1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Gerdeman, M.S. Henkin, T.M. Hines, J.V. 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 UK J.Mol.Biol. JMOBAK 0070 0022-2836 326 189 201 10.1016/S0022-2836(02)01339-6 12547201 Solution Structure of the Bacillus subtilis T-box Antiterminator RNA: Seven Nucleotide Bulge Characterized by Stacking and Flexibility 2003 10.2210/pdb1n53/pdb pdb_00001n53 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 5231.199 RNA (5'-R(*GP*AP*GP*GP*GP*UP*GP*GP*AP*AP*CP*CP*GP*CP*GP*C)-3') 1 syn polymer 2783.695 RNA (5'-R(*GP*CP*GP*UP*CP*CP*CP*UP*C)-3') 1 syn polymer no no GAGGGUGGAACCGCGC GAGGGUGGAACCGCGC A polyribonucleotide no no GCGUCCCUC GCGUCCCUC B polyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n n -11.901 1 19 A 1 B 25 -2.695 A_G1:C25_B 1 -20.552 -0.288 0.133 -0.307 9.317 1 20 A 2 B 24 -9.379 A_A2:U24_B 2 -13.270 0.377 0.971 -0.392 30.482 1 19 A 3 B 23 -7.357 A_G3:C23_B 3 -12.115 -0.039 1.123 -0.282 19.614 1 19 A 4 B 22 3.773 A_G4:C22_B 4 -23.793 -0.402 0.365 -0.344 5.661 28 A 13 B 20 -10.426 A_G13:U20_B 5 18.261 -2.796 -0.707 -0.911 18.152 1 19 A 14 B 19 -0.626 A_C14:G19_B 6 -18.539 0.395 -0.706 -0.313 -18.243 1 19 A 15 B 18 -5.713 A_G15:C18_B 7 -5.614 0.717 -2.267 -1.341 -25.722 1 19 A 16 B 17 -1.969 A_C16:G17_B 8 11.869 0.379 0.600 -0.231 2.747 34.364 A A 1 2 -6.524 B B 25 24 2.568 -3.811 -0.832 -0.662 AA_G1A2:U24C25_BB 1 -8.268 14.153 33.171 -0.627 0.338 2.623 43.441 A A 2 3 -37.366 B B 24 23 3.201 -25.957 0.661 -0.047 AA_A2G3:C23U24_BB 2 -0.933 1.343 35.126 2.445 -0.984 3.736 38.639 A A 3 4 20.671 B B 23 22 3.728 13.315 1.420 0.047 AA_G3G4:C22C23_BB 3 8.127 -12.616 35.461 -1.888 -0.950 3.864 32.602 A A 13 14 -19.046 B B 20 19 3.504 -10.493 0.565 -1.589 AA_G13C14:G19U20_BB 4 3.352 -6.084 30.733 -0.710 -0.329 4.179 45.943 A A 14 15 29.744 B B 19 18 4.815 22.212 0.961 -0.367 AA_C14G15:C18G19_BB 5 8.025 -10.746 39.693 -3.328 -0.198 2.858 40.940 A A 15 16 38.587 B B 18 17 3.909 24.573 -0.692 -0.415 AA_G15C16:G17C18_BB 6 -14.514 22.790 29.664 -3.870 -0.945 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2003-04-29 1 1 2008-04-28 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name RCSB Y RCSB 2002-11-04 REL REL Synthesized using T7 RNA polymerase sample Synthesized using T7 RNA polymerase sample This structure was determined using standard 2D and 3D homonuclear and heteronuclear NMR techniques. The minimized average structure of the 9 lowest energy structures (all with favorable non-bond energy and the fewest number of constraint violations) is submitted. 