data_27225 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; hsa-miR-34a-5p ; _BMRB_accession_number 27225 _BMRB_flat_file_name bmr27225.str _Entry_type original _Submission_date 2017-08-18 _Accession_date 2017-08-18 _Entry_origination author _NMR_STAR_version 2.1.1 _Experimental_method NMR _Details 'Sequence specific resonance assignment of mature hsa-miR-34a-5p (22-mer)' loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Baronti Lorenzo . . 2 Steiner Emilie . . 3 Schlagnitweit Judith . . 4 Petzold Katja . . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count assigned_chemical_shifts 1 stop_ loop_ _Data_type _Data_type_count "1H chemical shifts" 53 "13C chemical shifts" 44 "15N chemical shifts" 27 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2020-07-03 update BMRB 'update entry citation' 2020-05-21 original author 'original release' stop_ loop_ _Related_BMRB_accession_number _Relationship 27226 'hsa-miR-34a-mSIRT1 bulge' 27229 'hsa-miR-34a-mSIRT1 bulge U5C9mut' stop_ _Original_release_date 2017-08-18 save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title ; Base-pair Conformational Switch Modulates miR-34a Targeting of Sirt1 mRNA ; _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID 32461691 loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Baronti Lorenzo . . 2 Guzzetti Ileana . . 3 Ebrahimi Parisa . . 4 'Friebe Sandoz' Sarah . . 5 Steiner Emilie . . 6 Schlagnitweit Judith . . 7 Fromm Bastian . . 8 Silva Luis . . 9 Fontana Carolina . . 10 Chen Alan . . 11 Petzold Katja . . stop_ _Journal_abbreviation Nature _Journal_volume 583 _Journal_issue 7814 _Journal_ISSN 1476-4687 _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 139 _Page_last 144 _Year 2020 _Details . loop_ _Keyword RNA miR-34a microRNA stop_ save_ ################################## # Molecular system description # ################################## save_assembly _Saveframe_category molecular_system _Mol_system_name 'monomeric hsa-miR-34a-5p' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label 'monomer hsa-miR-34a-5p' $hsa-miR-34a-5p stop_ _System_molecular_weight 6677.2 _System_physical_state native _System_oligomer_state ? _System_paramagnetic no _System_thiol_state . _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_hsa-miR-34a-5p _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class RNA _Name_common hsa-miR-34a-5p _Molecular_mass . _Mol_thiol_state 'not present' _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 22 _Mol_residue_sequence ; UGGCAGUGUCUUAGCUGGUU GU ; loop_ _Residue_seq_code _Residue_label 1 U 2 G 3 G 4 C 5 A 6 G 7 U 8 G 9 U 10 C 11 U 12 U 13 A 14 G 15 C 16 U 17 G 18 G 19 U 20 U 21 G 22 U stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date . loop_ _Database_name _Database_accession_code _Database_entry_mol_name _Sequence_query_to_submitted_percentage _Sequence_subject_length _Sequence_identity _Sequence_positive _Sequence_homology_expectation_value NCBI 'GenBank: LM378896.1' hsa-miR-34a-5p . . . . . stop_ save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species $hsa-miR-34a-5p Human 9606 Eukaryota Metazoa Homo sapiens stop_ save_ ######################### # Experimental source # ######################### save_experimental_source _Saveframe_category experimental_source loop_ _Mol_label _Production_method _Host_organism_name_common _Genus _Species _Strain _Vector_type _Vector_name $hsa-miR-34a-5p 'enzymatic semisynthesis' . . . . 