1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Takase, N. 0000-0003-1480-2840 Kawai, G. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking C9 H14 N3 O8 P 323.197 y CYTIDINE-5'-MONOPHOSPHATE RNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking N 1 N O N 2 N P N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 R C N 12 N O N 13 R C Y 14 N N Y 15 N C Y 16 N N Y 17 N C Y 18 N C N 19 N N Y 20 N N Y 21 N C Y 22 N N Y 23 N C N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N O N 39 N P N 40 N O N 41 N O N 42 N O N 43 N C N 44 R C N 45 N O N 46 S C N 47 N O N 48 R C N 49 N O N 50 R C N 51 N N N 52 N C N 53 N O N 54 N N N 55 N C N 56 N N N 57 N C N 58 N C N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N O N 74 N P N 75 N O N 76 N O N 77 N O N 78 N C N 79 R C N 80 N O N 81 S C N 82 N O N 83 R C N 84 N O N 85 R C Y 86 N N Y 87 N C Y 88 N N Y 89 N C N 90 N C N 91 N O N 92 N N N 93 N C N 94 N N N 95 N N Y 96 N C N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N O N 112 N P N 113 N O N 114 N O N 115 N O N 116 N C N 117 R C N 118 N O N 119 S C N 120 N O N 121 R C N 122 N O N 123 R C N 124 N N N 125 N C N 126 N O N 127 N N N 128 N C N 129 N O N 130 N C N 131 N C N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 1 N sing N 2 N sing N 3 N doub N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing Y 25 N sing Y 26 N sing Y 27 N doub N 28 N sing Y 29 N sing Y 30 N sing Y 31 N doub N 32 N sing Y 33 N doub N 34 N sing N 35 N sing Y 36 N sing Y 37 N doub N 38 N sing Y 39 N sing N 40 N sing N 41 N sing N 42 N doub N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N doub N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N doub N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N doub N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing Y 100 N sing Y 101 N sing Y 102 N doub N 103 N sing Y 104 N sing N 105 N sing Y 106 N doub N 107 N doub N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N doub N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N doub N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N doub N 143 N sing N 144 N sing N 145 N sing N 146 N doub N 147 N sing N 148 N doub N 149 N sing N 150 N sing UK Rna RNARFU 2122 1469-9001 28 541 550 10.1261/rna.078967.121 34987083 T-hairpin structure found in the RNA element involved in piRNA biogenesis. 2022 10.2210/pdb7exy/pdb pdb_00007exy 10.13018/BMR36422 5077.007 RNA (5'-R(*UP*UP*GP*GP*UP*UP*UP*GP*AP*UP*UP*CP*CP*AP*AP*G)-3') 1 syn polymer no no UUGGUUUGAUUCCAAG UUGGUUUGAUUCCAAG A polyribonucleotide n n n n n n n n n n n n n n n n 2.389 1 20 A 17 A 31 -0.800 A_U17:A31_A 1 -15.654 0.300 -0.400 -0.274 16.591 1 20 A 18 A 30 0.732 A_U18:A30_A 2 -10.476 0.468 -0.893 -0.200 3.626 1 19 A 19 A 29 -6.054 A_G19:C29_A 3 -5.483 -0.871 0.248 -0.390 1.658 1 19 A 20 A 28 -1.187 A_G20:C28_A 4 5.238 0.232 0.286 -0.193 3.294 4 24 A 21 A 25 -98.535 A_U21:A25_A 5 23.992 4.295 0.321 -1.990 2.256 30.851 A A 17 18 26.194 A