1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Du, Z. Lind, K.E. James, T.L. 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 C19 H22 N2 O S 326.456 1-[10-(3-DIMETHYLAMINO-PROPYL)-10H-PHENOTHIAZIN-2-YL]-ETHANONE ACETYLPROMAZINE non-polymer C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking UK CHEM.BIOL. CBOLE2 2050 1074-5521 9 707 712 10.1016/S1074-5521(02)00151-5 12079782 Structure of TAR RNA complexed with a Tat-TAR interaction nanomolar inhibitor that was identified by computational screening 2002 10.2210/pdb1lvj/pdb pdb_00001lvj 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 9957.942 HIV-1 Trans Activating Region RNA 1 man polymer 326.456 1-[10-(3-DIMETHYLAMINO-PROPYL)-10H-PHENOTHIAZIN-2-YL]-ETHANONE 1 syn non-polymer no no GGCCAGAUCUGAGCCUGGGAGCUCUCUGGCC GGCCAGAUCUGAGCCUGGGAGCUCUCUGGCC A 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 n n n n n n Lentivirus sample IN Vitro Transcription 11676 Human immunodeficiency virus 1 -7.798 1 19 A 16 A 46 -4.616 A_G16:C46_A 1 3.595 -1.123 -0.423 -0.312 -6.133 1 19 A 17 A 45 -3.947 A_G17:C45_A 2 4.266 0.590 -0.523 -0.208 -4.141 1 19 A 18 A 44 -4.461 A_C18:G44_A 3 -4.977 -0.618 0.239 -0.168 9.651 1 19 A 19 A 43 -0.215 A_C19:G43_A 4 -2.419 -0.606 -0.204 -0.007 9.535 1 20 A 20 A 42 -7.010 A_A20:U42_A 5 -3.360 -0.733 -0.056 -0.090 16.382 1 19 A 21 A 41 -1.276 A_G21:C41_A 6 -4.252 -0.701 0.180 -0.420 12.704 1 20 A 22 A 40 10.841 A_A22:U40_A 7 0.667 0.171 0.383 -0.101 -20.289 1 19 A 26 A 39 5.578 A_G26:C39_A 8 2.626 -1.555 -0.212 -0.510 -2.255 1 20 A 27 A 38 -11.993 A_A27:U38_A 9 -1.569 0.286 -0.537 0.101 -6.649 1 19 A 28 A 37 -4.211 A_G28:C37_A 10 -2.438 -0.396 -0.293 -0.251 2.976 1 19 A 29 A 36 -3.625 A_C29:G36_A 11 0.622 1.105 -0.565 -0.289 4.167 36.378 A A 16 17 5.326 A A 46 45 4.235 3.320 -0.347 -0.622 AA_G16G17:C45C46_AA 1 -0.389 0.624 36.229 -1.591 0.486 2.885 30.528 A A 17 18 25.534 A A 45 44 3.763 13.017 -0.071 -1.258 AA_G17C18:G44C45_AA 2 -2.474 4.853 27.564 -5.160 -0.392 3.573 30.655 A A 18 19 -6.895 A A 44 43 3.523 -3.635 0.040 -0.669 AA_C18C19:G43G44_AA 3 1.903 -3.610 30.386 -0.485 0.334 4.358 29.998 A A 19 20 -13.953 A A 43 42 4.308 -7.153 -0.409 -0.664 AA_C19A20:U42G43_AA 4 -1.388 2.708 29.120 0.699 0.405 3.936 31.524 A A 20 21 -15.928 A A 42 41 3.900 -8.544 0.564 -0.828 AA_A20G21:C41U42_AA 5 -2.034 3.791 30.306 0.422 -1.502 2.975 43.689 A A 21 22 14.790 A A 41 40 3.334 10.901 1.821 -1.125 AA_G21A22:U40C41_AA 6 0.116 -0.157 42.371 -2.535 -2.436 2.354 30.881 A A 26 27 4.422 A A 39 38 2.630 2.345 -0.913 -1.611 AA_G26A27:U38C39_AA 7 4.317 -8.139 30.497 -3.375 2.357 2.553 31.664 A A 27 28 27.593 A A 38 37 3.759 14.507 0.673 -1.672 AA_A27G28:C37U38_AA 8 -2.185 4.157 28.138 -5.810 -1.647 2.840 45.114 A A 28 29 12.271 A A 37 36 3.024 9.342 1.057 -1.031 AA_G28C29:G36C37_AA 9 3.984 -5.234 44.014 -2.104 -1.053 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2002-12-11 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 _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2002-05-28 REL PMZ 1-[10-(3-DIMETHYLAMINO-PROPYL)-10H-PHENOTHIAZIN-2-YL]-ETHANONE least violations and lowest energy 12 12 2D NOESY, 3D 13C-seperated NOESY, 3D 15N-seperated NOESY 30 mM 6.5 ambient 308 K The structure was determined by multidimentional heteronuclear NMR spectroscopy on a unlabeled, a 15N,13C-labeled sample and three type-specific (A,G or C) labeled samples. simulated annealing starting from random coordinates 1 lowest energy 10 mM sodium phosphate (pH 6.5), 20mM sodium Chloride 90% H2O, 10% D2O or 100% H2O