data_1I9K # _entry.id 1I9K # _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 1I9K pdb_00001i9k 10.2210/pdb1i9k/pdb RCSB RCSB013075 ? ? WWPDB D_1000013075 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1I9K _pdbx_database_status.recvd_initial_deposition_date 2001-03-20 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _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 'Snoussi, K.' 1 'Nonin-Lecomte, S.' 2 'Lerou, J.L.' 3 # _citation.id primary _citation.title 'The RNA i-motif.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 309 _citation.page_first 139 _citation.page_last 153 _citation.year 2001 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 11491284 _citation.pdbx_database_id_DOI 10.1006/jmbi.2001.4618 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Snoussi, K.' 1 ? primary 'Nonin-Lecomte, S.' 2 ? primary 'Leroy, J.L.' 3 ? # _cell.entry_id 1I9K _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 1I9K _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(*UP*CP*CP*CP*CP*C)-3'" _entity.formula_weight 1787.117 _entity.pdbx_number_of_molecules 4 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code UCCCCC _entity_poly.pdbx_seq_one_letter_code_can UCCCCC _entity_poly.pdbx_strand_id A,B,C,D _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 U n 1 2 C n 1 3 C n 1 4 C n 1 5 C n 1 6 C n # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1I9K _struct_ref.pdbx_db_accession 1I9K _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 1I9K A 1 ? 6 ? 1I9K 1 ? 6 ? 1 6 2 1 1I9K B 1 ? 6 ? 1I9K 1 ? 6 ? 1 6 3 1 1I9K C 1 ? 6 ? 1I9K 1 ? 6 ? 1 6 4 1 1I9K D 1 ? 6 ? 1I9K 1 ? 6 ? 1 6 # 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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 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.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 1 1 DQF-COSY 3 1 1 TOCSY 4 1 1 '31P-1H HETERO-TOCSY' 5 1 1 '13C-1H HSQC' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 270 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.pH 4.3 _pdbx_nmr_exptl_sample_conditions.ionic_strength 'sodium counterion' _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '9.8 mM of unlabeled DNA' _pdbx_nmr_sample_details.solvent_system ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model INOVA _pdbx_nmr_spectrometer.field_strength 500 # _pdbx_nmr_refine.entry_id 1I9K _pdbx_nmr_refine.method 'NMR-based simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 1I9K _pdbx_nmr_ensemble.conformers_calculated_total_number 50 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations' _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 ? # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal X-PLOR 3.851 refinement 'Brunger, A.T.' 1 Felix 98 processing ? 2 VNMR 6.2 collection ? 3 MOLMOL 2.4 'data analysis' ? 4 Curves ? 'data analysis' ? 5 # _exptl.entry_id 1I9K _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 1I9K _struct.title 'THE RNA I-MOTIF' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1I9K _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'RNA, i-motif' # 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 ? C N N 1 ? D N N 1 ? # _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 U 1 N3 ? ? ? 1_555 C U 1 O4 ? ? A U 1 C U 1 1_555 ? ? ? ? ? ? TYPE_12_PAIR ? ? ? hydrog2 hydrog ? ? A U 1 O4 ? ? ? 1_555 C U 1 N3 ? ? A U 1 C U 1 1_555 ? ? ? ? ? ? TYPE_12_PAIR ? ? ? hydrog3 hydrog ? ? A C 2 N4 ? ? ? 1_555 C C 2 O2 ? ? A C 2 C C 2 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog4 hydrog ? ? A C 2 O2 ? ? ? 