data_PUA # _chem_comp.id PUA _chem_comp.name "ADENYLATE-3'-PHOSPHATE-[[2'-DEOXY-URIDINE-5'-PHOSPHATE]-3'-PHOSPHATE]" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H27 N7 O20 P4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms U-PI-A-PI _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2021-03-01 _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 797.348 _chem_comp.one_letter_code ? _chem_comp.three_letter_code PUA _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1QHC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # # 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 PUA PA PA P 0 1 N N S 9.177 9.853 2.100 -0.420 0.018 0.501 PA PUA 1 PUA O1A O1A O 0 1 N N N 9.684 11.138 2.755 -1.964 0.226 0.094 O1A PUA 2 PUA O2A O2A O 0 1 N N N 7.721 9.884 1.608 0.257 1.333 0.549 O2A PUA 3 PUA "O5'" O5* O 0 1 N N N 10.149 9.539 0.881 -0.336 -0.681 1.948 "O5'" PUA 4 PUA PB PB P 0 1 N N R 8.926 7.139 3.235 0.179 -0.160 -2.006 PB PUA 5 PUA O1B O1B O 0 1 N N N 8.880 6.614 1.849 -1.374 0.050 -2.371 O1B PUA 6 PUA O2B O2B O 0 1 N N N 9.764 6.440 4.235 0.848 1.156 -1.920 O2B PUA 7 PUA O3A O3A O 0 1 N N N 9.399 8.659 3.136 0.300 -0.918 -0.591 O3A PUA 8 PUA PG PG P 0 1 N N N 13.137 13.708 1.076 -3.850 1.427 5.159 PG PUA 9 PUA O1G O1G O 0 1 N N N 13.831 12.514 1.733 -5.396 1.074 5.439 O1G PUA 10 PUA O2G O2G O 0 1 N N N 14.119 14.669 0.409 -3.427 2.713 6.030 O2G PUA 11 PUA O3G O3G O 0 1 N N N 12.137 14.385 2.014 -3.665 1.724 3.720 O3G PUA 12 PUA N9A N9A N 0 1 Y N N 11.263 10.464 -3.412 1.654 -0.347 6.741 N9A PUA 13 PUA C4A C4A C 0 1 Y N N 9.995 10.007 -3.658 2.133 -0.802 7.943 C4A PUA 14 PUA N3A N3A N 0 1 Y N N 8.936 10.058 -2.818 1.666 -1.600 8.898 N3A PUA 15 PUA C2A C2A C 0 1 Y N N 7.848 9.531 -3.391 2.385 -1.856 9.970 C2A PUA 16 PUA N1A N1A N 0 1 Y N N 7.717 8.993 -4.627 3.588 -1.343 10.155 N1A PUA 17 PUA C6A C6A C 0 1 Y N N 8.806 8.959 -5.449 4.137 -0.534 9.255 C6A PUA 18 PUA N6A N6A N 0 1 N N N 8.670 8.429 -6.667 5.399 -0.001 9.458 N6A PUA 19 PUA C5A C5A C 0 1 Y N N 10.024 9.492 -4.954 3.405 -0.226 8.096 C5A PUA 20 PUA N7A N7A N 0 1 Y N N 11.295 9.621 -5.509 3.637 0.528 6.995 N7A PUA 21 PUA C8A C8A C 0 1 Y N N 11.992 10.197 -4.556 2.609 0.461 6.200 C8A PUA 22 PUA "C5'" C5* C 0 1 N N N 11.544 9.688 1.052 -0.990 0.193 2.869 "C5'" PUA 23 PUA "C4'" C4* C 0 1 N N R 12.099 10.687 0.068 -0.945 -0.416 4.272 "C4'" PUA 24 PUA "O4'" O4* O 0 1 N N N 12.147 10.133 -1.277 0.422 -0.575 4.707 "O4'" PUA 25 PUA "C1'" C1* C 0 1 N N R 11.712 11.116 -2.184 0.354 -0.671 6.147 "C1'" PUA 26 PUA "C2'" C2* C 0 1 N N R 10.649 11.881 -1.399 -0.703 0.374 6.565 "C2'" PUA 27 PUA "O2'" O2* O 0 1 N N N 10.397 13.130 -2.002 -1.490 -0.109 7.655 "O2'" PUA 28 PUA "C3'" C3* C 0 1 N N S 11.332 12.008 -0.042 -1.577 0.546 5.300 "C3'" PUA 29 PUA "O3'" O3* O 0 1 N N N 12.258 13.105 -0.163 -2.930 0.173 5.571 "O3'" PUA 30 PUA O5 O5 O 0 1 N N N 3.588 6.425 2.036 -2.133 -1.543 -6.508 O5 PUA 31 PUA C5 C5 C 0 1 N N N 3.818 7.388 3.086 -1.482 -0.791 -5.481 C5 PUA 32 PUA C4 C4 C 0 1 N N R 4.998 6.958 3.936 -0.003 -1.178 -5.425 C4 PUA 33 PUA O4 O4 O 0 1 N N N 4.717 5.660 4.521 0.645 -0.869 -6.680 O4 PUA 34 PUA C1 C1 C 0 1 N N R 5.678 4.699 4.100 2.055 -0.796 -6.374 