Guntert structure solution DYANA 1.6 Pearlman et al. refinement Amber 6.0 Goddard data analysis Sparky 3.0 600 Varian INOVA ACP 47 2 PMZ PMZ 47 A G 16 n 1 G 16 A G 17 n 2 G 17 A C 18 n 3 C 18 A C 19 n 4 C 19 A A 20 n 5 A 20 A G 21 n 6 G 21 A A 22 n 7 A 22 A U 23 n 8 U 23 A C 24 n 9 C 24 A U 25 n 10 U 25 A G 26 n 11 G 26 A A 27 n 12 A 27 A G 28 n 13 G 28 A C 29 n 14 C 29 A C 30 n 15 C 30 A U 31 n 16 U 31 A G 32 n 17 G 32 A G 33 n 18 G 33 A G 34 n 19 G 34 A A 35 n 20 A 35 A G 36 n 21 G 36 A C 37 n 22 C 37 A U 38 n 23 U 38 A C 39 n 24 C 39 A U 40 n 25 U 40 A C 41 n 26 C 41 A U 42 n 27 U 42 A G 43 n 28 G 43 A G 44 n 29 G 44 A C 45 n 30 C 45 A C 46 n 31 C 46 A author_defined_assembly 1 monomeric 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 O2' H8 A G 35 36 1.47 1 A A O2' H5'' C U 30 31 1.52 1 A A O2' H5' G G 33 34 1.58 2 A A O2' H8 A G 35 36 1.50 3 A A O2' H5' C C 29 30 1.52 3 A A OP2 H3' C U 24 25 1.59 4 A A HO2' O2' U U 23 25 1.43 4 A A O2' H42 A C 22 24 1.59 4 A A O2' O2' U U 23 25 2.11 5 A A O2' H42 A C 22 24 1.49 5 A A OP2 H1 G G 32 34 1.56 5 A A OP2 H22 G G 33 34 1.57 5 A A O2' O2' U U 23 25 2.19 6 A A O2' H5' A G 35 36 1.46 6 A A OP2 H5'' G G 33 34 1.57 6 A A O2' H5' C C 45 46 1.59 7 A A H41 O2 C C 24 41 1.49 7 A A O2' H5' C U 24 25 1.54 7 A A O2' H5' C C 45 46 1.56 7 A A O2' H8 A G 35 36 1.57 8 A A O3' H8 G A 34 35 1.50 8 A A O2' O2' U U 23 25 2.16 9 A A O3' H8 G G 32 33 1.39 9 A A H22 O5' G G 34 36 1.40 9 A A O2' H5' C U 24 25 1.48 9 A A O2' H3' G A 34 35 1.51 10 A A O2' H5' C U 24 25 1.53 11 A A O2 H5 C C 29 30 1.46 11 A A HO2' OP2 A G 35 36 1.59 9 A U 40 0.096 SIDE CHAIN 11 A U 40 0.111 SIDE CHAIN 1 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 16 16 16 N 1 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 16 16 16 N 1 4.57 0.50 113.10 117.67 A A A N7 C8 N9 G G G 17 17 17 N 1 -2.75 0.40 106.40 103.65 A A A C8 N9 C4 G G G 17 17 17 N 1 3.75 0.50 113.80 117.55 A A A N7 C8 N9 A A A 20 20 20 N 1 4.57 0.50 113.10 117.67 A A A N7 C8 N9 G G G 21 21 21 N 1 -2.68 0.40 106.40 103.72 A A A C8 N9 C4 G G G 21 21 21 N 1 3.47 0.50 113.80 117.27 A A A N7 C8 N9 A A A 22 22 22 N 1 4.53 0.50 113.10 117.63 A A A N7 C8 N9 G G G 26 26 26 N 1 -2.62 0.40 106.40 103.78 A A A C8 N9 C4 G G G 26 26 26 N 1 3.82 0.50 113.80 117.62 A A A N7 C8 N9 A A A 27 27 27 N 1 -2.53 0.40 105.80 103.27 A A A C8 N9 C4 A A A 27 27 27 N 1 4.57 0.50 113.10 117.67 A A A N7 C8 N9 G G G 28 28 28 N 1 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 28 28 28 N 1 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 32 32 32 N 1 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 32 32 32 N 1 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 33 33 33 N 1 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 33 33 33 N 1 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 34 34 34 N 1 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 34 34 34 N 1 3.70 0.50 113.80 117.50 A A A N7 C8 N9 A A A 35 35 35 N 1 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 36 36 36 N 1 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 36 36 36 N 1 4.51 0.50 113.10 117.61 A A A N7 C8 N9 G G G 43 43 43 N 1 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 43 43 43 N 1 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 44 44 44 N 1 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 44 44 44 N 2 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 16 16 16 N 2 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 16 16 16 N 2 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 17 17 17 N 2 