'DNA template' 'DNA template' stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_1 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Concentration_min_value _Concentration_max_value _Isotopic_labeling $hsa-miR-34a-5p 300 uM 100 500 '[U-100% 13C; U-100% 15N]' H2O 90 % . . 'natural abundance' D2O 10 % . . [U-2H] 'sodium phosphate' 15 mM . . 'natural abundance' 'sodium chloride' 25 mM . . 'natural abundance' EDTA 0.1 mM . . 'natural abundance' stop_ save_ ############################ # Computer software used # ############################ save_TOPSPIN _Saveframe_category software _Name TOPSPIN _Version 'v 3.2' loop_ _Vendor _Address _Electronic_address 'Bruker Biospin' . . stop_ loop_ _Task processing stop_ _Details . save_ save_SPARKY _Saveframe_category software _Name SPARKY _Version . loop_ _Vendor _Address _Electronic_address Goddard . . stop_ loop_ _Task 'chemical shift assignment' stop_ _Details . save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_1 _Saveframe_category NMR_spectrometer _Manufacturer Bruker _Model 'Avance III HD' _Field_strength 600 _Details 'equipped with a QCI cryoprobe' save_ ############################# # NMR applied experiments # ############################# save_2D_1H-13C_HSQC_1 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-13C HSQC' _Sample_label $sample_1 save_ save_2D_1H-15N_HSQC_2 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-15N HSQC' _Sample_label $sample_1 save_ save_2D_1H-1H_NOESY_3 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-1H NOESY' _Sample_label $sample_1 save_ save_2D_HNN_COSY_4 _Saveframe_category NMR_applied_experiment _Experiment_name '2D HNN COSY' _Sample_label $sample_1 save_ save_3D_HCN_5 _Saveframe_category NMR_applied_experiment _Experiment_name '3D HCN' _Sample_label $sample_1 save_ ####################### # Sample conditions # ####################### save_sample_conditions_1 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units pH 6.5 . pH pressure 1 . atm temperature 295.4 . K stop_ save_ #################### # NMR parameters # #################### ############################## # Assigned chemical shifts # ############################## ################################ # Chemical shift referencing # ################################ save_chemical_shift_reference_1 _Saveframe_category chemical_shift_reference _Details '13C and 15N were referenced using indirect referencing for multidimensional heteronuclear according to Wishart et al., 1995' loop_ _Mol_common_name _Atom_type _Atom_isotope_number _Atom_group _Chem_shift_units _Chem_shift_value _Reference_method _Reference_type _External_reference_sample_geometry _External_reference_location _External_reference_axis _Indirect_shift_ratio DSS C 13 'methyl protons' ppm 0.00 na indirect . . . 