data_1ME0 # _entry.id 1ME0 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 1ME0 pdb_00001me0 10.2210/pdb1me0/pdb RCSB RCSB016842 ? ? WWPDB D_1000016842 ? ? # 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 2003-08-19 2 'Structure model' 1 1 2008-04-28 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-08-24 5 'Structure model' 1 4 2024-05-01 # _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' 'Non-polymer description' 4 5 'Structure model' Advisory 5 5 'Structure model' 'Data collection' 6 5 'Structure model' 'Database references' 7 5 '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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 5 'Structure model' pdbx_validate_polymer_linkage 5 5 'Structure model' struct_conn # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1ME0 _pdbx_database_status.recvd_initial_deposition_date 2002-08-07 _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.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1ME1 _pdbx_database_related.details ;CHIMERIC HAIRPIN WITH 2',5'-LINKED RNA LOOP AND RNA STEM ; _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Denisov, A.Y.' 1 'Hannoush, R.N.' 2 'Gehring, K.' 3 'Damha, M.J.' 4 # _citation.id primary _citation.title ;A Novel RNA Motif Based on the Structure of Unusually Stable 2',5'-Linked r(UUCG) Loops ; _citation.journal_abbrev J.AM.CHEM.SOC. _citation.journal_volume 125 _citation.page_first 11525 _citation.page_last 11531 _citation.year 2003 _citation.journal_id_ASTM JACSAT _citation.country US _citation.journal_id_ISSN 0002-7863 _citation.journal_id_CSD 0004 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 13129354 _citation.pdbx_database_id_DOI 10.1021/ja036207k # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Denisov, A.Y.' 1 ? primary 'Hannoush, R.N.' 2 ? primary 'Gehring, K.' 3 ? primary 'Damha, M.J.' 4 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA/RNA (5'-D(*GP*GP*AP*C)-R(P*(U25)P*(U25)P*(C25)P*(5GP))-D(P*GP*TP*CP*C)-3') ; _entity.formula_weight 3690.324 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type 'polydeoxyribonucleotide/polyribonucleotide hybrid' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DG)(DG)(DA)(DC)(U5P)(U5P)(C5P)(5GP)(DG)(DT)(DC)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GGACXXXXGTCC _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 DG n 1 2 DG n 1 3 DA n 1 4 DC n 1 5 U5P n 1 6 U5P n 1 7 C5P n 1 8 5GP n 1 9 DG n 1 10 DT n 1 11 DC n 1 12 DC 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 'Solid phase synthesis, phosphoramidite chemistry' # 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 5GP non-polymer . "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 C5P non-polymer . "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 U5P non-polymer . "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 DG 1 1 1 DG G A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DC 4 4 4 DC C A . n A 1 5 U5P 5 5 5 U5P U5P A . n A 1 6 U5P 6 6 6 U5P U5P A . n A 1 7 C5P 7 7 7 C5P C5P A . n A 1 8 5GP 8 8 8 5GP 5GP A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DT 10 10 10 DT T A . n A 1 11 DC 11 11 11 DC C A . n A 1 12 DC 12 12 12 DC C A . n # _exptl.entry_id 1ME0 _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol ? _exptl_crystal.density_Matthews ? _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.