RNA was prepared by in vitro transcription with T7 RNA polymerase' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2F4X _struct_ref.pdbx_db_accession 2F4X _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 2F4X A 1 ? 24 ? 2F4X 1 ? 24 ? 1 24 2 1 2F4X B 1 ? 24 ? 2F4X 25 ? 48 ? 25 48 # 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.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 '2D NOESY' 1 2 1 '2D TOCSY' 1 3 1 'DQF COSY' 1 4 2 '2D NOESY' 2 5 2 '2D TOCSY' 2 6 2 'DQF COSY' 2 7 2 PFG 2 8 1 HSQC 3 9 1 HCN 3 10 1 HMBC 3 11 1 'HCCH TOCSY' 3 12 1 '13C, 15N half filter' 3 # loop_ _pdbx_nmr_exptl_sample_conditions.conditions_id _pdbx_nmr_exptl_sample_conditions.temperature _pdbx_nmr_exptl_sample_conditions.pressure _pdbx_nmr_exptl_sample_conditions.pH _pdbx_nmr_exptl_sample_conditions.ionic_strength _pdbx_nmr_exptl_sample_conditions.pressure_units _pdbx_nmr_exptl_sample_conditions.temperature_units 1 283 atmospheric 6.0 none atm K 2 288 atmospheric 6.0 none atm K # loop_ _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solvent_system 1 'unlabeled sample, 2 mM, 90% H2O, 10% D2O' '90% H2O/10% D2O' 2 'unlabeled sample, 2 mM, 100% D2O' '100% D2O' 3 '15N,13C labeled sample, 0.6 mM, 90% H2O, 10% D2O' '90% H2O/10% D2O' 4 '15N,13C labeled sample, 0.6 mM, 100% D2O' '100% D2O' 5 'mixture of unlabeled sample and a 15N,13C labeled sample, 0.6 mM, 90% H2O, 10% D2O' '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.type 1 UNITY Varian 600 ? 2 UNITY Varian 800 ? # _pdbx_nmr_refine.entry_id 2F4X _pdbx_nmr_refine.method 'torsion angle dynamics and simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 2F4X _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 18 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations,structures with the lowest energy' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 2F4X _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal processing VNMR 6.1B Varian 1 processing NMRPipe 5.0.3 Delaglio 2 refinement CNS 1.1 Brunger 3 # _exptl.entry_id 2F4X _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? # _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.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _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 2F4X _struct.title 'NMR Solution of HIV-1 Lai Kissing Complex' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2F4X _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'SL1, RNA, kissing complex, hairpin' # 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 1 ? # _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 2 N1 ? ? ? 1_555 A C 24 N3 ? ? A G 2 A C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 24 O2 ? ? A G 2 A C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 24 N4 ? ? A G 2 A C 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 3 N3 ? ? ? 1_555 A A 23 N1 ? ? A U 3 A A 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A U 3 O4 ? ? ? 1_555 A A 23 N6 ? ? A U 3 A A 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A U 4 N3 ? ? ? 1_555 A A 22 N1 ? ? A U 4 A A 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 4 O4 ? ? ? 