data_4T8 # _chem_comp.id 4T8 _chem_comp.name "5'-({[(2R,3R)-3-amino-2-({2-[(N-{(2R)-4-[(dihydroxyphosphanyl)oxy]-2-hydroxy-3,3-dimethylbutanoyl}-beta-alanyl)amino]ethyl}sulfanyl)-4-hydroxybutyl]sulfonyl}amino)-5'-deoxyadenosine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C25 H44 N9 O12 P S2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2015-05-21 _chem_comp.pdbx_modified_date 2015-12-24 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 757.774 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 4T8 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 4ZXJ _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal 4T8 O3 O1 O 0 1 N N N 47.419 122.257 69.747 -13.598 1.586 1.058 O3 4T8 1 4T8 C4 C1 C 0 1 Y N N 62.684 126.894 74.347 6.058 4.774 -0.042 C4 4T8 2 4T8 C6 C2 C 0 1 Y N N 63.501 128.810 73.195 5.306 6.834 0.961 C6 4T8 3 4T8 C8 C3 C 0 1 Y N N 61.339 127.738 75.812 4.997 3.298 1.206 C8 4T8 4 4T8 O1 O2 O 0 1 N N N 62.567 124.190 79.214 8.968 0.025 -1.005 O1 4T8 5 4T8 C C4 C 0 1 N N R 57.205 128.948 79.129 3.075 -4.740 0.972 C 4T8 6 4T8 N N1 N 0 1 N N N 58.485 125.573 78.762 4.771 -1.627 -1.079 N 4T8 7 4T8 S S1 S 0 1 N N N 57.573 126.234 79.860 4.171 -3.168 -0.980 S 4T8 8 4T8 C1 C5 C 0 1 N N N 57.899 127.850 79.956 3.654 -3.342 0.751 C1 4T8 9 4T8 N1 N2 N 0 1 Y N N 64.244 127.989 72.438 6.053 7.475 0.068 N1 4T8 10 4T8 C2 C6 C 0 1 Y N N 64.220 126.666 72.613 6.764 6.815 -0.828 C2 4T8 11 4T8 N2 N3 N 0 1 N N N 58.178 131.028 80.009 3.793 -4.659 3.312 N2 4T8 12 4T8 O2 O3 O 0 1 N N N 62.547 123.246 76.611 8.890 2.555 -0.728 O2 4T8 13 4T8 C3 C7 C 0 1 N N N 59.886 126.007 78.865 5.975 -1.261 -0.329 C3 4T8 14 4T8 N3 N4 N 0 1 Y N N 63.443 126.110 73.543 6.777 5.501 -0.891 N3 4T8 15 4T8 C5 C8 C 0 1 Y N N 62.692 128.264 74.187 5.286 5.429 0.933 C5 4T8 16 4T8 N6 N5 N 0 1 N N N 63.562 130.143 72.955 4.566 7.534 1.898 N6 4T8 17 4T8 N7 N6 N 0 1 Y N N 61.839 128.772 75.101 4.664 4.471 1.660 N7 4T8 18 4T8 N9 N7 N 0 1 Y N N 61.866 126.601 75.351 5.856 3.432 0.155 N9 4T8 19 4T8 CA C9 C 0 1 N N R 58.323 129.973 78.998 2.639 -4.887 2.431 CA 4T8 20 4T8 CB C10 C 0 1 N N N 58.420 130.594 77.617 2.093 -6.298 2.661 CB 4T8 21 4T8 "C1'" C11 C 0 1 N N R 61.579 125.225 75.832 6.457 2.342 -0.617 "C1'" 4T8 22 4T8 S1P S2 S 0 1 N N N 56.594 128.523 77.519 1.642 -4.980 -0.114 S1P 4T8 23 4T8 "C2'" C12 C 0 1 N N R 62.640 124.662 