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _database_PDB_matrix.entry_id 1ME0 _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 # _struct.entry_id 1ME0 _struct.title ;Chimeric hairpin with 2',5'-linked RNA loop and DNA stem ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1ME0 _struct_keywords.pdbx_keywords 'DNA, RNA' _struct_keywords.text ;Hairpin, (2', 5')-RNA, DNA, 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_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1ME0 _struct_ref.pdbx_db_accession 1ME0 _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 1ME0 _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 12 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1ME0 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 12 _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 12 # _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 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _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 covale1 covale one ? A DC 4 "O3'" ? ? ? 1_555 A U5P 5 P ? ? A DC 4 A U5P 5 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale2 covale none ? A U5P 5 "O2'" ? ? ? 1_555 A U5P 6 P ? ? A U5P 5 A U5P 6 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale3 covale none ? A U5P 6 "O2'" ? ? ? 1_555 A C5P 7 P ? ? A U5P 6 A C5P 7 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale4 covale both ? A C5P 7 "O2'" ? ? ? 1_555 A 5GP 8 P ? ? A C5P 7 A 5GP 8 1_555 ? ? ? ? ? ? ? 1.617 ? ? covale5 covale one ? A 5GP 8 "O2'" ? ? ? 1_555 A DG 9 P ? ? A 5GP 8 A DG 9 1_555 ? ? ? ? ? ? ? 1.608 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DC 12 N3 ? ? A DG 1 A DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DC 12 O2 ? ? A DG 1 A DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DC 12 N4 ? ? A DG 1 A DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 11 N3 ? ? A DG 2 A DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 11 O2 ? ? A DG 2 A DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 11 N4 ? ? A DG 2 A DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 A DT 10 N3 ? ? A DA 3 A DT 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 A DT 10 O4 ? ? A DA 3 A DT 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 4 N3 ? ? ? 1_555 A DG 9 N1 ? ? A DC 4 A DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 4 N4 ? ? ? 1_555 A DG 9 O6 ? ? A DC 4 A DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 4 O2 ? ? ? 1_555 A DG 9 N2 ? ? A DC 4 A DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # 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 H22 A DG 1 ? ? O2 A DC 12 ? ? 1.59 2 2 H22 A DG 1 ? ? O2 A DC 12 ? ? 1.59 3 4 O2 A U5P 5 ? ? HN1 A 5GP 8 ? ? 1.55 4 4 O2 A DC 4 ? ? H22 A DG 9 ? ? 1.59 5 5 O2 A U5P 5 ? ? HN1 A 5GP 8 ? ? 1.59 6 5 H22 A DG 1 ? ? O2 A DC 12 ? ? 1.59 7 6 H22 A DG 1 ? ? O2 A DC 12 ? ? 1.59 8 7 H22 A DG 1 ? ? O2 A DC 12 ? ? 1.59 9 8 O2 A DC 4 ? ? H22 A DG 9 ? ? 1.60 10 9 H22 A DG 1 ? ? O2 A DC 12 ? ? 1.59 # 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 DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.23 108.30 2.93 0.30 N 2 1 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.56 113.10 4.46 0.50 N 3 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.22 108.30 2.92 0.30 N 4 1 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.94 113.10 4.84 0.50 N 5 1 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.84 106.40 -2.56 0.40 N 6 1 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.32 108.30 2.02 0.30 N 7 1 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.76 113.80 3.96 0.50 N 8 1 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 111.75 108.30 3.45 0.30 N 9 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.95 108.30 2.65 0.30 N 10 1 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.59 113.10 4.49 0.50 N 11 1 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.77 108.30 2.47 0.30 N 12 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.08 108.30 2.78 0.30 N 13 1 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.68 108.30 2.38 0.30 N 14 2 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.33 108.30 3.03 0.30 N 15 2 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.69 113.10 4.59 0.50 N 16 2 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.97 108.30 2.67 0.30 N 17 2 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.88 