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 17 17 17 N 2 3.91 0.50 113.80 117.71 A A A N7 C8 N9 A A A 20 20 20 N 2 -2.45 0.40 105.80 103.35 A A A C8 N9 C4 A A A 20 20 20 N 2 4.50 0.50 113.10 117.60 A A A N7 C8 N9 G G G 21 21 21 N 2 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 21 21 21 N 2 3.36 0.50 113.80 117.16 A A A N7 C8 N9 A A A 22 22 22 N 2 4.51 0.50 113.10 117.61 A A A N7 C8 N9 G G G 26 26 26 N 2 -2.63 0.40 106.40 103.77 A A A C8 N9 C4 G G G 26 26 26 N 2 3.84 0.50 113.80 117.64 A A A N7 C8 N9 A A A 27 27 27 N 2 -2.43 0.40 105.80 103.37 A A A C8 N9 C4 A A A 27 27 27 N 2 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 28 28 28 N 2 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 28 28 28 N 2 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 32 32 32 N 2 -2.77 0.40 106.40 103.63 A A A C8 N9 C4 G G G 32 32 32 N 2 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 33 33 33 N 2 -2.84 0.40 106.40 103.56 A A A C8 N9 C4 G G G 33 33 33 N 2 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 34 34 34 N 2 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 34 34 34 N 2 3.72 0.50 113.80 117.52 A A A N7 C8 N9 A A A 35 35 35 N 2 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 36 36 36 N 2 -2.84 0.40 106.40 103.56 A A A C8 N9 C4 G G G 36 36 36 N 2 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 43 43 43 N 2 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 43 43 43 N 2 4.56 0.50 113.10 117.66 A A A N7 C8 N9 G G G 44 44 44 N 2 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 44 44 44 N 3 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 16 16 16 N 3 -2.89 0.40 106.40 103.51 A A A C8 N9 C4 G G G 16 16 16 N 3 4.66 0.50 113.10 117.76 A A A N7 C8 N9 G G G 17 17 17 N 3 -2.87 0.40 106.40 103.53 A A A C8 N9 C4 G G G 17 17 17 N 3 3.86 0.50 113.80 117.66 A A A N7 C8 N9 A A A 20 20 20 N 3 4.56 0.50 113.10 117.66 A A A N7 C8 N9 G G G 21 21 21 N 3 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 21 21 21 N 3 3.59 0.50 113.80 117.39 A A A N7 C8 N9 A A A 22 22 22 N 3 -2.40 0.40 105.80 103.40 A A A C8 N9 C4 A A A 22 22 22 N 3 4.46 0.50 113.10 117.56 A A A N7 C8 N9 G G G 26 26 26 N 3 -2.59 0.40 106.40 103.81 A A A C8 N9 C4 G G G 26 26 26 N 3 3.76 0.50 113.80 117.56 A A A N7 C8 N9 A A A 27 27 27 N 3 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 28 28 28 N 3 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 28 28 28 N 3 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 32 32 32 N 3 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 32 32 32 N 3 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 33 33 33 N 3 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 33 33 33 N 3 4.56 0.50 113.10 117.66 A A A N7 C8 N9 G G G 34 34 34 N 3 -2.77 0.40 106.40 103.63 A A A C8 N9 C4 G G G 34 34 34 N 3 3.80 0.50 113.80 117.60 A A A N7 C8 N9 A A A 35 35 35 N 3 -2.41 0.40 105.80 103.39 A A A C8 N9 C4 A A A 35 35 35 N 3 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 36 36 36 N 3 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 36 36 36 N 3 4.54 0.50 113.10 117.64 A A A N7 C8 N9 G G G 43 43 43 N 3 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 43 43 43 N 3 4.51 0.50 113.10 117.61 A A A N7 C8 N9 G G G 44 44 44 N 3 -2.74 0.40 106.40 103.66 A A A C8 N9 C4 G G G 44 44 44 N 4 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 16 16 16 N 4 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 16 16 16 N 4 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 17 17 17 N 4 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 