76.757 7.819 1.940 -0.009 "C2'" 4T8 24 4T8 P2A P1 P 0 1 N N N 46.646 123.800 69.111 -12.324 2.558 0.899 P2A 4T8 25 4T8 C2P C13 C 0 1 N N N 55.215 129.516 77.033 0.534 -3.628 0.368 C2P 4T8 26 4T8 O2P O4 O 0 1 N N N 56.237 125.950 79.528 3.040 -3.159 -1.839 O2P 4T8 27 4T8 "C3'" C14 C 0 1 N N S 62.179 125.073 78.145 7.866 0.405 -0.177 "C3'" 4T8 28 4T8 C3P C15 C 0 1 N N N 53.882 128.840 77.312 -0.699 -3.631 -0.538 C3P 4T8 29 4T8 O3P O5 O 0 1 N N N 57.935 125.604 81.073 5.291 -3.998 -1.251 O3P 4T8 30 4T8 "C4'" C16 C 0 1 N N R 60.666 125.030 77.983 6.528 0.061 -0.867 "C4'" 4T8 31 4T8 "O4'" O6 O 0 1 N N N 60.380 125.217 76.591 5.645 1.151 -0.524 "O4'" 4T8 32 4T8 O4A O7 O 0 1 N N N 45.089 124.401 69.760 -11.873 2.770 2.430 O4A 4T8 33 4T8 N4P N8 N 0 1 N N N 53.237 128.402 76.063 -1.595 -2.539 -0.148 N4P 4T8 34 4T8 C5P C17 C 0 1 N N N 52.564 129.039 75.204 -2.752 -2.347 -0.811 C5P 4T8 35 4T8 O5P O8 O 0 1 N N N 52.367 130.239 75.290 -3.052 -3.078 -1.731 O5P 4T8 36 4T8 O6A O9 O 0 1 N N N 47.654 125.143 69.287 -11.197 1.546 0.355 O6A 4T8 37 4T8 C6P C18 C 0 1 N N N 51.996 128.227 74.052 -3.673 -1.224 -0.410 C6P 4T8 38 4T8 C7P C19 C 0 1 N N N 50.709 128.879 73.530 -4.906 -1.227 -1.316 C7P 4T8 39 4T8 N8P N9 N 0 1 N N N 50.056 127.982 72.575 -5.801 -0.135 -0.927 N8P 4T8 40 4T8 C9P C20 C 0 1 N N N 48.833 128.035 72.232 -6.959 0.057 -1.590 C9P 4T8 41 4T8 O9P O10 O 0 1 N N N 48.043 128.854 72.712 -7.305 -0.730 -2.445 O9P 4T8 42 4T8 CAP C21 C 0 1 N N R 48.377 127.000 71.226 -7.822 1.250 -1.270 CAP 4T8 43 4T8 OAP O11 O 0 1 N N N 49.426 126.030 71.100 -7.134 2.103 -0.353 OAP 4T8 44 4T8 CBP C22 C 0 1 N N N 48.051 127.509 69.798 -9.133 0.776 -0.640 CBP 4T8 45 4T8 CCP C23 C 0 1 N N N 47.158 126.466 69.073 -9.972 1.989 -0.234 CCP 4T8 46 4T8 CDP C24 C 0 1 N N N 47.363 128.868 69.745 -9.911 -0.066 -1.653 CDP 4T8 47 4T8 CEP C25 C 0 1 N N N 49.388 127.766 69.110 -8.828 -0.070 0.598 CEP 4T8 48 4T8 OG O12 O 0 1 N N N 58.970 131.905 77.772 3.070 -7.259 2.255 OG 4T8 49 4T8 H1 H1 H 0 1 N N N 46.819 121.530 69.628 -14.393 2.030 1.384 H1 4T8 50 4T8 H2 H2 H 0 1 N N N 60.629 127.818 76.622 4.646 2.356 1.602 H2 4T8 51 4T8 H3 H3 H 0 1 N N N 62.236 124.526 80.039 9.832 0.272 -0.647 H3 4T8 52 4T8 H4 H4 H 0 1 N N N 56.364 129.372 79.697 3.834 -5.488 0.742 H4 4T8 53 4T8 H5 H5 H 0 1 N N N 58.136 125.825 77.860 4.325 -0.968 -1.633 H5 4T8 54 4T8 H6 H6 H 0 1 N N N 