A 31 30 2.931 13.401 -0.162 -0.728 AA_U17U18:A30A31_AA 1 5.812 -11.360 27.248 -3.572 1.261 1.286 36.766 A A 18 19 43.145 A A 30 29 3.344 24.537 0.393 -1.484 AA_U18G19:C29A30_AA 2 -9.897 17.403 25.760 -5.175 -1.761 2.163 37.906 A A 19 20 26.508 A A 29 28 3.133 16.670 0.469 -1.553 AA_G19G20:C28C29_AA 3 -0.649 1.032 34.160 -4.218 -0.794 2.616 67.293 A A 20 21 15.921 A A 28 25 3.939 17.265 -2.434 -1.788 AA_G20U21:A25C28_AA 4 20.155 -18.587 62.413 -2.318 3.020 citation citation_author pdbx_database_status chem_comp_atom chem_comp_bond database_2 repository Initial release Database references Other Data collection Database references 1 0 2022-03-02 1 1 2022-03-30 1 2 2023-06-14 1 3 2024-05-15 _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID _pdbx_database_status.status_code_nmr_data _database_2.pdbx_DOI T-hairpin structure found in the RNA element involved in the piRNA biogenesis N PDBJ Y PDBJ 2021-05-29 REL REL REL REL 7227 Drosophila melanogaster sample 1 16 structures with the lowest energy 100 11 isotropic 1 2D 1H-1H NOESY isotropic 1 2D 1H-1H HOHAHA 0.3 mM None 20 mM sodium phosphate buffer (pH 6.5) with 50 mM NaCl 50 mM tj-17-32 6.5 pH 1 atm 298 K simulated annealing 1 minimized average structure 0.3 mM None RNA (5'-R(*UP*UP*GP*GP*UP*UP*UP*GP*AP*UP*UP*CP*CP*AP*AP*G)-3'), 95% H2O/5% D2O tj-17-32 95% H2O/5% D2O solution Goddard chemical shift assignment Sparky 3.114 Brunger, Adams, Clore, Gros, Nilges and Read structure calculation CNS 1.3 Goddard peak picking Sparky 3.114 600 Bruker AVANCE III U 17 n 1 U 17 A U 18 n 2 U 18 A G 19 n 3 G 19 A G 20 n 4 G 20 A U 21 n 5 U 21 A U 22 n 6 U 22 A U 23 n 7 U 23 A G 24 n 8 G 24 A A 25 n 9 A 25 A U 26 n 10 U 26 A U 27 n 11 U 27 A C 28 n 12 C 28 A C 29 n 13 C 29 A A 30 n 14 A 30 A A 31 n 15 A 31 A G 32 n 16 G 32 A author_defined_assembly 1 monomeric none 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 2 A A HO2' H42 A C 25 28 1.34 7 A A HO2' H42 A C 25 28 1.11 N T-hairpin structure found in the RNA element involved in the piRNA biogenesis 1 N N hydrog WATSON-CRICK A U 17 A N3 U 1 1_555 A A 31 A N1 A 15 1_555 hydrog WATSON-CRICK A U 17 A O4 U 1 1_555 A A 31 A N6 A 15 1_555 hydrog WATSON-CRICK A U 18 A N3 U 2 1_555 A A 30 A N1 A 14 1_555 hydrog WATSON-CRICK A U 18 A O4 U 2 1_555 A A 30 A N6 A 14 1_555 hydrog WATSON-CRICK A G 19 A N1 G 3 1_555 A C 29 A N3 C 13 1_555 hydrog WATSON-CRICK A G 19 A N2 G 3 1_555 A C 29 A O2 C 13 1_555 hydrog WATSON-CRICK A G 19 A O6 G 3 1_555 A C 29 A N4 C 13 1_555 hydrog WATSON-CRICK A G 20 A N1 G 4 1_555 A C 28 A N3 C 12 1_555 hydrog WATSON-CRICK A G 20 A N2 G 4 1_555 A C 28 A O2 C 12 1_555 hydrog WATSON-CRICK A G 20 A O6 G 4 1_555 A C 28 A N4 C 12 1_555 hydrog REVERSED HOOGSTEEN A U 21 A N3 U 5 1_555 A A 25 A N7 A 9 1_555 hydrog REVERSED HOOGSTEEN A U 21 A O2 U 5 1_555 A A 25 A N6 A 9 1_555 hydrog U-A PAIR A U 27 A O4 U 11 1_555 A A 31 A N6 A 15 1_555 RNA piRNA, cis element, RNA 7EXY PDB 1 1 7EXY 17 32 7EXY 17 32 7EXY A 1 1 16