1_555 A A 22 N6 ? ? A U 4 A A 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 21 N3 ? ? A G 5 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 21 O2 ? ? A G 5 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 21 N4 ? ? A G 5 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 6 N3 ? ? ? 1_555 A G 20 N1 ? ? A C 6 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 6 N4 ? ? ? 1_555 A G 20 O6 ? ? A C 6 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 6 O2 ? ? ? 1_555 A G 20 N2 ? ? A C 6 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 7 N3 ? ? ? 1_555 A G 19 O6 ? ? A U 7 A G 19 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog15 hydrog ? ? A U 7 O2 ? ? ? 1_555 A G 19 N1 ? ? A U 7 A G 19 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog16 hydrog ? ? A G 8 N1 ? ? ? 1_555 A C 18 N3 ? ? A G 8 A C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 8 N2 ? ? ? 1_555 A C 18 O2 ? ? A G 8 A C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 8 O6 ? ? ? 1_555 A C 18 N4 ? ? A G 8 A C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 16 N3 ? ? A G 11 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 16 O2 ? ? A G 11 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 16 N4 ? ? A G 11 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 12 N3 ? ? ? 1_555 B G 15 N1 ? ? A C 12 B G 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 12 N4 ? ? ? 1_555 B G 15 O6 ? ? A C 12 B G 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 12 O2 ? ? ? 1_555 B G 15 N2 ? ? A C 12 B G 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 13 N1 ? ? ? 1_555 B C 14 N3 ? ? A G 13 B C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 13 N2 ? ? ? 1_555 B C 14 O2 ? ? A G 13 B C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 13 O6 ? ? ? 1_555 B C 14 N4 ? ? A G 13 B C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 14 N3 ? ? ? 1_555 B G 13 N1 ? ? A C 14 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 14 N4 ? ? ? 1_555 B G 13 O6 ? ? A C 14 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 14 O2 ? ? ? 1_555 B G 13 N2 ? ? A C 14 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 15 N1 ? ? ? 1_555 B C 12 N3 ? ? A G 15 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 15 N2 ? ? ? 1_555 B C 12 O2 ? ? A G 15 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 15 O6 ? ? ? 1_555 B C 12 N4 ? ? A G 15 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 16 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 16 B G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 16 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 16 B G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 16 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 16 B G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B G 2 N1 ? ? ? 1_555 B C 24 N3 ? ? B G 26 B C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B G 2 N2 ? ? ? 1_555 B C 24 O2 ? ? B G 26 B C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B G 2 O6 ? ? ? 1_555 B C 24 N4 ? ? B G 26 B C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B U 3 N3 ? ? ? 1_555 B A 23 N1 ? ? B U 27 B A 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? B U 3 O4 ? ? ? 