58.971 127.946 79.727 2.895 -2.594 0.980 H6 4T8 55 4T8 H7 H7 H 0 1 N N N 57.723 128.121 81.007 4.515 -3.197 1.403 H7 4T8 56 4T8 H8 H8 H 0 1 N N N 64.839 126.036 71.992 7.357 7.376 -1.536 H8 4T8 57 4T8 H9 H9 H 0 1 N N N 58.115 130.614 80.917 4.501 -5.364 3.170 H9 4T8 58 4T8 H10 H10 H 0 1 N N N 58.972 131.634 79.974 4.172 -3.733 3.179 H10 4T8 59 4T8 H12 H12 H 0 1 N N N 63.191 122.827 77.169 9.769 2.337 -0.388 H12 4T8 60 4T8 H13 H13 H 0 1 N N N 60.233 125.950 79.907 5.727 -1.148 0.726 H13 4T8 61 4T8 H14 H14 H 0 1 N N N 60.000 127.037 78.496 6.727 -2.042 -0.444 H14 4T8 62 4T8 H15 H15 H 0 1 N N N 64.194 130.318 72.200 4.026 7.055 2.546 H15 4T8 63 4T8 H16 H16 H 0 1 N N N 62.652 130.480 72.713 4.589 8.504 1.908 H16 4T8 64 4T8 H17 H17 H 0 1 N N N 59.271 129.449 79.189 1.862 -4.156 2.653 H17 4T8 65 4T8 H18 H18 H 0 1 N N N 57.420 130.658 77.163 1.868 -6.432 3.719 H18 4T8 66 4T8 H19 H19 H 0 1 N N N 59.075 129.985 76.977 1.184 -6.435 2.076 H19 4T8 67 4T8 H20 H20 H 0 1 N N N 61.478 124.556 74.965 6.578 2.638 -1.659 H20 4T8 68 4T8 H21 H21 H 0 1 N N N 63.639 125.059 76.524 7.862 2.212 1.046 H21 4T8 69 4T8 H22 H22 H 0 1 N N N 55.289 129.718 75.954 0.223 -3.764 1.404 H22 4T8 70 4T8 H23 H23 H 0 1 N N N 55.252 130.465 77.587 1.056 -2.676 0.268 H23 4T8 71 4T8 H24 H24 H 0 1 N N N 62.500 126.104 78.353 7.934 -0.084 0.795 H24 4T8 72 4T8 H25 H25 H 0 1 N N N 53.220 129.551 77.828 -0.389 -3.495 -1.574 H25 4T8 73 4T8 H26 H26 H 0 1 N N N 54.051 127.964 77.955 -1.222 -4.583 -0.437 H26 4T8 74 4T8 H27 H27 H 0 1 N N N 60.342 124.017 78.264 6.661 0.004 -1.947 H27 4T8 75 4T8 H28 H28 H 0 1 N N N 44.437 123.712 69.708 -12.448 3.365 2.931 H28 4T8 76 4T8 H29 H29 H 0 1 N N N 53.352 127.430 75.859 -1.355 -1.954 0.588 H29 4T8 77 4T8 H30 H30 H 0 1 N N N 51.772 127.208 74.401 -3.983 -1.360 0.626 H30 4T8 78 4T8 H31 H31 H 0 1 N N N 52.736 128.182 73.239 -3.151 -0.272 -0.511 H31 4T8 79 4T8 H32 H32 H 0 1 N N N 50.956 129.828 73.031 -4.596 -1.091 -2.352 H32 4T8 80 4T8 H33 H33 H 0 1 N N N 50.029 129.074 74.373 -5.428 -2.178 -1.216 H33 4T8 81 4T8 H34 H34 H 0 1 N N N 50.619 127.268 72.158 -5.561 0.450 -0.191 H34 4T8 82 4T8 H35 H35 H 0 1 N N N 47.475 126.510 71.622 -8.037 1.799 -2.186 H35 4T8 83 4T8 H36 H36 H 0 1 N N N 49.653 125.695 71.959 -6.910 1.679 0.487 H36 4T8 84 4T8 H37 H37 H 0 1 N N N 47.155 126.681 67.994 -10.190 2.592 -1.115 H37 4T8 85 4T8 H38 H38 H 0 1 