113.10 4.78 0.50 N 18 2 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.73 108.30 2.43 0.30 N 19 2 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.87 113.80 4.07 0.50 N 20 2 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 111.89 108.30 3.59 0.30 N 21 2 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.84 108.30 2.54 0.30 N 22 2 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.66 113.10 4.56 0.50 N 23 2 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.91 108.30 2.61 0.30 N 24 2 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.39 108.30 3.09 0.30 N 25 2 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.81 108.30 2.51 0.30 N 26 3 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.19 108.30 2.89 0.30 N 27 3 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.67 113.10 4.57 0.50 N 28 3 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.98 108.30 2.68 0.30 N 29 3 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.88 113.10 4.78 0.50 N 30 3 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.96 106.40 -2.44 0.40 N 31 3 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.98 108.30 2.68 0.30 N 32 3 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.79 113.80 3.99 0.50 N 33 3 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 112.60 108.30 4.30 0.30 N 34 3 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.95 108.30 2.65 0.30 N 35 3 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.67 113.10 4.57 0.50 N 36 3 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 111.03 108.30 2.73 0.30 N 37 3 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.46 108.30 3.16 0.30 N 38 3 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.94 108.30 2.64 0.30 N 39 4 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.22 108.30 2.92 0.30 N 40 4 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.62 113.10 4.52 0.50 N 41 4 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.92 108.30 2.62 0.30 N 42 4 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.94 113.10 4.84 0.50 N 43 4 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.87 106.40 -2.53 0.40 N 44 4 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 111.27 108.30 2.97 0.30 N 45 4 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.75 113.80 3.95 0.50 N 46 4 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 112.47 108.30 4.17 0.30 N 47 4 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.91 108.30 2.61 0.30 N 48 4 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.62 113.10 4.52 0.50 N 49 4 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 111.20 108.30 2.90 0.30 N 50 4 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.67 108.30 3.37 0.30 N 51 4 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 111.00 108.30 2.70 0.30 N 52 5 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.44 108.30 3.14 0.30 N 53 5 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.58 113.10 4.48 0.50 N 54 5 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.62 108.30 2.32 0.30 N 55 5 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.91 113.10 4.81 0.50 N 56 5 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.95 106.40 -2.45 0.40 N 57 5 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.85 108.30 2.55 0.30 N 58 5 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.70 113.80 3.90 0.50 N 59 5 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 111.85 108.30 3.55 0.30 N 60 5 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.96 108.30 2.66 0.30 N 61 5 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.66 113.10 4.56 0.50 N 62 5 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.96 108.30 2.66 0.30 N 63 5 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.37 108.30 3.07 0.30 N 64 5 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.67 