50 1 2D NOESY 2D TOCSY DQF-COSY 3D_13C-separated_NOESY 2D_HSQC 2D_1H_31P_HETCOR 10 mM 6.5 ambient 295 K 10 mM 6.5 ambient 277 K A total of 313 distance constraints and 59 dihedral angle constraints were used. distance geometry, simulated annealing, molecular dynamics 1 0.7 mM (U-15N, U-13C) or 1.2 mM (unlabeled) T box model RNA (AM1A); 10 mM sodium phosphate buffer pH 6.5, 0.01 mM EDTA 100% D2O 0.7 mM (U-15N, U-13C) or 1.2 mM (unlabeled) T box model RNA (AM1A); 10 mM sodium phosphate buffer pH 6.5, 0.01 mM EDTA 90% H2O/10% D2O processing Felix 95,98 Brunger structure solution X-PLOR 98.1 processing XwinNMR Brunger refinement X-PLOR 98.1 800 Bruker DRX 400 Bruker DMX 600 Bruker DMX G 1 n 1 G 1 A A 2 n 2 A 2 A G 3 n 3 G 3 A G 4 n 4 G 4 A G 5 n 5 G 5 A U 6 n 6 U 6 A G 7 n 7 G 7 A G 8 n 8 G 8 A A 9 n 9 A 9 A A 10 n 10 A 10 A C 11 n 11 C 11 A C 12 n 12 C 12 A G 13 n 13 G 13 A C 14 n 14 C 14 A G 15 n 15 G 15 A C 16 n 16 C 16 A G 17 n 1 G 17 B C 18 n 2 C 18 B G 19 n 3 G 19 B U 20 n 4 U 20 B C 21 n 5 C 21 B C 22 n 6 C 22 B C 23 n 7 C 23 B U 24 n 8 U 24 B C 25 n 9 C 25 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 A HO2' O5' G G 7 8 1.42 1 B B HO2' O4' C U 23 24 1.51 1 A B H62 O2' A C 9 21 1.55 1 A A H2' O4' G C 13 14 1.58 SOLUTION STRUCTURE OF B. SUBTILIS T BOX ANTITERMINATOR RNA 1 N N 2 N N hydrog WATSON-CRICK A G 1 A N1 G 1 1_555 B C 25 B N3 C 9 1_555 hydrog WATSON-CRICK A G 1 A N2 G 1 1_555 B C 25 B O2 C 9 1_555 hydrog WATSON-CRICK A G 1 A O6 G 1 1_555 B C 25 B N4 C 9 1_555 hydrog WATSON-CRICK A A 2 A N1 A 2 1_555 B U 24 B N3 U 8 1_555 hydrog WATSON-CRICK A A 2 A N6 A 2 1_555 B U 24 B O4 U 8 1_555 hydrog WATSON-CRICK A G 3 A N1 G 3 1_555 B C 23 B N3 C 7 1_555 hydrog WATSON-CRICK A G 3 A N2 G 3 1_555 B C 23 B O2 C 7 1_555 hydrog WATSON-CRICK A G 3 A O6 G 3 1_555 B C 23 B N4 C 7 1_555 hydrog WATSON-CRICK A G 4 A N1 G 4 1_555 B C 22 B N3 C 6 1_555 hydrog WATSON-CRICK A G 4 A N2 G 4 1_555 B C 22 B O2 C 6 1_555 hydrog WATSON-CRICK A G 4 A O6 G 4 1_555 B C 22 B N4 C 6 1_555 hydrog TYPE_28_PAIR A G 13 A N1 G 13 1_555 B U 20 B O2 U 4 1_555 hydrog TYPE_28_PAIR A G 13 A O6 G 13 1_555 B U 20 B N3 U 4 1_555 hydrog WATSON-CRICK A C 14 A N3 C 14 1_555 B G 19 B N1 G 3 1_555 hydrog WATSON-CRICK A C 14 A N4 C 14 1_555 B G 19 B O6 G 3 1_555 hydrog WATSON-CRICK A C 14 A O2 C 14 1_555 B G 19 B N2 G 3 1_555 hydrog WATSON-CRICK A G 15 A N1 G 15 1_555 B C 18 B N3 C 2 1_555 hydrog WATSON-CRICK A G 15 A N2 G 15 1_555 B C 18 B O2 C 2 1_555 hydrog WATSON-CRICK A G 15 A O6 G 15 1_555 B C 18 B N4 C 2 1_555 hydrog WATSON-CRICK A C 16 A N3 C 16 1_555 B G 17 B N1 G 1 1_555 hydrog WATSON-CRICK A C 16 A N4 C 16 1_555 B G 17 B O6 G 1 1_555 hydrog WATSON-CRICK A C 16 A O2 C 16 1_555 B G 17 B N2 G 1 1_555 RNA RNA, T box, bulge 1N53 PDB 1 1N53 1N53 PDB 2 1N53 1 16 1N53 1 16 1N53 A 1 1 16 17 25 1N53 17 25 1N53 B 2 1 9 1 P 1