N N N 46.132 126.535 69.464 -9.418 2.589 0.488 H38 4T8 86 4T8 H39 H39 H 0 1 N N N 47.987 129.616 70.256 -9.384 -1.005 -1.826 H39 4T8 87 4T8 H40 H40 H 0 1 N N N 47.220 129.166 68.696 -10.907 -0.275 -1.264 H40 4T8 88 4T8 H41 H41 H 0 1 N N N 46.385 128.804 70.245 -9.995 0.482 -2.592 H41 4T8 89 4T8 H42 H42 H 0 1 N N N 49.958 128.513 69.683 -8.274 0.529 1.320 H42 4T8 90 4T8 H43 H43 H 0 1 N N N 49.960 126.828 69.059 -9.762 -0.408 1.047 H43 4T8 91 4T8 H44 H44 H 0 1 N N N 49.210 128.143 68.092 -8.230 -0.935 0.309 H44 4T8 92 4T8 H45 H45 H 0 1 N N N 59.043 132.321 76.921 2.791 -8.177 2.373 H45 4T8 93 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 4T8 CCP O6A SING N N 1 4T8 CCP CBP SING N N 2 4T8 CEP CBP SING N N 3 4T8 P2A O6A SING N N 4 4T8 P2A O3 SING N N 5 4T8 P2A O4A SING N N 6 4T8 CDP CBP SING N N 7 4T8 CBP CAP SING N N 8 4T8 OAP CAP SING N N 9 4T8 CAP C9P SING N N 10 4T8 C9P N8P SING N N 11 4T8 C9P O9P DOUB N N 12 4T8 N1 C2 DOUB Y N 13 4T8 N1 C6 SING Y N 14 4T8 N8P C7P SING N N 15 4T8 C2 N3 SING Y N 16 4T8 N6 C6 SING N N 17 4T8 C6 C5 DOUB Y N 18 4T8 C7P C6P SING N N 19 4T8 N3 C4 DOUB Y N 20 4T8 C6P C5P SING N N 21 4T8 C5 C4 SING Y N 22 4T8 C5 N7 SING Y N 23 4T8 C4 N9 SING Y N 24 4T8 N7 C8 DOUB Y N 25 4T8 C5P O5P DOUB N N 26 4T8 C5P N4P SING N N 27 4T8 N9 C8 SING Y N 28 4T8 N9 "C1'" SING N N 29 4T8 "C1'" "O4'" SING N N 30 4T8 "C1'" "C2'" SING N N 31 4T8 N4P C3P SING N N 32 4T8 "O4'" "C4'" SING N N 33 4T8 O2 "C2'" SING N N 34 4T8 "C2'" "C3'" SING N N 35 4T8 C2P C3P SING N N 36 4T8 C2P S1P SING N N 37 4T8 S1P C SING N N 38 4T8 CB OG SING N N 39 4T8 CB CA SING N N 40 4T8 "C4'" "C3'" SING N N 41 4T8 "C4'" C3 SING N N 42 4T8 "C3'" O1 SING N N 43 4T8 N C3 SING N N 44 4T8 N S SING N N 45 4T8 CA C SING N N 46 4T8 CA N2 SING N N 47 4T8 C C1 SING N N 48 4T8 O2P S DOUB N N 49 4T8 S C1 SING N N 50 4T8 S O3P DOUB N N 51 4T8 O3 H1 SING N N 52 4T8 C8 H2 SING N N 53 4T8 O1 H3 SING N N 54 4T8 C H4 SING N N 55 4T8 N H5 SING N N 56 4T8 C1 H6 SING N N 57 4T8 C1 H7 SING N N 58 4T8 C2 H8 SING N N 59 4T8 N2 H9 SING N N 60 4T8 N2 H10 SING N N 61 4T8 O2 H12 SING N N 62 4T8 C3 H13 SING N N 63 4T8 C3 H14 SING N N 64 4T8 N6 H15 SING N N 65 4T8 N6 H16 SING N N 66 4T8 CA H17 SING N N 67 4T8 CB H18 SING N N 68 4T8 CB H19 SING N N 69 4T8 "C1'" H20 SING N N 70 4T8 "C2'" H21 SING N N 71 4T8 C2P H22 SING N N 72 4T8 C2P H23 SING N N 73 4T8 "C3'" H24 