17 17 17 N 4 3.84 0.50 113.80 117.64 A A A N7 C8 N9 A A A 20 20 20 N 4 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 21 21 21 N 4 -2.74 0.40 106.40 103.66 A A A C8 N9 C4 G G G 21 21 21 N 4 3.34 0.50 113.80 117.14 A A A N7 C8 N9 A A A 22 22 22 N 4 4.28 0.50 113.10 117.38 A A A N7 C8 N9 G G G 26 26 26 N 4 -2.51 0.40 106.40 103.89 A A A C8 N9 C4 G G G 26 26 26 N 4 3.86 0.50 113.80 117.66 A A A N7 C8 N9 A A A 27 27 27 N 4 -2.46 0.40 105.80 103.34 A A A C8 N9 C4 A A A 27 27 27 N 4 4.60 0.50 113.10 117.70 A A A N7 C8 N9 G G G 28 28 28 N 4 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 28 28 28 N 4 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 32 32 32 N 4 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 32 32 32 N 4 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 33 33 33 N 4 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 33 33 33 N 4 4.69 0.50 113.10 117.79 A A A N7 C8 N9 G G G 34 34 34 N 4 -2.88 0.40 106.40 103.52 A A A C8 N9 C4 G G G 34 34 34 N 4 3.77 0.50 113.80 117.57 A A A N7 C8 N9 A A A 35 35 35 N 4 -2.41 0.40 105.80 103.39 A A A C8 N9 C4 A A A 35 35 35 N 4 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 36 36 36 N 4 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 36 36 36 N 4 4.68 0.50 113.10 117.78 A A A N7 C8 N9 G G G 43 43 43 N 4 -2.87 0.40 106.40 103.53 A A A C8 N9 C4 G G G 43 43 43 N 4 4.54 0.50 113.10 117.64 A A A N7 C8 N9 G G G 44 44 44 N 4 -2.77 0.40 106.40 103.63 A A A C8 N9 C4 G G G 44 44 44 N 5 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 16 16 16 N 5 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 16 16 16 N 5 4.57 0.50 113.10 117.67 A A A N7 C8 N9 G G G 17 17 17 N 5 -2.74 0.40 106.40 103.66 A A A C8 N9 C4 G G G 17 17 17 N 5 3.85 0.50 113.80 117.65 A A A N7 C8 N9 A A A 20 20 20 N 5 -2.40 0.40 105.80 103.40 A A A C8 N9 C4 A A A 20 20 20 N 5 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 21 21 21 N 5 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 21 21 21 N 5 3.57 0.50 113.80 117.37 A A A N7 C8 N9 A A A 22 22 22 N 5 4.45 0.50 113.10 117.55 A A A N7 C8 N9 G G G 26 26 26 N 5 -2.65 0.40 106.40 103.75 A A A C8 N9 C4 G G G 26 26 26 N 5 3.88 0.50 113.80 117.68 A A A N7 C8 N9 A A A 27 27 27 N 5 -2.48 0.40 105.80 103.32 A A A C8 N9 C4 A A A 27 27 27 N 5 4.51 0.50 113.10 117.61 A A A N7 C8 N9 G G G 28 28 28 N 5 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 28 28 28 N 5 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 32 32 32 N 5 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 32 32 32 N 5 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 33 33 33 N 5 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 33 33 33 N 5 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 34 34 34 N 5 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 34 34 34 N 5 3.75 0.50 113.80 117.55 A A A N7 C8 N9 A A A 35 35 35 N 5 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 36 36 36 N 5 -2.84 0.40 106.40 103.56 A A A C8 N9 C4 G G G 36 36 36 N 5 4.70 0.50 113.10 117.80 A A A N7 C8 N9 G G G 43 43 43 N 5 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 43 43 43 N 5 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 44 44 44 N 5 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 44 44 44 N 6 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 16 16 16 N 6 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 16 16 16 N 6 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 17 17 17 N 6 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 17 17 17 N 6 3.84 0.50 113.80 