108.30 2.37 0.30 N 65 6 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.14 108.30 2.84 0.30 N 66 6 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.64 113.10 4.54 0.50 N 67 6 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.96 108.30 2.66 0.30 N 68 6 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.97 113.10 4.87 0.50 N 69 6 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.88 106.40 -2.52 0.40 N 70 6 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.38 108.30 2.08 0.30 N 71 6 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.81 113.80 4.01 0.50 N 72 6 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 111.88 108.30 3.58 0.30 N 73 6 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.82 108.30 2.52 0.30 N 74 6 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.65 113.10 4.55 0.50 N 75 6 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.89 108.30 2.59 0.30 N 76 6 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.21 108.30 2.91 0.30 N 77 6 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.74 108.30 2.44 0.30 N 78 7 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.48 108.30 3.18 0.30 N 79 7 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.63 113.10 4.53 0.50 N 80 7 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.79 108.30 2.49 0.30 N 81 7 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.98 113.10 4.88 0.50 N 82 7 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.89 106.40 -2.51 0.40 N 83 7 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.52 108.30 2.22 0.30 N 84 7 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.81 113.80 4.01 0.50 N 85 7 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 111.97 108.30 3.67 0.30 N 86 7 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 111.13 108.30 2.83 0.30 N 87 7 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.61 113.10 4.51 0.50 N 88 7 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.79 108.30 2.49 0.30 N 89 7 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.39 108.30 3.09 0.30 N 90 7 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.67 108.30 2.37 0.30 N 91 8 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.24 108.30 2.94 0.30 N 92 8 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.68 113.10 4.58 0.50 N 93 8 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 110.91 108.30 2.61 0.30 N 94 8 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.89 113.10 4.79 0.50 N 95 8 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.89 106.40 -2.51 0.40 N 96 8 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.88 108.30 2.58 0.30 N 97 8 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.73 113.80 3.93 0.50 N 98 8 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 112.34 108.30 4.04 0.30 N 99 8 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.40 108.30 2.10 0.30 N 100 8 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.65 113.10 4.55 0.50 N 101 8 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 111.25 108.30 2.95 0.30 N 102 8 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.52 108.30 3.22 0.30 N 103 8 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.83 108.30 2.53 0.30 N 104 9 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.37 108.30 3.07 0.30 N 105 9 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.60 113.10 4.50 0.50 N 106 9 C8 A DG 1 ? ? N9 A DG 1 ? ? C4 A DG 1 ? ? 103.96 106.40 -2.44 0.40 N 107 9 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.06 108.30 2.76 0.30 N 108 9 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.94 113.10 4.84 0.50 N 109 9 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.96 106.40 -2.44 0.40 N 110 9 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.48 108.30 2.18 0.30 N 111 9 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.77 113.80 3.97 0.50 N 112 9 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 111.49 108.30 3.19 0.30 N 113 9 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 110.62 108.30 2.32 0.30 N 114 9 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.75 113.10 4.65 0.50 N 115 9 C8 A DG 9 ? ? N9 A DG 9 ? ? C4 A DG 9 ? ? 