1_555 B A 23 N6 ? ? B U 27 B A 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? B U 4 N3 ? ? ? 1_555 B A 22 N1 ? ? B U 28 B A 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? B U 4 O4 ? ? ? 1_555 B A 22 N6 ? ? B U 28 B A 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? B G 5 N1 ? ? ? 1_555 B C 21 N3 ? ? B G 29 B C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? B G 5 N2 ? ? ? 1_555 B C 21 O2 ? ? B G 29 B C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? B G 5 O6 ? ? ? 1_555 B C 21 N4 ? ? B G 29 B C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? B C 6 N3 ? ? ? 1_555 B G 20 N1 ? ? B C 30 B G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? B C 6 N4 ? ? ? 1_555 B G 20 O6 ? ? B C 30 B G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? B C 6 O2 ? ? ? 1_555 B G 20 N2 ? ? B C 30 B G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? B U 7 N3 ? ? ? 1_555 B G 19 O6 ? ? B U 31 B G 43 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog51 hydrog ? ? B U 7 O2 ? ? ? 1_555 B G 19 N1 ? ? B U 31 B G 43 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog52 hydrog ? ? B G 8 N1 ? ? ? 1_555 B C 18 N3 ? ? B G 32 B C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? B G 8 N2 ? ? ? 1_555 B C 18 O2 ? ? B G 32 B C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? B G 8 O6 ? ? ? 1_555 B C 18 N4 ? ? B G 32 B C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 2F4X _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 2F4X _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 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 U 3 3 3 U U A . n A 1 4 U 4 4 4 U U A . n A 1 5 G 5 5 5 G G A . n A 1 6 C 6 6 6 C C A . n A 1 7 U 7 7 7 U U A . n A 1 8 G 8 8 8 G G A . n A 1 9 A 9 9 9 A A A . n A 1 10 A 10 10 10 A A A . n A 1 11 G 11 11 11 G G A . n A 1 12 C 12 12 12 C C A . n A 1 13 G 13 13 13 G G A . n A 1 14 C 14 14 14 C C A . n A 1 15 G 15 15 15 G G A . n A 1 16 C 16 16 16 C C A . n A 1 17 A 17 17 17 A A A . n A 1 18 C 18 18 18 C C 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 A 22 22 22 A A A . n A 1 23 A 23 23 23 A A A . n A 1 24 C 24 24 24 C C A . n B 1 1 G 1 25 25 G G B . n B 1 2 G 2 26 26 G G B . n B 1 3 U 3 27 27 U U B . n B 1 4 U 4 28 28 U U B . n B 1 5 G 5 29 29 G G B . n B 1 6 C 6 30 30 C C B . n B 1 7 U 7 31 31 U U B . n B 1 8 G 8 32 32 G G B . n B 1 9 A 9 33 33 A A B . n B 1 10 A 10 34 34 A A B . n B 1 11 G 11 35 35 G G B . n B 1 12 C 12 36 36 C C B . n B 1 13 G 13 37 37 G G B . n B 1 14 C 14 38 38 C C B . n B 1 15 G 15 39 39 G G B . n B 1 16 C 16 40 40 C C B . n B 1 17 A 17 41 41 A A B . n B 1 18 C 18 42 42 C C B . n B 1 19 G 19 43 43 G G B . n B 1 20 G 20 44 44 G G B . n B 1 21 C 21 45 45 C C B . n B 1 22 A 22 46 46 A A B . n B 1 23 A 23 47 47 A A B . n B 1 24 C 24 48 48 C C B . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2006-02-28 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-09 # _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' 'Database references' 4 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_struct_assembly 3 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' # 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 B U 31 ? ? H1 B G 43 ? ? 