SING N N 74 4T8 C3P H25 SING N N 75 4T8 C3P H26 SING N N 76 4T8 "C4'" H27 SING N N 77 4T8 O4A H28 SING N N 78 4T8 N4P H29 SING N N 79 4T8 C6P H30 SING N N 80 4T8 C6P H31 SING N N 81 4T8 C7P H32 SING N N 82 4T8 C7P H33 SING N N 83 4T8 N8P H34 SING N N 84 4T8 CAP H35 SING N N 85 4T8 OAP H36 SING N N 86 4T8 CCP H37 SING N N 87 4T8 CCP H38 SING N N 88 4T8 CDP H39 SING N N 89 4T8 CDP H40 SING N N 90 4T8 CDP H41 SING N N 91 4T8 CEP H42 SING N N 92 4T8 CEP H43 SING N N 93 4T8 CEP H44 SING N N 94 4T8 OG H45 SING N N 95 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor 4T8 SMILES ACDLabs 12.01 "OP(OCC(C(C(NCCC(NCCSC(CS(NCC3C(O)C(O)C(n2c1ncnc(c1nc2)N)O3)(=O)=O)C(N)CO)=O)=O)O)(C)C)O" 4T8 InChI InChI 1.03 ;InChI=1S/C25H44N9O12PS2/c1-25(2,10-45-47(41)42)20(39)23(40)29-4-3-16(36)28-5-6-48-15(13(26)8-35)9-49(43,44)33-7-14-18(37)19(38)24(46-14)34-12-32-17-21(27)30-11-31-22(17)34/h11-15,18-20,24,33,35,37-39,41-42H,3-10,26H2,1-2H3,(H,28,36)(H,29,40)(H2,27,30,31)/t13-,14-,15+,18-,19-,20+,24-/m1/s1 ; 4T8 InChIKey InChI 1.03 XODIDRLLFHEJAC-ARLJHQDSSA-N 4T8 SMILES_CANONICAL CACTVS 3.385 "CC(C)(COP(O)O)[C@@H](O)C(=O)NCCC(=O)NCCS[C@@H](C[S](=O)(=O)NC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23)[C@H](N)CO" 4T8 SMILES CACTVS 3.385 "CC(C)(COP(O)O)[CH](O)C(=O)NCCC(=O)NCCS[CH](C[S](=O)(=O)NC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23)[CH](N)CO" 4T8 SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "CC(C)(COP(O)O)[C@H](C(=O)NCCC(=O)NCCS[C@@H](CS(=O)(=O)NC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O)[C@@H](CO)N)O" 4T8 SMILES "OpenEye OEToolkits" 1.9.2 "CC(C)(COP(O)O)C(C(=O)NCCC(=O)NCCSC(CS(=O)(=O)NCC1C(C(C(O1)n2cnc3c2ncnc3N)O)O)C(CO)N)O" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier 4T8 "SYSTEMATIC NAME" ACDLabs 12.01 "5'-({[(2R,3R)-3-amino-2-({2-[(N-{(2R)-4-[(dihydroxyphosphanyl)oxy]-2-hydroxy-3,3-dimethylbutanoyl}-beta-alanyl)amino]ethyl}sulfanyl)-4-hydroxybutyl]sulfonyl}amino)-5'-deoxyadenosine" 4T8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 ;[(3R)-4-[[3-[2-[(2R,3R)-1-[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfamoyl]-3-azanyl-4-oxidanyl-butan-2-yl]sulfanylethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] dihydrogen phosphite ; # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 4T8 "Create component" 2015-05-21 RCSB 4T8 "Initial release" 2015-12-29 RCSB #