103.85 106.40 -2.55 0.40 N 116 9 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 111.03 108.30 2.73 0.30 N 117 9 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.17 108.30 2.87 0.30 N 118 9 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.51 108.30 2.21 0.30 N 119 10 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 111.20 108.30 2.90 0.30 N 120 10 N7 A DG 1 ? ? C8 A DG 1 ? ? N9 A DG 1 ? ? 117.61 113.10 4.51 0.50 N 121 10 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 111.14 108.30 2.84 0.30 N 122 10 N7 A DG 2 ? ? C8 A DG 2 ? ? N9 A DG 2 ? ? 117.93 113.10 4.83 0.50 N 123 10 C8 A DG 2 ? ? N9 A DG 2 ? ? C4 A DG 2 ? ? 103.93 106.40 -2.47 0.40 N 124 10 "O4'" A DA 3 ? ? "C1'" A DA 3 ? ? N9 A DA 3 ? ? 110.71 108.30 2.41 0.30 N 125 10 N7 A DA 3 ? ? C8 A DA 3 ? ? N9 A DA 3 ? ? 117.81 113.80 4.01 0.50 N 126 10 "O4'" A DC 4 ? ? "C1'" A DC 4 ? ? N1 A DC 4 ? ? 112.23 108.30 3.93 0.30 N 127 10 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 111.16 108.30 2.86 0.30 N 128 10 N7 A DG 9 ? ? C8 A DG 9 ? ? N9 A DG 9 ? ? 117.59 113.10 4.49 0.50 N 129 10 "O4'" A DT 10 ? ? "C1'" A DT 10 ? ? N1 A DT 10 ? ? 110.85 108.30 2.55 0.30 N 130 10 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 111.46 108.30 3.16 0.30 N 131 10 "O4'" A DC 12 ? ? "C1'" A DC 12 ? ? N1 A DC 12 ? ? 110.97 108.30 2.67 0.30 N # _pdbx_entry_details.entry_id 1ME0 _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ;NUCLEOTIDES 5(U25), 6(U25), 7(C25), 8(5GP) HAS A NON-STANDARD 2'-5' LINKAGE. ; _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest ? # _pdbx_nmr_ensemble.entry_id 1ME0 _pdbx_nmr_ensemble.conformers_calculated_total_number 20 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _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 1ME0 _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'closest to the average, lowest energy' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '1.5 mM hairpin' _pdbx_nmr_sample_details.solvent_system 'D2O, H2O/D2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 288 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature_units K # 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 DQF-COSY # _pdbx_nmr_details.entry_id 1ME0 _pdbx_nmr_details.text 'Structure was determined using standard 2D homo- and heteronuclear techniques: 2D-NOESY, DQF-COSY, TOCSY, H,C-HMQC, H,P-HetCOSY' # _pdbx_nmr_refine.entry_id 1ME0 _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details 'Structures were refined by NMR-restrained molecular dynamics (12 ps, 300-1000 K) with final energy minimization' _pdbx_nmr_refine.software_ordinal 1 # 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 1 X-PLOR ? 'data analysis' Brunger 2 # 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 5GP P P N N 1 5GP O1P O N N 2 5GP O2P O N N 3 5GP O3P O N N 4 5GP "O5'" O N N 5 5GP "C5'" C N N 6 5GP "C4'" C N R 7 5GP "O4'" O N N 8 5GP "C3'" C N S 9 5GP "O3'" O N N 10 5GP "C2'" C N R 11 5GP "O2'" O N N 12 5GP "C1'" C N R 13 5GP N9 N Y N 14 5GP C8 C Y N 15 5GP N7 N Y N 16 5GP C5 C Y N 17 5GP C6 C N N 18 5GP O6 O N N 19 5GP N1 N N N 20 5GP C2 C N N 21 5GP N2 N N N 22 5GP N3 N N N 23 5GP C4 C Y N 24 5GP HOP2 H N N 25 5GP HOP3 H N N 26 5GP "H5'1" H N N 27 5GP "H5'2" H N N 28 5GP "H4'" H N N 29 5GP "H3'" H N N 30 5GP "HO3'" H N N 31 5GP "H2'" H N N 32 5GP "HO2'" H N N 33 5GP "H1'" H N N 34 5GP H8 H N N 35 5GP HN1 H N N 36 5GP HN21 H N N 37 5GP HN22 H N N 38 C5P O3P O N N 39 C5P P P N N 40 C5P O1P O N N 41 C5P O2P O N N 42 C5P "O5'" O N N 43 C5P "C5'" C N N 44 C5P "C4'" C N R 45 C5P "O4'" O N N 46 C5P "C3'" C N S 47 C5P "O3'" O N N 48 C5P "C2'" C N R 49 C5P "O2'" O N N 50 C5P "C1'" C N R 51 C5P N1 N N N 52 C5P C2 C N N 53 C5P N3 N N N 54 C5P C4 C N N 55 C5P C5 C N N 56 C5P C6 C N N 57 C5P O2 O N N 58 C5P N4 N N N 59 C5P HOP3 H N N 60 C5P HOP2 H N N 61 C5P "H5'1" H N N 62 C5P "H5'2" H N N 63 C5P "H4'" H N N 64 C5P "H3'" H N N 65 C5P "HO3'" H N N 66 C5P "H2'1" H N N 67 C5P "HO2'" H N N 68 C5P "H1'" H N N 69 C5P H5 H N N 70 C5P H6 H N N 71 C5P HN41 H N N 72 C5P HN42 H N N 73 DA OP3 O N N 74 DA P P N N 75 DA OP1 O N N 76 DA OP2 O N N 77 DA "O5'" O N N 78 DA "C5'" C N N 79 DA "C4'" C N R 80 DA "O4'" O N N 81 DA "C3'" C N S 82 DA "O3'" O N N 83 DA "C2'" C N N 84 DA "C1'" C N R 85 DA N9 N Y N 86 DA C8 C Y N 87 DA N7 N Y N 88 DA C5 C Y N 89 DA C6 C Y N 90 DA N6 N N N 91 DA N1 N Y N 92 DA C2 C Y N 93 DA N3 N Y N 94 DA C4 C Y N 95 DA HOP3 H N N 96 DA HOP2 H N N 97 DA "H5'" H N N 98 DA "H5''" H N N 99 DA "H4'" H N N 100 DA "H3'" H N N 101 DA "HO3'" H N N 102 DA "H2'" H N N 103 DA "H2''" H N N 104 DA "H1'" H N N 105 DA H8 H N N 106 DA H61 H N N 107 DA H62 H N N 108 DA H2 H N N 109 DC OP3 O N N 110 DC P P N N 111 DC OP1 O N N 112 DC OP2 O N N 113 DC "O5'" O N N 114 DC "C5'" C N N 115 DC "C4'" C N R 116 DC "O4'" O N N 117 DC "C3'" C N S 118 DC "O3'" O N N 119 DC "C2'" C N N 120 DC "C1'" C N R 121 DC N1 N N N 122 DC C2 C N N 123 DC O2 O N N 124 DC N3 N N N 125 DC C4 C N N 126 DC N4 N N N 127 DC C5 C N N 128 DC C6 C N N 129 DC HOP3 H N N 130 DC HOP2 H N N 131 DC "H5'" H N N 132 DC "H5''" H N N 133 DC "H4'" H N N 134 DC "H3'" H N N 135 DC "HO3'" H N N 136 DC "H2'" H N N 137 DC "H2''" H N N 138 DC "H1'" H N N 139 DC H41 H N N 140 DC H42 H N N 141 DC H5 H N N 142 DC H6 H N N 143 DG OP3 O N N 144 DG P P N N 145 DG OP1 O N N 146 DG OP2 O N N 147 DG "O5'" O N N 148 DG "C5'" C N N 149 DG "C4'" C N R 150 DG "O4'" O N N 151 DG "C3'" C N S 152 DG "O3'" O N N 153 DG "C2'" C N N 154 DG "C1'" C N R 155 DG N9 N Y N 156 DG C8 C Y N 157 DG N7 N Y N 158 DG C5 C Y N 159 DG C6 C N N 160 DG O6 O N N 161 DG N1 N N N 162 DG C2 C N N 163 DG N2 N N N 164 DG N3 N N N 165 DG C4 C Y N 166 DG HOP3 H N N 167 DG HOP2 H N N 168 DG "H5'" H N N 169 DG "H5''" H N N 170 DG "H4'" H N N 171 DG "H3'" H N N 172 DG "HO3'" H N N 173 DG "H2'" H N N 174 DG "H2''" H N N 175 DG "H1'" H N N 176 DG H8 H N N 177 DG H1 H N N 178 DG H21 H N N 179 DG H22 H N N 180 DT OP3 O N N 181 DT P P N N 182 DT OP1 O N N 183 DT OP2 O N N 184 DT "O5'" O N N 185 DT "C5'" C N N 186 DT "C4'" C N R 187 DT "O4'" O N N 188 DT "C3'" C N S 189 DT "O3'" O N N 190 DT "C2'" C N N 191 DT "C1'" C N R 192 DT N1 N N N 193 DT C2 C N N 194 DT O2 O N N 195 DT N3 N N N 196 DT C4 C N N 197 DT O4 O N N 198 DT C5 C N N 199 DT C7 C N N 200 DT C6 C N N 201 DT HOP3 H N N 202 DT HOP2 H N N 203 DT "H5'" H N N 204 DT "H5''" H N N 205 DT "H4'" H N N 206 DT "H3'" H N N 207 DT "HO3'" H N N 208 DT "H2'" H N N 209 DT "H2''" H N N 210 DT "H1'" H N N 211 DT H3 H N N 212 DT H71 H N N 213 DT H72 H N N 214 DT H73 H N N 215 DT H6 H N N 216 U5P N1 N N N 217 U5P C2 C N N 218 U5P N3 N N N 219 U5P C4 C N N 220 U5P C5 C N N 221 U5P C6 C N N 222 U5P O2 O N N 223 U5P O4 O N N 224 U5P "C1'" C N R 225 U5P "C2'" C N R 226 U5P "O2'" O N N 227 U5P "C3'" C N S 228 U5P "C4'" C N R 229 U5P "O3'" O N N 230 U5P "O4'" O N N 231 U5P "C5'" C N N 232 U5P "O5'" O N N 233 U5P P P N N 234 U5P O1P O N N 235 U5P O2P O N N 236 U5P O3P O N N 237 U5P HN3 H N N 238 U5P H5 H N N 239 U5P H6 H N N 240 U5P "H1'" H N N 241 U5P "H2'" H N N 242 U5P "HO2'" H N N 243 U5P "H3'" H N N 244 U5P "H4'" H N N 245 U5P "HO3'" H N N 246 U5P "H5'1" H N N 247 U5P "H5'2" H N N 248 U5P HOP2 H N N 249 U5P HOP3 H N N 250 # 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 5GP P O1P doub N N 1 5GP P O2P sing N N 2 5GP P O3P sing N N 3 5GP P "O5'" sing N N 4 5GP O2P HOP2 sing N N 5 5GP O3P HOP3 sing N N 6 5GP "O5'" "C5'" sing N N 