1.59 2 1 O2 A U 7 ? ? H1 A G 19 ? ? 1.59 3 2 O2 B U 31 ? ? H1 B G 43 ? ? 1.54 4 2 O2 A U 7 ? ? H1 A G 19 ? ? 1.54 5 3 O2 A U 7 ? ? H1 A G 19 ? ? 1.54 6 3 O2 B U 31 ? ? H1 B G 43 ? ? 1.54 7 4 O2 A U 7 ? ? H1 A G 19 ? ? 1.59 8 4 O2 B U 31 ? ? H1 B G 43 ? ? 1.59 9 9 O2 A U 7 ? ? H1 A G 19 ? ? 1.57 10 9 O2 B U 31 ? ? H1 B G 43 ? ? 1.57 11 13 O2 A U 7 ? ? H1 A G 19 ? ? 1.57 12 13 O2 B U 31 ? ? H1 B G 43 ? ? 1.57 13 18 O2 B U 31 ? ? H1 B G 43 ? ? 1.60 14 18 O2 A U 7 ? ? H1 A G 19 ? ? 1.60 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2F4X 'double helix' 2F4X 'a-form double helix' 2F4X '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 2 1_555 A C 24 1_555 -0.435 -0.279 -0.854 -16.446 -4.318 1.792 1 A_G2:C24_A A 2 ? A 24 ? 19 1 1 A U 3 1_555 A A 23 1_555 -0.386 -0.181 0.009 -0.474 -9.158 -5.032 2 A_U3:A23_A A 3 ? A 23 ? 20 1 1 A U 4 1_555 A A 22 1_555 -0.022 -0.226 -0.860 12.171 -13.268 11.567 3 A_U4:A22_A A 4 ? A 22 ? 20 1 1 A G 5 1_555 A C 21 1_555 -0.429 -0.280 -0.054 -0.644 -17.018 2.692 4 A_G5:C21_A A 5 ? A 21 ? 19 1 1 A C 6 1_555 A G 20 1_555 0.522 -0.276 0.254 -11.228 -14.214 1.183 5 A_C6:G20_A A 6 ? A 20 ? 19 1 1 A U 7 1_555 A G 19 1_555 3.080 -0.566 0.474 8.145 -5.617 12.526 6 A_U7:G19_A A 7 ? A 19 ? 28 ? 1 A G 8 1_555 A C 18 1_555 0.021 -0.314 0.049 6.864 -34.721 5.499 7 A_G8:C18_A A 8 ? A 18 ? 19 1 1 B G 11 1_555 A C 16 1_555 -0.808 -0.343 -0.308 -13.282 -10.289 1.905 8 B_G35:C16_A B 35 ? A 16 ? 19 1 1 B C 12 1_555 A G 15 1_555 -0.209 -0.188 0.011 17.630 -18.744 -0.697 9 B_C36:G15_A B 36 ? A 15 ? 19 1 1 B G 13 1_555 A C 14 1_555 -0.262 -0.220 0.249 -5.324 11.611 3.054 10 B_G37:C14_A B 37 ? A 14 ? 19 1 1 B C 14 1_555 A G 13 1_555 0.268 -0.220 0.245 5.650 11.820 3.148 11 B_C38:G13_A B 38 ? A 13 ? 19 1 1 B G 15 1_555 A C 12 1_555 0.233 -0.186 0.023 -17.294 -18.788 -0.840 12 B_G39:C12_A B 39 ? A 12 ? 19 1 1 B C 16 1_555 A G 11 1_555 0.808 -0.347 -0.320 13.340 -10.068 1.829 13 B_C40:G11_A B 40 ? A 11 ? 19 1 1 B C 18 1_555 B G 8 1_555 -0.024 -0.314 0.054 -6.887 -34.662 5.417 14 B_C42:G32_B B 42 ? B 32 ? 19 1 1 B G 19 1_555 B U 7 1_555 -3.073 -0.568 0.439 -8.207 -5.194 12.425 15 B_G43:U31_B B 43 ? B 31 ? 28 ? 1 B G 20 1_555 B C 6 1_555 -0.529 -0.272 0.249 11.183 -14.212 1.109 16 B_G44:C30_B B 44 ? B 30 ? 19 1 1 B C 21 1_555 B G 5 1_555 0.431 -0.275 -0.074 0.831 -16.984 2.911 17 B_C45:G29_B B 45 ? B 29 ? 19 1 1 B A 22 1_555 B U 4 1_555 0.059 -0.219 -0.868 -12.609 -12.536 11.568 18 B_A46:U28_B B 46 ? B 28 ? 20 1 1 B A 23 1_555 B U 3 1_555 0.386 -0.182 0.009 0.449 -9.236 -4.999 19 B_A47:U27_B B 47 ? B 27 ? 20 1 1 B C 24 1_555 B G 2 1_555 0.434 -0.273 -0.845 16.923 -4.279 1.651 20 B_C48:G26_B B 48 ? B 26 ? 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 G 2 1_555 A C 24 1_555 A U 3 1_555 A A 23 1_555 -1.259 -0.975 3.018 -3.914 -2.419 29.814 -1.402 1.654 3.221 -4.667 7.551 30.159 1 AA_G2U3:A23C24_AA A 2 ? A 24 ? A 3 ? A 23 ? 1 A U 3 1_555 A A 23 1_555 A U 4 1_555 A A 22 1_555 1.467 -0.845 3.183 4.636 5.635 33.450 -2.309 -1.776 3.172 9.648 -7.937 34.214 2 AA_U3U4:A22A23_AA A 3 ? A 23 ? A 4 ? A 22 ? 