1_555 C C 2 N4 ? ? A C 2 C C 2 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog5 hydrog ? ? A C 3 N4 ? ? ? 1_555 C C 3 O2 ? ? A C 3 C C 3 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog6 hydrog ? ? A C 3 O2 ? ? ? 1_555 C C 3 N4 ? ? A C 3 C C 3 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog7 hydrog ? ? A C 4 N4 ? ? ? 1_555 C C 4 O2 ? ? A C 4 C C 4 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog8 hydrog ? ? A C 4 O2 ? ? ? 1_555 C C 4 N4 ? ? A C 4 C C 4 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog9 hydrog ? ? A C 5 N4 ? ? ? 1_555 C C 5 O2 ? ? A C 5 C C 5 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog10 hydrog ? ? A C 5 O2 ? ? ? 1_555 C C 5 N4 ? ? A C 5 C C 5 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog11 hydrog ? ? A C 6 N4 ? ? ? 1_555 C C 6 O2 ? ? A C 6 C C 6 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog12 hydrog ? ? A C 6 O2 ? ? ? 1_555 C C 6 N4 ? ? A C 6 C C 6 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog13 hydrog ? ? B U 1 N3 ? ? ? 1_555 D U 1 O4 ? ? B U 1 D U 1 1_555 ? ? ? ? ? ? TYPE_12_PAIR ? ? ? hydrog14 hydrog ? ? B U 1 O4 ? ? ? 1_555 D U 1 N3 ? ? B U 1 D U 1 1_555 ? ? ? ? ? ? TYPE_12_PAIR ? ? ? hydrog15 hydrog ? ? B C 2 N4 ? ? ? 1_555 D C 2 O2 ? ? B C 2 D C 2 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog16 hydrog ? ? B C 2 O2 ? ? ? 1_555 D C 2 N4 ? ? B C 2 D C 2 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog17 hydrog ? ? B C 3 N4 ? ? ? 1_555 D C 3 O2 ? ? B C 3 D C 3 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog18 hydrog ? ? B C 3 O2 ? ? ? 1_555 D C 3 N4 ? ? B C 3 D C 3 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog19 hydrog ? ? B C 4 N4 ? ? ? 1_555 D C 4 O2 ? ? B C 4 D C 4 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog20 hydrog ? ? B C 4 O2 ? ? ? 1_555 D C 4 N4 ? ? B C 4 D C 4 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog21 hydrog ? ? B C 5 N4 ? ? ? 1_555 D C 5 O2 ? ? B C 5 D C 5 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog22 hydrog ? ? B C 5 O2 ? ? ? 1_555 D C 5 N4 ? ? B C 5 D C 5 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog23 hydrog ? ? B C 6 N4 ? ? ? 1_555 D C 6 O2 ? ? B C 6 D C 6 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog24 hydrog ? ? B C 6 O2 ? ? ? 1_555 D C 6 N4 ? ? B C 6 D C 6 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 1I9K _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 1I9K _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 U 1 1 0 U U A . n A 1 2 C 2 2 0 C C A . n A 1 3 C 3 3 0 C C A . n A 1 4 C 4 4 0 C C A . n A 1 5 C 5 5 0 C C A . n A 1 6 C 6 6 0 C C A . n B 1 1 U 1 1 0 U U B . n B 1 2 C 2 2 0 C C B . n B 1 3 C 3 3 0 C C B . n B 1 4 C 4 4 0 C C B . n B 1 5 C 5 5 0 C C B . n B 1 6 C 6 6 0 C C B . n C 1 1 U 1 1 0 U U C . n C 1 2 C 2 2 0 C C C . n C 1 3 C 3 3 0 C C C . n C 1 4 C 4 4 0 C C C . n C 1 5 C 5 5 0 C C C . n C 1 6 C 6 6 0 C C C . n D 1 1 U 1 1 0 U U D . n D 1 2 C 2 2 0 C C D . n D 1 3 C 3 3 0 C C D . n D 1 4 C 4 4 0 C C D . n D 1 5 C 5 5 0 C C D . n D 1 6 C 6 6 0 C C D . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # _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 2001-05-30 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-02-23 # _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_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 X-PLOR refinement . ? 2 X-PLOR phasing . ? 3 # 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 C 3 ? ? "O2'" C C 5 ? ? 2.16 2 1 "O2'" A C 5 ? ? "O2'" D C 3 ? ? 2.16 # 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 "C3'" A U 1 ? ? "C2'" A U 1 ? ? "C1'" A U 1 ? ? 