7 5GP "C5'" "C4'" sing N N 8 5GP "C5'" "H5'1" sing N N 9 5GP "C5'" "H5'2" sing N N 10 5GP "C4'" "O4'" sing N N 11 5GP "C4'" "C3'" sing N N 12 5GP "C4'" "H4'" sing N N 13 5GP "O4'" "C1'" sing N N 14 5GP "C3'" "O3'" sing N N 15 5GP "C3'" "C2'" sing N N 16 5GP "C3'" "H3'" sing N N 17 5GP "O3'" "HO3'" sing N N 18 5GP "C2'" "O2'" sing N N 19 5GP "C2'" "C1'" sing N N 20 5GP "C2'" "H2'" sing N N 21 5GP "O2'" "HO2'" sing N N 22 5GP "C1'" N9 sing N N 23 5GP "C1'" "H1'" sing N N 24 5GP N9 C8 sing Y N 25 5GP N9 C4 sing Y N 26 5GP C8 N7 doub Y N 27 5GP C8 H8 sing N N 28 5GP N7 C5 sing Y N 29 5GP C5 C6 sing N N 30 5GP C5 C4 doub Y N 31 5GP C6 O6 doub N N 32 5GP C6 N1 sing N N 33 5GP N1 C2 sing N N 34 5GP N1 HN1 sing N N 35 5GP C2 N2 sing N N 36 5GP C2 N3 doub N N 37 5GP N2 HN21 sing N N 38 5GP N2 HN22 sing N N 39 5GP N3 C4 sing N N 40 C5P O3P P sing N N 41 C5P O3P HOP3 sing N N 42 C5P P O1P doub N N 43 C5P P O2P sing N N 44 C5P P "O5'" sing N N 45 C5P O2P HOP2 sing N N 46 C5P "O5'" "C5'" sing N N 47 C5P "C5'" "C4'" sing N N 48 C5P "C5'" "H5'1" sing N N 49 C5P "C5'" "H5'2" sing N N 50 C5P "C4'" "O4'" sing N N 51 C5P "C4'" "C3'" sing N N 52 C5P "C4'" "H4'" sing N N 53 C5P "O4'" "C1'" sing N N 54 C5P "C3'" "O3'" sing N N 55 C5P "C3'" "C2'" sing N N 56 C5P "C3'" "H3'" sing N N 57 C5P "O3'" "HO3'" sing N N 58 C5P "C2'" "O2'" sing N N 59 C5P "C2'" "C1'" sing N N 60 C5P "C2'" "H2'1" sing N N 61 C5P "O2'" "HO2'" sing N N 62 C5P "C1'" N1 sing N N 63 C5P "C1'" "H1'" sing N N 64 C5P N1 C2 sing N N 65 C5P N1 C6 sing N N 66 C5P C2 N3 sing N N 67 C5P C2 O2 doub N N 68 C5P N3 C4 doub N N 69 C5P C4 C5 sing N N 70 C5P C4 N4 sing N N 71 C5P C5 C6 doub N N 72 C5P C5 H5 sing N N 73 C5P C6 H6 sing N N 74 C5P N4 HN41 sing N N 75 C5P N4 HN42 sing N N 76 DA OP3 P sing N N 77 DA OP3 HOP3 sing N N 78 DA P OP1 doub N N 79 DA P OP2 sing N N 80 DA P "O5'" sing N N 81 DA OP2 HOP2 sing N N 82 DA "O5'" "C5'" sing N N 83 DA "C5'" "C4'" sing N N 84 DA "C5'" "H5'" sing N N 85 DA "C5'" "H5''" sing N N 86 DA "C4'" "O4'" sing N N 87 DA "C4'" "C3'" sing N N 88 DA "C4'" "H4'" sing N N 89 DA "O4'" "C1'" sing N N 90 DA "C3'" "O3'" sing N N 91 DA "C3'" "C2'" sing N N 92 DA "C3'" "H3'" sing N N 93 DA "O3'" "HO3'" sing N N 94 DA "C2'" "C1'" sing N N 95 DA "C2'" "H2'" sing N N 96 DA "C2'" "H2''" sing N N 97 DA "C1'" N9 sing N N 98 DA "C1'" "H1'" sing N N 99 DA N9 C8 sing Y N 100 DA N9 C4 sing Y N 101 DA C8 N7 doub Y N 102 DA C8 H8 sing N N 103 DA N7 C5 sing Y N 104 DA C5 C6 sing Y N 105 DA C5 C4 doub Y N 106 DA C6 N6 sing N N 107 DA C6 N1 doub Y N 108 DA N6 H61 sing N N 109 DA N6 H62 sing N N 110 DA N1 C2 sing Y N 111 DA C2 N3 doub Y N 112 DA C2 H2 sing N N 113 DA N3 C4 sing Y N 114 DC OP3 P sing N N 115 DC OP3 HOP3 sing N N 116 DC P OP1 doub N N 117 DC P OP2 sing N N 118 DC P "O5'" sing N N 119 DC OP2 HOP2 sing N N 120 DC "O5'" "C5'" sing N N 121 DC "C5'" "C4'" sing N N 122 DC "C5'" "H5'" sing N N 123 DC "C5'" "H5''" sing N N 124 DC "C4'" "O4'" sing N N 125 DC "C4'" "C3'" sing N N 126 DC "C4'" "H4'" sing N N 127 DC "O4'" "C1'" sing N N 128 DC "C3'" "O3'" sing N N 129 DC "C3'" "C2'" sing N N 130 DC "C3'" "H3'" sing N N 131 DC "O3'" "HO3'" sing N N 132 DC "C2'" "C1'" sing N N 133 DC "C2'" "H2'" sing N N 134 DC "C2'" "H2''" sing N N 135 DC "C1'" N1 sing N N 136 DC "C1'" "H1'" sing N N 137 DC N1 C2 sing N N 138 DC N1 C6 sing N N 139 DC C2 O2 doub N N 140 DC C2 N3 sing N N 141 DC N3 C4 doub N N 142 DC C4 N4 sing N N 143 DC C4 C5 sing N N 144 DC N4 H41 sing N N 145 DC N4 H42 sing N N 146 DC C5 C6 doub N N 147 DC C5 H5 sing N N 148 DC C6 H6 sing N N 149 DG OP3 P sing N N 150 DG OP3 HOP3 sing N N 151 DG P OP1 doub N N 152 DG P OP2 sing N N 153 DG P "O5'" sing N N 154 DG OP2 HOP2 sing N N 155 DG "O5'" "C5'" sing N N 156 DG "C5'" "C4'" sing N N 157 DG "C5'" "H5'" sing N N 158 DG "C5'" "H5''" sing N N 159 DG "C4'" "O4'" sing N N 160 DG "C4'" "C3'" sing