117.64 A A A N7 C8 N9 A A A 20 20 20 N 6 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 21 21 21 N 6 -2.73 0.40 106.40 103.67 A A A C8 N9 C4 G G G 21 21 21 N 6 3.48 0.50 113.80 117.28 A A A N7 C8 N9 A A A 22 22 22 N 6 4.42 0.50 113.10 117.52 A A A N7 C8 N9 G G G 26 26 26 N 6 -2.50 0.40 106.40 103.90 A A A C8 N9 C4 G G G 26 26 26 N 6 3.81 0.50 113.80 117.61 A A A N7 C8 N9 A A A 27 27 27 N 6 -2.45 0.40 105.80 103.35 A A A C8 N9 C4 A A A 27 27 27 N 6 4.66 0.50 113.10 117.76 A A A N7 C8 N9 G G G 28 28 28 N 6 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 28 28 28 N 6 4.69 0.50 113.10 117.79 A A A N7 C8 N9 G G G 32 32 32 N 6 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 32 32 32 N 6 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 33 33 33 N 6 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 33 33 33 N 6 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 34 34 34 N 6 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 34 34 34 N 6 3.91 0.50 113.80 117.71 A A A N7 C8 N9 A A A 35 35 35 N 6 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 36 36 36 N 6 -2.91 0.40 106.40 103.49 A A A C8 N9 C4 G G G 36 36 36 N 6 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 43 43 43 N 6 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 43 43 43 N 6 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 44 44 44 N 6 -2.74 0.40 106.40 103.66 A A A C8 N9 C4 G G G 44 44 44 N 7 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 16 16 16 N 7 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 16 16 16 N 7 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 17 17 17 N 7 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 17 17 17 N 7 3.79 0.50 113.80 117.59 A A A N7 C8 N9 A A A 20 20 20 N 7 4.49 0.50 113.10 117.59 A A A N7 C8 N9 G G G 21 21 21 N 7 -2.67 0.40 106.40 103.73 A A A C8 N9 C4 G G G 21 21 21 N 7 3.35 0.50 113.80 117.15 A A A N7 C8 N9 A A A 22 22 22 N 7 4.37 0.50 113.10 117.47 A A A N7 C8 N9 G G G 26 26 26 N 7 -2.47 0.40 106.40 103.93 A A A C8 N9 C4 G G G 26 26 26 N 7 3.75 0.50 113.80 117.55 A A A N7 C8 N9 A A A 27 27 27 N 7 -2.40 0.40 105.80 103.40 A A A C8 N9 C4 A A A 27 27 27 N 7 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 28 28 28 N 7 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 28 28 28 N 7 4.68 0.50 113.10 117.78 A A A N7 C8 N9 G G G 32 32 32 N 7 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 32 32 32 N 7 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 33 33 33 N 7 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 33 33 33 N 7 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 34 34 34 N 7 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 34 34 34 N 7 3.77 0.50 113.80 117.57 A A A N7 C8 N9 A A A 35 35 35 N 7 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 36 36 36 N 7 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 36 36 36 N 7 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 43 43 43 N 7 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 43 43 43 N 7 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 44 44 44 N 7 -2.75 0.40 106.40 103.65 A A A C8 N9 C4 G G G 44 44 44 N 8 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 16 16 16 N 8 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 16 16 16 N 8 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 17 17 17 N 8 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 17 17 17 N 8 3.83 0.50 113.80 117.63 A A A N7 C8 N9 A A A 20 20 20 N 8 4.49 0.50 113.10 117.59 A A A N7 C8 N9 G G G 21 21 21 N 8 -2.68 0.40 106.40 