0.251449530 DSS H 1 'methyl protons' ppm 0.00 internal direct . . . 1.000000000 DSS N 15 'methyl protons' ppm 0.00 na indirect . . . 0.101329118 stop_ save_ ################################### # Assigned chemical shift lists # ################################### ################################################################### # Chemical Shift Ambiguity Index Value Definitions # # # # The values other than 1 are used for those atoms with different # # chemical shifts that cannot be assigned to stereospecific atoms # # or to specific residues or chains. # # # # Index Value Definition # # # # 1 Unique (including isolated methyl protons, # # geminal atoms, and geminal methyl # # groups with identical chemical shifts) # # (e.g. ILE HD11, HD12, HD13 protons) # # 2 Ambiguity of geminal atoms or geminal methyl # # proton groups (e.g. ASP HB2 and HB3 # # protons, LEU CD1 and CD2 carbons, or # # LEU HD11, HD12, HD13 and HD21, HD22, # # HD23 methyl protons) # # 3 Aromatic atoms on opposite sides of # # symmetrical rings (e.g. TYR HE1 and HE2 # # protons) # # 4 Intraresidue ambiguities (e.g. LYS HG and # # HD protons or TRP HZ2 and HZ3 protons) # # 5 Interresidue ambiguities (LYS 12 vs. LYS 27) # # 6 Intermolecular ambiguities (e.g. ASP 31 CA # # in monomer 1 and ASP 31 CA in monomer 2 # # of an asymmetrical homodimer, duplex # # DNA assignments, or other assignments # # that may apply to atoms in one or more # # molecule in the molecular assembly) # # 9 Ambiguous, specific ambiguity not defined # # # ################################################################### save_assigned_chem_shift_list_1 _Saveframe_category assigned_chemical_shifts _Details . loop_ _Experiment_label '2D 1H-13C HSQC' '2D 1H-15N HSQC' '2D 1H-1H NOESY' '2D HNN COSY' '3D HCN' stop_ loop_ _Sample_label $sample_1 stop_ _Sample_conditions_label $sample_conditions_1 _Chem_shift_reference_set_label $chemical_shift_reference_1 _Mol_system_component_name 'monomer hsa-miR-34a-5p' _Text_data_format . _Text_data . loop_ _Atom_shift_assign_ID _Residue_author_seq_code _Residue_seq_code _Residue_label _Atom_name _Atom_type _Chem_shift_value _Chem_shift_value_error _Chem_shift_ambiguity_code 1 1 1 U H1' H 5.909 0.000 1 2 1 1 U H6 H 7.967 0.000 1 3 1 1 U C1' C 90.744 0.000 1 4 1 1 U C6 C 144.100 0.000 1 5 2 2 G H1' H 5.779 0.000 1 6 2 2 G H8 H 7.943 0.000 1 7 2 2 G C1' C 92.423 0.000 1 8 2 2 G C8 C 138.875 0.000 1 9 2 2 G N9 N 169.484 0.005 1 10 3 3 G H1' H 5.705 0.001 1 11 3 3 G H8 H 7.666 0.000 1 12 3 3 G C1' C 92.104 0.000 1 13 3 3 G C8 C 137.488 0.000 1 14 3 3 G N9 N 168.872 0.015 1 15 4 4 C H1' H 5.582 0.001 1 16 4 4 C H5 H 5.355 0.000 1 17 4 4 C H6 H 7.822 0.000 1 18 4 4 C H41 H 8.336 0.000 1 19 4 4 C H42 H 6.872 0.000 1 20 4 4 C C1' C 93.716 0.000 1 21 4 4 C C5 C 97.791 0.000 1 22 4 4 C C6 C 141.588 0.000 1 23 4 4 C N1 N 151.187 0.006 1 24 4 4 C N3 N 196.857 0.000 1 25 4 4 C N4 N 98.536 0.007 1 26 5 5 A H1' H 5.880 