N N 161 DG "C4'" "H4'" sing N N 162 DG "O4'" "C1'" sing N N 163 DG "C3'" "O3'" sing N N 164 DG "C3'" "C2'" sing N N 165 DG "C3'" "H3'" sing N N 166 DG "O3'" "HO3'" sing N N 167 DG "C2'" "C1'" sing N N 168 DG "C2'" "H2'" sing N N 169 DG "C2'" "H2''" sing N N 170 DG "C1'" N9 sing N N 171 DG "C1'" "H1'" sing N N 172 DG N9 C8 sing Y N 173 DG N9 C4 sing Y N 174 DG C8 N7 doub Y N 175 DG C8 H8 sing N N 176 DG N7 C5 sing Y N 177 DG C5 C6 sing N N 178 DG C5 C4 doub Y N 179 DG C6 O6 doub N N 180 DG C6 N1 sing N N 181 DG N1 C2 sing N N 182 DG N1 H1 sing N N 183 DG C2 N2 sing N N 184 DG C2 N3 doub N N 185 DG N2 H21 sing N N 186 DG N2 H22 sing N N 187 DG N3 C4 sing N N 188 DT OP3 P sing N N 189 DT OP3 HOP3 sing N N 190 DT P OP1 doub N N 191 DT P OP2 sing N N 192 DT P "O5'" sing N N 193 DT OP2 HOP2 sing N N 194 DT "O5'" "C5'" sing N N 195 DT "C5'" "C4'" sing N N 196 DT "C5'" "H5'" sing N N 197 DT "C5'" "H5''" sing N N 198 DT "C4'" "O4'" sing N N 199 DT "C4'" "C3'" sing N N 200 DT "C4'" "H4'" sing N N 201 DT "O4'" "C1'" sing N N 202 DT "C3'" "O3'" sing N N 203 DT "C3'" "C2'" sing N N 204 DT "C3'" "H3'" sing N N 205 DT "O3'" "HO3'" sing N N 206 DT "C2'" "C1'" sing N N 207 DT "C2'" "H2'" sing N N 208 DT "C2'" "H2''" sing N N 209 DT "C1'" N1 sing N N 210 DT "C1'" "H1'" sing N N 211 DT N1 C2 sing N N 212 DT N1 C6 sing N N 213 DT C2 O2 doub N N 214 DT C2 N3 sing N N 215 DT N3 C4 sing N N 216 DT N3 H3 sing N N 217 DT C4 O4 doub N N 218 DT C4 C5 sing N N 219 DT C5 C7 sing N N 220 DT C5 C6 doub N N 221 DT C7 H71 sing N N 222 DT C7 H72 sing N N 223 DT C7 H73 sing N N 224 DT C6 H6 sing N N 225 U5P N1 C2 sing N N 226 U5P N1 C6 sing N N 227 U5P N1 "C1'" sing N N 228 U5P C2 N3 sing N N 229 U5P C2 O2 doub N N 230 U5P N3 C4 sing N N 231 U5P N3 HN3 sing N N 232 U5P C4 C5 sing N N 233 U5P C4 O4 doub N N 234 U5P C5 C6 doub N N 235 U5P C5 H5 sing N N 236 U5P C6 H6 sing N N 237 U5P "C1'" "C2'" sing N N 238 U5P "C1'" "O4'" sing N N 239 U5P "C1'" "H1'" sing N N 240 U5P "C2'" "O2'" sing N N 241 U5P "C2'" "C3'" sing N N 242 U5P "C2'" "H2'" sing N N 243 U5P "O2'" "HO2'" sing N N 244 U5P "C3'" "C4'" sing N N 245 U5P "C3'" "O3'" sing N N 246 U5P "C3'" "H3'" sing N N 247 U5P "C4'" "O4'" sing N N 248 U5P "C4'" "C5'" sing N N 249 U5P "C4'" "H4'" sing N N 250 U5P "O3'" "HO3'" sing N N 251 U5P "C5'" "O5'" sing N N 252 U5P "C5'" "H5'1" sing N N 253 U5P "C5'" "H5'2" sing N N 254 U5P "O5'" P sing N N 255 U5P P O1P doub N N 256 U5P P O2P sing N N 257 U5P P O3P sing N N 258 U5P O2P HOP2 sing N N 259 U5P O3P HOP3 sing N N 260 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1ME0 'double helix' 1ME0 'hairpin loop' # 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 DG 1 1_555 A DC 12 1_555 -0.299 -0.350 -0.012 -7.242 -7.951 -0.218 1 A_DG1:DC12_A A 1 ? A 12 ? 19 1 1 A DG 2 1_555 A DC 11 1_555 -0.539 -0.426 0.092 -6.290 -10.750 -1.383 2 A_DG2:DC11_A A 2 ? A 11 ? 19 1 1 A DA 3 1_555 A DT 10 1_555 0.122 -0.297 0.237 4.177 -9.014 -1.697 3 A_DA3:DT10_A A 3 ? A 10 ? 20 1 1 A DC 4 1_555 A DG 9 1_555 0.174 -0.321 -0.074 9.632 -9.721 -0.973 4 A_DC4:DG9_A A 4 ? A 9 ? 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 DG 1 1_555 A DC 12 1_555 A DG 2 1_555 A DC 11 1_555 -0.246 -1.037 2.990 -2.986 5.083 33.956 -2.459 0.000 2.821 8.623 5.066 34.449 1 AA_DG1DG2:DC11DC12_AA A 1 ? A 12 ? A 2 ? A 11 ? 1 A DG 2 1_555 A DC 11 1_555 A DA 3 1_555 A DT 10 1_555 -0.148 -0.465 2.919 -0.518 -1.743 37.954 -0.515 0.167 2.939 -2.678 0.796 37.996 2 AA_DG2DA3:DT10DC11_AA A 2 ? A 11 ? A 3 ? A 10 ? 1 A DA 3 1_555 A DT 10 1_555 A DC 4 1_555 A DG 9 1_555 0.126 -0.812 2.932 0.437 3.629 33.340 -1.934 -0.154 2.832 6.302 -0.758 33.534 3 AA_DA3DC4:DG9DT10_AA A 3 ? A 10 ? A 4 ? A 9 ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model DRX _pdbx_nmr_spectrometer.field_strength 500 # _atom_sites.entry_id 1ME0 _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_