103.72 A A A C8 N9 C4 G G G 21 21 21 N 8 3.52 0.50 113.80 117.32 A A A N7 C8 N9 A A A 22 22 22 N 8 4.38 0.50 113.10 117.48 A A A N7 C8 N9 G G G 26 26 26 N 8 -2.54 0.40 106.40 103.86 A A A C8 N9 C4 G G G 26 26 26 N 8 3.80 0.50 113.80 117.60 A A A N7 C8 N9 A A A 27 27 27 N 8 -2.42 0.40 105.80 103.38 A A A C8 N9 C4 A A A 27 27 27 N 8 4.52 0.50 113.10 117.62 A A A N7 C8 N9 G G G 28 28 28 N 8 -2.86 0.40 106.40 103.54 A A A C8 N9 C4 G G G 28 28 28 N 8 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 32 32 32 N 8 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 32 32 32 N 8 -3.39 0.50 104.30 100.91 A A A C5 N7 C8 G G G 33 33 33 N 8 5.59 0.50 113.10 118.69 A A A N7 C8 N9 G G G 33 33 33 N 8 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 34 34 34 N 8 -2.74 0.40 106.40 103.66 A A A C8 N9 C4 G G G 34 34 34 N 8 3.84 0.50 113.80 117.64 A A A N7 C8 N9 A A A 35 35 35 N 8 4.66 0.50 113.10 117.76 A A A N7 C8 N9 G G G 36 36 36 N 8 -2.90 0.40 106.40 103.50 A A A C8 N9 C4 G G G 36 36 36 N 8 4.57 0.50 113.10 117.67 A A A N7 C8 N9 G G G 43 43 43 N 8 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 43 43 43 N 8 4.57 0.50 113.10 117.67 A A A N7 C8 N9 G G G 44 44 44 N 8 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 44 44 44 N 9 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 16 16 16 N 9 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 16 16 16 N 9 4.66 0.50 113.10 117.76 A A A N7 C8 N9 G G G 17 17 17 N 9 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 17 17 17 N 9 3.83 0.50 113.80 117.63 A A A N7 C8 N9 A A A 20 20 20 N 9 -2.42 0.40 105.80 103.38 A A A C8 N9 C4 A A A 20 20 20 N 9 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 21 21 21 N 9 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 21 21 21 N 9 3.51 0.50 113.80 117.31 A A A N7 C8 N9 A A A 22 22 22 N 9 4.47 0.50 113.10 117.57 A A A N7 C8 N9 G G G 26 26 26 N 9 -2.55 0.40 106.40 103.85 A A A C8 N9 C4 G G G 26 26 26 N 9 3.86 0.50 113.80 117.66 A A A N7 C8 N9 A A A 27 27 27 N 9 -2.52 0.40 105.80 103.28 A A A C8 N9 C4 A A A 27 27 27 N 9 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 28 28 28 N 9 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 28 28 28 N 9 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 32 32 32 N 9 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 32 32 32 N 9 4.60 0.50 113.10 117.70 A A A N7 C8 N9 G G G 33 33 33 N 9 -2.98 0.40 106.40 103.42 A A A C8 N9 C4 G G G 33 33 33 N 9 4.78 0.50 113.10 117.88 A A A N7 C8 N9 G G G 34 34 34 N 9 -2.98 0.40 106.40 103.42 A A A C8 N9 C4 G G G 34 34 34 N 9 3.76 0.50 113.80 117.56 A A A N7 C8 N9 A A A 35 35 35 N 9 -2.42 0.40 105.80 103.38 A A A C8 N9 C4 A A A 35 35 35 N 9 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 36 36 36 N 9 -2.69 0.40 106.40 103.71 A A A C8 N9 C4 G G G 36 36 36 N 9 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 43 43 43 N 9 -2.88 0.40 106.40 103.52 A A A C8 N9 C4 G G G 43 43 43 N 9 4.50 0.50 113.10 117.60 A A A N7 C8 N9 G G G 44 44 44 N 9 -2.73 0.40 106.40 103.67 A A A C8 N9 C4 G G G 44 44 44 N 10 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 16 16 16 N 10 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 16 16 16 N 10 4.66 0.50 113.10 117.76 A A A N7 C8 N9 G G G 17 17 17 N 10 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 17 17 17 N 10 3.82 0.50 113.80 117.62 A A A N7 C8 N9 A A A 20 20 20 N 10 4.65 0.50 113.10 117.75 A A A N7 C8 N9 G G G 21 21 21 N 10 -2.84 0.40 106.40 103.56 A A A C8 N9 C4 G G G 21 21 21 N 10 3.47 0.50 113.80 117.27 A A A N7 C8 N9 A A A 22 22 22 