1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Luebke, K.J. Landry, S.M. Tinoco Junior, I. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 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 Berkeley : University of California, Berkeley (Thesis) US Biochemistry BICHAW 0033 0006-2960 36 10246 10255 10.1021/bi9701540 9254623 Solution conformation of a five-nucleotide RNA bulge loop from a group I intron. 1997 10.2210/pdb1ajt/pdb pdb_00001ajt 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 3836.344 RNA (5'-R(*GP*GP*UP*AP*AP*UP*AP*AP*GP*CP*UP*C)-3') 1 syn polymer 2220.395 RNA (5'-R(*GP*AP*GP*UP*AP*CP*C)-3') 1 syn polymer no no GGUAAUAAGCUC GGUAAUAAGCUC A polyribonucleotide no no GAGUACC GAGUACC B polyribonucleotide n n n n n n n n n n n n n n n n n n n 25.736 1 19 A 2 B 24 8.013 A_G2:C24_B 1 -22.649 -0.578 -0.097 -0.463 -2.209 1 19 A 3 B 23 6.016 A_G3:C23_B 2 -26.603 -0.635 -0.635 -0.505 5.285 A 4 B 22 0.263 A_U4:A22_B 3 -16.998 4.459 0.025 -0.995 36.199 1 28 A 10 B 21 6.087 A_G10:U21_B 4 8.297 -2.407 -0.449 -0.426 42.663 1 19 A 11 B 20 -4.727 A_C11:G20_B 5 -23.155 0.234 -0.536 -0.172 20.394 1 20 A 12 B 19 -9.375 A_U12:A19_B 6 -10.528 -0.021 -0.443 -0.049 22.605 1 19 A 13 B 18 -2.922 A_C13:G18_B 7 -20.115 0.513 -0.444 -0.329 3.273 45.877 A A 2 3 44.409 B B 24 23 4.107 31.653 -1.329 0.310 AA_G2G3:C23C24_BB 1 -0.569 0.799 33.639 -3.241 1.640 2.915 54.172 A A 3 4 8.337 B B 23 22 2.964 7.569 0.991 0.072 AA_G3U4:A22C23_BB 2 -1.913 2.107 53.649 -0.341 -1.194 2.897 43.472 A A 10 11 26.279 B B 21 20 3.420 18.861 -1.877 -0.204 AA_G10C11:G20U21_BB 3 2.859 -3.983 39.247 -2.140 2.817 2.364 42.256 A A 11 12 40.925 B B 20 19 3.920 27.311 -1.243 -1.138 AA_C11U12:A19G20_BB 4 -1.175 1.760 32.535 -4.663 1.591 2.792 40.954 A A 12 13 18.948 B B 19 18 3.046 13.027 1.414 -0.722 AA_U12C13:G18A19_BB 5 3.790 -5.513 38.733 -2.342 -1.639 database_2 pdbx_database_status pdbx_struct_assembly pdbx_struct_oper_list chem_comp_atom chem_comp_bond repository Initial release Version format compliance Version format compliance Database references Derived calculations Other Data collection 1 0 1997-08-20 1 1 2008-03-24 1 2 2011-07-13 1 3 2022-02-16 1 4 2024-05-22 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site 1 STRUCTURE Y BNL 1997-05-08 REL REL LEAST RESTRAINT VIOLATION 20 1 NOESY DQF-COSY HMQC TOCSY TOCSY-NOESY H-P CORRELATED 6.7 298 K RESTRAINED MOLECULAR DYNAMICS BRUNGER refinement X-PLOR 2.2 structure solution FELIX230 structure solution X-PLOR2.2 300 Bruker AMX300 500 Bruker AMX600 500 GE GN500 G 2 n 1 G 2 A G 3 n 2 G 3 A U 4 n 3 U 4 A A 5 n 4 A 5 A A 6 n 5 A 6 A U 7 n 6 U 7 A A 8 n 7 A 8 A A 9 n 8 A 9 A G 10 n 9 G 10 A C 11 n 10 C 11 A U 12 n 11 U 12 A C 13 n 12 C 13 A G 18 n 1 G 18 B A 19 n 2 A 19 B G 20 n 3 G 20 B U 21 n 4 U 21 B A 22 n 5 A 22 B C 23 n 6 C 23 B C 24 n 7 C 24 B author_defined_assembly 2 dimeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 1 A B O2 H61 U A 4 22 1.54 1 A A HO2' OP2 A G 9 10 1.56 1 A B H41 O6 C G 11 20 1.59 model building X-PLOR refinement X-PLOR phasing X-PLOR FIVE-NUCLEOTIDE BULGE LOOP FROM TETRAHYMENA THERMOPHILA GROUP I INTRON, NMR, 1 STRUCTURE 1 N N 2 N N hydrog WATSON-CRICK A G 2 A N1 G 1 1_555 B C 24 B N3 C 7 1_555 hydrog WATSON-CRICK A G 2 A N2 G 1 1_555 B C 24 B O2 C 7 1_555 hydrog WATSON-CRICK A G 2 A O6 G 1 1_555 B C 24 B N4 C 7 1_555 hydrog WATSON-CRICK A G 3 A N1 G 2 1_555 B C 23 B N3 C 6 1_555 hydrog WATSON-CRICK A G 3 A N2 G 2 1_555 B C 23 B O2 C 6 1_555 hydrog WATSON-CRICK A G 3 A O6 G 2 1_555 B C 23 B N4 C 6 1_555 hydrog U-A PAIR A U 4 A O2 U 3 1_555 B A 22 B N6 A 5 1_555 hydrog TYPE_28_PAIR A G 10 A N1 G 9 1_555 B U 21 B O2 U 4 1_555 hydrog TYPE_28_PAIR A G 10 A O6 G 9 1_555 B U 21 B N3 U 4 1_555 hydrog WATSON-CRICK A C 11 A N3 C 10 1_555 B G 20 B N1 G 3 1_555 hydrog WATSON-CRICK A C 11 A N4 C 10 1_555 B G 20 B O6 G 3 1_555 hydrog WATSON-CRICK A C 11 A O2 C 10 1_555 B G 20 B N2 G 3 1_555 hydrog WATSON-CRICK A U 12 A N3 U 11 1_555 B A 19 B N1 A 2 1_555 hydrog WATSON-CRICK A U 12 A O4 U 11 1_555 B A 19 B N6 A 2 1_555 hydrog WATSON-CRICK A C 13 A N3 C 12 1_555 B G 18 B N1 G 1 1_555 hydrog WATSON-CRICK A C 13 A N4 C 12 1_555 B G 18 B O6 G 1 1_555 hydrog WATSON-CRICK A C 13 A O2 C 12 1_555 B G 18 B N2 G 1 1_555 RNA RNA BULGE LOOP, GROUP I INTRON, RIBONUCLEIC ACID, RNA 1AJT PDB 1 1AJT 1AJT PDB 2 1AJT 2 13 1AJT 2 13 1AJT A 1 1 12 18 24 1AJT 18 24 1AJT B 2 1 7 1 P 1