0.000 1 27 5 5 A H2 H 6.985 0.000 1 28 5 5 A H8 H 8.023 0.000 1 29 5 5 A C1' C 92.720 0.000 1 30 5 5 A C2 C 152.279 0.000 1 31 5 5 A C8 C 139.429 0.000 1 32 5 5 A N1 N 219.870 0.000 1 33 5 5 A N9 N 170.888 0.002 1 34 6 6 G H1 H 13.455 0.000 1 35 6 6 G H1' H 5.512 0.001 1 36 6 6 G H8 H 7.108 0.002 1 37 6 6 G C1' C 92.624 0.000 1 38 6 6 G C8 C 135.444 0.000 1 39 6 6 G N1 N 148.157 0.000 1 40 6 6 G N9 N 169.839 0.004 1 41 7 7 U H1' H 5.350 0.000 1 42 7 7 U H3 H 11.582 0.000 1 43 7 7 U H6 H 7.466 0.002 1 44 7 7 U C1' C 93.602 0.000 1 45 7 7 U C6 C 139.527 0.000 1 46 7 7 U N1 N 144.457 0.007 1 47 7 7 U N3 N 158.258 0.000 1 48 8 8 G H1' H 5.686 0.001 1 49 8 8 G H8 H 7.762 0.000 1 50 8 8 G C1' C 91.662 0.000 1 51 8 8 G C8 C 137.673 0.000 1 52 8 8 G N9 N 169.009 0.009 1 53 9 9 U H1' H 5.092 0.001 1 54 9 9 U H5 H 5.319 0.000 1 55 9 9 U H6 H 7.440 0.002 1 56 9 9 U C1' C 91.588 0.000 1 57 9 9 U C5 C 104.431 0.000 1 58 9 9 U C6 C 142.266 0.000 1 59 9 9 U N1 N 144.518 0.005 1 60 10 10 C H1' H 5.833 0.000 1 61 10 10 C H5 H 5.854 0.000 1 62 10 10 C H6 H 7.704 0.001 1 63 10 10 C C1' C 91.077 0.000 1 64 10 10 C C5 C 99.148 0.000 1 65 10 10 C C6 C 143.548 0.000 1 66 10 10 C N1 N 150.466 0.001 1 67 13 13 A H1' H 6.108 0.000 1 68 13 13 A H2 H 8.248 0.000 1 69 13 13 A H8 H 8.370 0.000 1 70 13 13 A C1' C 90.320 0.000 1 71 13 13 A C2 C 155.702 0.000 1 72 13 13 A C8 C 142.001 0.000 1 73 13 13 A N9 N 168.979 0.001 1 74 14 14 G H1 H 11.387 0.000 1 75 14 14 G H1' H 5.631 0.001 1 76 14 14 G H8 H 7.906 0.000 1 77 14 14 G C1' C 93.224 0.000 1 78 14 14 G C8 C 137.907 0.000 1 79 14 14 G N1 N 145.084 0.000 1 80 14 14 G N9 N 170.754 0.004 1 81 15 15 C H1' H 5.485 0.000 1 82 15 15 C H5 H 5.436 0.000 1 83 15 15 C H6 H 7.689 0.000 1 84 15 15 C H41 H 8.359 0.000 1 85 15 15 C H42 H 7.002 0.000 1 86 15 15 C C1' C 94.110 0.000 1 87 15 15 C C5 C 97.581 0.000 1 88 15 15 C C6 C 140.753 0.000 1 89 15 15 C N1 N 151.626 0.000 1 90 15 15 C N3 N 197.084 0.000 1 91 15 15 C N4 N 99.348 0.000 1 92 16 16 U H1' H 5.480 0.000 1 93 16 16 U H3 H 13.687 0.000 1 94 16 16 U H5 H 5.430 0.000 1 95 16 16 U H6 H 7.876 0.000 1 96 16 16 U C1' C 93.758 0.000 1 97 16 16 U C5 C 103.575 0.000 1 98 16 16 U C6 C 141.574 0.000 1 99 16 16 U N1 N 145.865 0.003 1 100 16 16 U N3 N 162.142 0.000 1 101 17 17 G H1 H 12.461 0.001 1 102 17 17 G H1' H 5.696 0.000 1 103 17 17 G H8 H 7.717 0.001 1 104 17 17 G C1' C 93.179 0.000 1 105 17 17 G C8 C 136.583 0.000 1 106 17 17 G N1 N 147.822 0.000 1 107 17 17 G N9 N 169.824 0.008 1 108 18 18 G H1' H 5.755 0.001 1 109 18 18 G H8 H 7.552 0.000 1 110 18 18 G C1' C 91.736 0.000 1 111 18 18 G C8 C 140.786 0.000 1 112 18 18 G N9 N 165.101 0.015 1 113 19 19 U H1' H 5.585 0.000 1 114 19 19 U H5 H 5.440 0.000 1 115 19 19 U H6 H 7.566 0.001 1 116 19 19 U C1' C 92.048 0.000 1 117 19 19 U C5 C 104.582 0.000 1 118 19 19 U C6 C 142.470 0.000 1 119 19 19 U N1 N 144.614 0.000 1 120 21 21 G H1' H 5.707 0.000 1 121 21 21 G H8 H 7.742 0.000 1 122 21 21 G C1' C 90.574 0.000 1 123 21 21 G C8 C 139.044 0.000 1 124 21 21 G N9 N 168.082 0.002 1 stop_ save_