N 10 4.43 0.50 113.10 117.53 A A A N7 C8 N9 G G G 26 26 26 N 10 -2.59 0.40 106.40 103.81 A A A C8 N9 C4 G G G 26 26 26 N 10 3.80 0.50 113.80 117.60 A A A N7 C8 N9 A A A 27 27 27 N 10 -2.42 0.40 105.80 103.38 A A A C8 N9 C4 A A A 27 27 27 N 10 4.50 0.50 113.10 117.60 A A A N7 C8 N9 G G G 28 28 28 N 10 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 28 28 28 N 10 4.66 0.50 113.10 117.76 A A A N7 C8 N9 G G G 32 32 32 N 10 -2.83 0.40 106.40 103.57 A A A C8 N9 C4 G G G 32 32 32 N 10 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 33 33 33 N 10 -2.78 0.40 106.40 103.62 A A A C8 N9 C4 G G G 33 33 33 N 10 4.72 0.50 113.10 117.82 A A A N7 C8 N9 G G G 34 34 34 N 10 -2.89 0.40 106.40 103.51 A A A C8 N9 C4 G G G 34 34 34 N 10 3.89 0.50 113.80 117.69 A A A N7 C8 N9 A A A 35 35 35 N 10 -2.45 0.40 105.80 103.35 A A A C8 N9 C4 A A A 35 35 35 N 10 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 36 36 36 N 10 -2.77 0.40 106.40 103.63 A A A C8 N9 C4 G G G 36 36 36 N 10 4.54 0.50 113.10 117.64 A A A N7 C8 N9 G G G 43 43 43 N 10 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 43 43 43 N 10 4.51 0.50 113.10 117.61 A A A N7 C8 N9 G G G 44 44 44 N 10 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 44 44 44 N 11 4.62 0.50 113.10 117.72 A A A N7 C8 N9 G G G 16 16 16 N 11 -2.88 0.40 106.40 103.52 A A A C8 N9 C4 G G G 16 16 16 N 11 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 17 17 17 N 11 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 17 17 17 N 11 3.77 0.50 113.80 117.57 A A A N7 C8 N9 A A A 20 20 20 N 11 4.52 0.50 113.10 117.62 A A A N7 C8 N9 G G G 21 21 21 N 11 -2.75 0.40 106.40 103.65 A A A C8 N9 C4 G G G 21 21 21 N 11 3.34 0.50 113.80 117.14 A A A N7 C8 N9 A A A 22 22 22 N 11 4.41 0.50 113.10 117.51 A A A N7 C8 N9 G G G 26 26 26 N 11 -2.63 0.40 106.40 103.77 A A A C8 N9 C4 G G G 26 26 26 N 11 3.91 0.50 113.80 117.71 A A A N7 C8 N9 A A A 27 27 27 N 11 -2.55 0.40 105.80 103.25 A A A C8 N9 C4 A A A 27 27 27 N 11 4.52 0.50 113.10 117.62 A A A N7 C8 N9 G G G 28 28 28 N 11 -2.73 0.40 106.40 103.67 A A A C8 N9 C4 G G G 28 28 28 N 11 4.52 0.50 113.10 117.62 A A A N7 C8 N9 G G G 32 32 32 N 11 -2.75 0.40 106.40 103.65 A A A C8 N9 C4 G G G 32 32 32 N 11 4.63 0.50 113.10 117.73 A A A N7 C8 N9 G G G 33 33 33 N 11 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 33 33 33 N 11 4.59 0.50 113.10 117.69 A A A N7 C8 N9 G G G 34 34 34 N 11 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 34 34 34 N 11 3.79 0.50 113.80 117.59 A A A N7 C8 N9 A A A 35 35 35 N 11 4.75 0.50 113.10 117.85 A A A N7 C8 N9 G G G 36 36 36 N 11 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 36 36 36 N 11 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 43 43 43 N 11 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 43 43 43 N 11 4.60 0.50 113.10 117.70 A A A N7 C8 N9 G G G 44 44 44 N 11 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 44 44 44 N 12 4.67 0.50 113.10 117.77 A A A N7 C8 N9 G G G 16 16 16 N 12 -2.82 0.40 106.40 103.58 A A A C8 N9 C4 G G G 16 16 16 N 12 4.61 0.50 113.10 117.71 A A A N7 C8 N9 G G G 17 17 17 N 12 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 17 17 17 N 12 3.82 0.50 113.80 117.62 A A A N7 C8 N9 A A A 20 20 20 N 12 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 21 21 21 N 12 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 21 21 21 N 12 3.42 0.50 113.80 117.22 A A A N7 C8 N9 A A A 22 22 22 N 12 4.37 0.50 113.10 117.47 A A A N7 C8 N9 G G G 26 26 26 N 12 -2.54 0.40 106.40 103.86 A A A C8 N9 C4 G G G 26 26 26 N 12 3.89 0.50 