106.35 101.50 4.85 0.80 N 2 1 "C3'" B U 1 ? ? "C2'" B U 1 ? ? "C1'" B U 1 ? ? 106.38 101.50 4.88 0.80 N 3 1 "C3'" C U 1 ? ? "C2'" C U 1 ? ? "C1'" C U 1 ? ? 106.39 101.50 4.89 0.80 N 4 1 "C3'" D U 1 ? ? "C2'" D U 1 ? ? "C1'" D U 1 ? ? 106.37 101.50 4.87 0.80 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1I9K 'double helix' 1I9K 'parallel strands' 1I9K '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 U 1 1_555 C U 1 1_555 -1.143 0.857 -0.040 -1.192 58.450 -178.984 1 A_U1:U1_C A 1 ? C 1 ? 12 2 1 A C 2 1_555 C C 2 1_555 -2.338 -2.103 -0.082 24.501 15.913 -179.636 2 A_C2:C2_C A 2 ? C 2 ? 15 2 1 D C 6 1_555 B C 6 1_555 1.890 1.319 0.027 -7.716 -9.274 179.455 3 D_C6:C6_B D 6 ? B 6 ? 15 2 1 A C 3 1_555 C C 3 1_555 -2.298 -1.945 -0.099 -16.357 6.046 -179.152 4 A_C3:C3_C A 3 ? C 3 ? 15 2 1 D C 5 1_555 B C 5 1_555 -2.440 -2.184 -0.253 1.208 10.471 -179.975 5 D_C5:C5_B D 5 ? B 5 ? 15 2 1 A C 4 1_555 C C 4 1_555 2.499 2.203 0.061 5.226 0.556 179.845 6 A_C4:C4_C A 4 ? C 4 ? 15 2 1 D C 4 1_555 B C 4 1_555 -2.479 -2.178 0.025 -4.845 -1.980 -179.972 7 D_C4:C4_B D 4 ? B 4 ? 15 2 1 A C 5 1_555 C C 5 1_555 2.418 2.184 -0.006 -0.924 -13.029 179.975 8 A_C5:C5_C A 5 ? C 5 ? 15 2 1 D C 3 1_555 B C 3 1_555 -2.363 -2.045 -0.005 -16.015 5.454 -179.912 9 D_C3:C3_B D 3 ? B 3 ? 15 2 1 A C 6 1_555 C C 6 1_555 1.886 1.363 -0.007 -7.603 -8.231 179.958 10 A_C6:C6_C A 6 ? C 6 ? 15 2 1 D C 2 1_555 B C 2 1_555 2.266 1.947 -0.015 -22.749 -16.558 179.784 11 D_C2:C2_B D 2 ? B 2 ? 15 2 1 D U 1 1_555 B U 1 1_555 1.152 -0.924 -0.020 2.602 -57.170 179.430 12 D_U1:U1_B D 1 ? B 1 ? 12 2 # 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 U 1 1_555 C U 1 1_555 A C 2 1_555 C C 2 1_555 0.013 -0.030 2.260 0.278 -0.495 34.382 0.002 0.008 2.260 -0.837 -0.470 34.386 1 AA_U1C2:C2U1_CC A 1 ? C 1 ? A 2 ? C 2 ? 1 A C 2 1_555 C C 2 1_555 D C 6 1_555 B C 6 1_555 -2.041 -2.216 -0.136 -126.561 126.541 40.378 -1.034 1.094 -0.163 63.509 63.519 179.033 2 AD_C2C6:C6C2_BC A 2 ? C 2 ? D 6 ? B 6 ? 1 D C 6 1_555 B C 6 1_555 A C 3 1_555 C C 3 1_555 3.195 1.860 0.026 -94.145 151.953 -132.654 -0.938 1.593 0.064 -76.021 -47.100 -179.500 3 DA_C6C3:C3C6_CB D 6 ? B 6 ? A 3 ? C 3 ? 1 A C 3 1_555 C C 3 1_555 D C 5 1_555 B C 5 1_555 -1.673 2.046 -0.101 135.236 115.639 -81.181 -0.992 -0.874 -0.110 -58.054 67.892 -178.432 4 AD_C3C5:C5C3_BC A 3 ? C 3 ? D 5 ? B 5 ? 1 D C 5 1_555 B C 5 1_555 A C 4 1_555 C C 4 1_555 -2.702 -1.906 0.056 98.446 -147.915 -121.646 0.959 -1.347 0.005 74.080 49.305 -178.870 5 DA_C5C4:C4C5_CB D 5 ? B 5 ? A 4 ? C 4 ? 1 A C 4 1_555 C C 4 1_555 D C 4 1_555 B C 4 1_555 -2.361 -2.161 -0.020 -120.829 132.892 143.562 -1.078 1.183 -0.023 66.453 60.421 179.878 6 AD_C4C4:C4C4_BC A 4 ? C 4 ? D 4 ? B 4 ? 1 D C 4 1_555 B C 4 1_555 A C 5 1_555 C C 5 1_555 2.784 1.880 0.016 -99.951 149.450 -114.636 -0.943 1.391 0.005 -74.739 -49.984 -179.888 7 DA_C4C5:C5C4_CB D 4 ? B 4 ? A 5 ? C 5 ? 1 A C 5 1_555 C C 5 1_555 D C 3 1_555 B C 3 1_555 -1.951 -1.652 0.003 -116.447 137.152 -59.415 0.826 -0.976 -0.001 -68.592 -58.237 -179.929 8 AD_C5C3:C3C5_BC A 5 ? C 5 ? D 3 ? B 3 ? 1 D C 3 1_555 B C 3 1_555 A C 6 1_555 C C 6 1_555 -3.082 -1.872 -0.016 93.365 -153.685 172.901 -0.937 1.541 -0.016 -76.843 -46.683 179.989 9 DA_C3C6:C6C3_CB D 3 ? B 3 ? A 6 ? C 6 ? 1 A C 6 1_555 C C 6 1_555 D C 2 1_555 B C 2 1_555 -2.107 2.164 -0.006 128.119 126.353 122.093 1.082 1.053 0.004 63.179 -64.062 179.973 10 AD_C6C2:C2C6_BC A 6 ? C 6 ? D 2 ? B 2 ? 1 D C 2 1_555 B C 2 1_555 D U 1 1_555 B U 1 1_555 -0.001 -0.015 -2.309 -0.111 0.039 -34.843 0.029 0.010 -2.309 -0.066 -0.186 -34.843 11 DD_C2U1:U1C2_BB D 2 ? B 2 ? D 1 ? B 1 ? #