1 A U 4 1_555 A A 22 1_555 A G 5 1_555 A C 21 1_555 -0.955 -0.820 3.844 -2.355 17.024 29.811 -4.403 1.202 3.018 30.146 4.171 34.313 3 AA_U4G5:C21A22_AA A 4 ? A 22 ? A 5 ? A 21 ? 1 A G 5 1_555 A C 21 1_555 A C 6 1_555 A G 20 1_555 0.090 -0.229 3.851 -1.488 23.510 34.390 -3.257 -0.313 3.086 35.126 2.224 41.482 4 AA_G5C6:G20C21_AA A 5 ? A 21 ? A 6 ? A 20 ? 1 A C 6 1_555 A G 20 1_555 A U 7 1_555 A G 19 1_555 0.770 -0.453 2.970 -0.836 1.001 42.599 -0.714 -1.135 2.944 1.377 1.151 42.618 5 AA_C6U7:G19G20_AA A 6 ? A 20 ? A 7 ? A 19 ? 1 A U 7 1_555 A G 19 1_555 A G 8 1_555 A C 18 1_555 -1.081 -1.120 3.500 9.007 4.701 21.973 -4.131 5.373 2.572 11.570 -22.169 24.182 6 AA_U7G8:C18G19_AA A 7 ? A 19 ? A 8 ? A 18 ? 1 A G 8 1_555 A C 18 1_555 B G 11 1_555 A C 16 1_555 -0.765 -4.698 5.687 -1.389 40.805 64.162 -5.654 0.568 2.699 35.000 1.191 74.862 7 AB_G8G35:C16C18_AA A 8 ? A 18 ? B 35 ? A 16 ? 1 B G 11 1_555 A C 16 1_555 B C 12 1_555 A G 15 1_555 0.069 -0.794 2.717 1.803 -2.911 32.016 -0.994 0.146 2.776 -5.260 -3.257 32.193 8 BB_G35C36:G15C16_AA B 35 ? A 16 ? B 36 ? A 15 ? 1 B C 12 1_555 A G 15 1_555 B G 13 1_555 A C 14 1_555 -1.146 -0.594 4.250 -5.997 34.062 35.186 -4.047 0.796 2.836 45.152 7.950 48.951 9 BB_C36G37:C14G15_AA B 36 ? A 15 ? B 37 ? A 14 ? 1 B G 13 1_555 A C 14 1_555 B C 14 1_555 A G 13 1_555 0.009 -0.738 3.480 -0.024 20.908 25.737 -4.821 -0.020 2.266 39.641 0.045 33.047 10 BB_G37C38:G13C14_AA B 37 ? A 14 ? B 38 ? A 13 ? 1 B C 14 1_555 A G 13 1_555 B G 15 1_555 A C 12 1_555 1.124 -0.611 4.243 5.909 33.985 35.288 -4.047 -0.781 2.825 45.012 -7.826 48.960 11 BB_C38G39:C12G13_AA B 38 ? A 13 ? B 39 ? A 12 ? 1 B G 15 1_555 A C 12 1_555 B C 16 1_555 A G 11 1_555 -0.059 -0.795 2.725 -1.584 -2.937 31.968 -0.993 -0.132 2.785 -5.315 2.866 32.137 12 BB_G39C40:G11C12_AA B 39 ? A 12 ? B 40 ? A 11 ? 1 B C 16 1_555 A G 11 1_555 B C 18 1_555 B G 8 1_555 0.761 -4.711 5.677 1.257 40.958 64.189 -5.656 -0.571 2.674 35.101 -1.077 74.957 13 BB_C40C42:G32G11_BA B 40 ? A 11 ? B 42 ? B 32 ? 1 B C 18 1_555 B G 8 1_555 B G 19 1_555 B U 7 1_555 1.078 -1.122 3.502 -8.920 4.844 22.023 -4.171 -5.324 2.574 11.901 21.914 24.223 14 BB_C42G43:U31G32_BB B 42 ? B 32 ? B 43 ? B 31 ? 1 B G 19 1_555 B U 7 1_555 B G 20 1_555 B C 6 1_555 -0.780 -0.435 2.983 0.823 0.717 42.555 -0.665 1.150 2.961 0.988 -1.133 42.568 15 BB_G43G44:C30U31_BB B 43 ? B 31 ? B 44 ? B 30 ? 1 B G 20 1_555 B C 6 1_555 B C 21 1_555 B G 5 1_555 -0.090 -0.214 3.835 1.493 23.858 34.473 -3.230 0.310 3.068 35.472 -2.220 41.743 16 BB_G44C45:G29C30_BB B 44 ? B 30 ? B 45 ? B 29 ? 1 B C 21 1_555 B G 5 1_555 B A 22 1_555 B U 4 1_555 0.947 -0.818 3.857 2.012 17.252 29.881 -4.412 -1.244 3.011 30.438 -3.551 34.463 17 BB_C45A46:U28G29_BB B 45 ? B 29 ? B 46 ? B 28 ? 1 B A 22 1_555 B U 4 1_555 B A 23 1_555 B U 3 1_555 -1.496 -0.836 3.182 -4.555 5.163 33.321 -2.241 1.843 3.191 8.885 7.840 34.005 18 BB_A46A47:U27U28_BB B 46 ? B 28 ? B 47 ? B 27 ? 1 B A 23 1_555 B U 3 1_555 B C 24 1_555 B G 2 1_555 1.244 -0.970 3.002 3.912 -2.636 29.757 -1.353 -1.631 3.207 -5.093 -7.557 30.120 19 BB_A47C48:G26U27_BB B 47 ? B 27 ? B 48 ? B 26 ? #