113.80 117.69 A A A N7 C8 N9 A A A 27 27 27 N 12 -2.55 0.40 105.80 103.25 A A A C8 N9 C4 A A A 27 27 27 N 12 4.55 0.50 113.10 117.65 A A A N7 C8 N9 G G G 28 28 28 N 12 -2.77 0.40 106.40 103.63 A A A C8 N9 C4 G G G 28 28 28 N 12 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 32 32 32 N 12 -2.81 0.40 106.40 103.59 A A A C8 N9 C4 G G G 32 32 32 N 12 4.64 0.50 113.10 117.74 A A A N7 C8 N9 G G G 33 33 33 N 12 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 G G G 33 33 33 N 12 4.58 0.50 113.10 117.68 A A A N7 C8 N9 G G G 34 34 34 N 12 -2.79 0.40 106.40 103.61 A A A C8 N9 C4 G G G 34 34 34 N 12 3.78 0.50 113.80 117.58 A A A N7 C8 N9 A A A 35 35 35 N 12 4.60 0.50 113.10 117.70 A A A N7 C8 N9 G G G 36 36 36 N 12 -2.80 0.40 106.40 103.60 A A A C8 N9 C4 G G G 36 36 36 N 12 4.51 0.50 113.10 117.61 A A A N7 C8 N9 G G G 43 43 43 N 12 -2.76 0.40 106.40 103.64 A A A C8 N9 C4 G G G 43 43 43 N 12 4.47 0.50 113.10 117.57 A A A N7 C8 N9 G G G 44 44 44 N 12 -2.73 0.40 106.40 103.67 A A A C8 N9 C4 G G G 44 44 44 N 8 A A C8 N9 G G 33 33 -0.066 0.007 1.374 1.308 N STRUCTURE OF TAR RNA COMPLEXED WITH A TAT-TAR INTERACTION NANOMOLAR INHIBITOR THAT WAS IDENTIFIED BY COMPUTATIONAL SCREENING 1 N N 2 N N hydrog WATSON-CRICK A G 16 A N1 G 1 1_555 A C 46 A N3 C 31 1_555 hydrog WATSON-CRICK A G 16 A N2 G 1 1_555 A C 46 A O2 C 31 1_555 hydrog WATSON-CRICK A G 16 A O6 G 1 1_555 A C 46 A N4 C 31 1_555 hydrog WATSON-CRICK A G 17 A N1 G 2 1_555 A C 45 A N3 C 30 1_555 hydrog WATSON-CRICK A G 17 A N2 G 2 1_555 A C 45 A O2 C 30 1_555 hydrog WATSON-CRICK A G 17 A O6 G 2 1_555 A C 45 A N4 C 30 1_555 hydrog WATSON-CRICK A C 18 A N3 C 3 1_555 A G 44 A N1 G 29 1_555 hydrog WATSON-CRICK A C 18 A N4 C 3 1_555 A G 44 A O6 G 29 1_555 hydrog WATSON-CRICK A C 18 A O2 C 3 1_555 A G 44 A N2 G 29 1_555 hydrog WATSON-CRICK A C 19 A N3 C 4 1_555 A G 43 A N1 G 28 1_555 hydrog WATSON-CRICK A C 19 A N4 C 4 1_555 A G 43 A O6 G 28 1_555 hydrog WATSON-CRICK A C 19 A O2 C 4 1_555 A G 43 A N2 G 28 1_555 hydrog WATSON-CRICK A A 20 A N1 A 5 1_555 A U 42 A N3 U 27 1_555 hydrog WATSON-CRICK A A 20 A N6 A 5 1_555 A U 42 A O4 U 27 1_555 hydrog WATSON-CRICK A G 21 A N1 G 6 1_555 A C 41 A N3 C 26 1_555 hydrog WATSON-CRICK A G 21 A N2 G 6 1_555 A C 41 A O2 C 26 1_555 hydrog WATSON-CRICK A G 21 A O6 G 6 1_555 A C 41 A N4 C 26 1_555 hydrog WATSON-CRICK A A 22 A N1 A 7 1_555 A U 40 A N3 U 25 1_555 hydrog WATSON-CRICK A A 22 A N6 A 7 1_555 A U 40 A O4 U 25 1_555 hydrog WATSON-CRICK A G 26 A N1 G 11 1_555 A C 39 A N3 C 24 1_555 hydrog WATSON-CRICK A G 26 A N2 G 11 1_555 A C 39 A O2 C 24 1_555 hydrog WATSON-CRICK A G 26 A O6 G 11 1_555 A C 39 A N4 C 24 1_555 hydrog WATSON-CRICK A A 27 A N1 A 12 1_555 A U 38 A N3 U 23 1_555 hydrog WATSON-CRICK A A 27 A N6 A 12 1_555 A U 38 A O4 U 23 1_555 hydrog A-C MISPAIR A A 27 A N6 A 12 1_555 A C 39 A N3 C 24 1_555 hydrog WATSON-CRICK A G 28 A N1 G 13 1_555 A C 37 A N3 C 22 1_555 hydrog WATSON-CRICK A G 28 A N2 G 13 1_555 A C 37 A O2 C 22 1_555 hydrog WATSON-CRICK A G 28 A O6 G 13 1_555 A C 37 A N4 C 22 1_555 hydrog WATSON-CRICK A C 29 A N3 C 14 1_555 A G 36 A N1 G 21 1_555 hydrog WATSON-CRICK A C 29 A N4 C 14 1_555 A G 36 A O6 G 21 1_555 hydrog WATSON-CRICK A C 29 A O2 C 14 1_555 A G 36 A N2 G 21 1_555 RNA Transcriptional Activation, Complex (RNA-drug), RNA 1LVJ PDB 1 1LVJ 16 46 1LVJ 16 46 1LVJ A 1 1 31 BINDING SITE FOR RESIDUE PMZ A 47 A PMZ 47 Software 7 A A 22 A A 7 7 1_555 A U 23 A U 8 7 1_555 A C 24 A C 9 7 1_555 A U 25 A U 10 7 1_555 A G 26 A G 11 7 1_555 A C 39 A C 24 7 1_555 A U 40 A U 25 7 1_555