C1 PUA 35 PUA C2 C2 C 0 1 N N N 6.374 5.300 2.891 2.126 -0.067 -5.015 C2 PUA 36 PUA C3 C3 C 0 1 N N S 6.304 6.794 3.151 0.743 -0.324 -4.377 C3 PUA 37 PUA O3 O3 O 0 1 N N N 7.448 7.248 3.893 0.883 -1.046 -3.151 O3 PUA 38 PUA PD PD P 0 1 N N N 2.961 6.862 0.596 -3.677 -1.088 -6.511 PD PUA 39 PUA O1D O1D O 0 1 N N N 1.456 6.894 0.835 -4.474 -1.900 -7.649 O1D PUA 40 PUA O2D O2D O 0 1 N N N 3.398 5.769 -0.381 -4.331 -1.399 -5.073 O2D PUA 41 PUA O3D O3D O 0 1 N N N 3.517 8.246 0.269 -3.763 0.362 -6.788 O3D PUA 42 PUA N1U N1U N 0 1 N N N 4.973 3.443 3.785 2.763 -0.030 -7.402 N1U PUA 43 PUA C6U C6U C 0 1 N N N 3.826 3.434 2.981 3.825 -0.594 -8.057 C6U PUA 44 PUA C2U C2U C 0 1 N N N 5.502 2.255 4.294 2.361 1.218 -7.698 C2U PUA 45 PUA O2U O2U O 0 1 N N N 6.474 2.217 5.009 1.416 1.700 -7.104 O2U PUA 46 PUA N3U N3U N 0 1 N N N 4.831 1.113 3.917 2.997 1.946 -8.635 N3U PUA 47 PUA C4U C4U C 0 1 N N N 3.699 1.028 3.094 4.047 1.427 -9.302 C4U PUA 48 PUA O4U O4U O 0 1 N N N 3.264 -0.087 2.775 4.620 2.083 -10.154 O4U PUA 49 PUA C5U C5U C 0 1 N N N 3.191 2.299 2.626 4.477 0.111 -9.005 C5U PUA 50 PUA H1A H1A H 0 1 N N N 10.583 11.118 3.059 -2.369 -0.651 0.075 H1A PUA 51 PUA H1B H1B H 0 1 N N N 8.342 7.062 1.207 -1.772 -0.830 -2.417 H1B PUA 52 PUA H1G H1G H 0 1 N N N 13.220 11.916 2.147 -5.912 1.849 5.179 H1G PUA 53 PUA H2G H2G H 0 1 N N N 13.687 15.410 0.000 -3.563 2.478 6.959 H2G PUA 54 PUA H2A H2A H 0 1 N N N 6.941 9.541 -2.762 1.977 -2.509 10.727 H2A PUA 55 PUA H6A1 1H6A H 0 0 N N N 9.483 8.403 -7.281 5.893 -0.218 10.265 H6A1 PUA 56 PUA H6A2 2H6A H 0 0 N N N 7.905 8.900 -7.149 5.790 0.584 8.792 H6A2 PUA 57 PUA H8A H8A H 0 1 N N N 13.060 10.428 -4.699 2.524 0.971 5.252 H8A PUA 58 PUA "H5'1" 1H5* H 0 0 N N N 11.805 9.954 2.102 -2.028 0.330 2.566 "H5'1" PUA 59 PUA "H5'2" 2H5* H 0 0 N N N 12.074 8.709 0.990 -0.482 1.158 2.876 "H5'2" PUA 60 PUA "H4'" H4* H 0 1 N N N 13.110 10.905 0.483 -1.461 -1.376 4.284 "H4'" PUA 61 PUA "H1'" H1* H 0 1 N N N 12.486 11.834 -2.539 0.040 -1.670 6.446 "H1'" PUA 62 PUA "H2'" H2* H 0 1 N N N 9.647 11.394 -1.345 -0.223 1.316 6.829 "H2'" PUA 63 PUA "HO2'" HO2* H 0 0 N N N 9.735 13.606 -1.513 -0.894 -0.197 8.412 "HO2'" PUA 64 PUA "H3'" H3* H 0 1 N N N 10.660 12.186 0.829 -1.531 1.574 4.940 "H3'" PUA 65 PUA H51 1H5 H 0 1 N N N 3.946 8.420 2.685 -1.951 -1.006 -4.521 H51 PUA 66 PUA H52 2H5 H 0 1 N N N 2.903 7.563 3.699 -1.572 0.272 -5.699 H52 PUA 67 PUA H4 H4 H 0 1 N N N 5.132 7.767 4.690 0.102 -2.238 -5.194 H4 PUA 68 PUA H1 H1 H 0 1 N N N 6.438 4.459 4.879 2.477 -1.798 -6.290 H1 PUA 69 PUA H21 1H2 H 0 1 N N N 7.402 4.910 2.708 2.286 1.001 -5.163 H21 PUA 70 PUA H22 2H2 H 0 1 N N N 5.952 4.981 1.909 2.917 -0.490 -4.395 H22 PUA 71 PUA H3 H3 H 0 1 N N N 6.314 7.404 2.218 0.219 0.616 -4.207 H3 PUA 72 PUA HD1 HD1 H 0 1 N N N 1.090 7.148 -0.004 -5.392 -1.599 -7.617 HD1 PUA 73 PUA HD2 HD2 H 0 1 N N N 3.032 6.023 -1.220 -4.255 -2.353 -4.931 HD2 PUA 74 PUA H6U H6U H 0 1 N N N 3.396 4.377 2.604 4.139 -1.599 -7.816 H6U PUA 75 PUA H3U H3U H 0 1 N N N 5.211 0.241 4.284 2.696 2.847 -8.833 H3U PUA 76 PUA H5U H5U H 0 1 N N N 2.300 2.405 1.984 5.317 -0.321 -9.529 H5U PUA 77 # # 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 PUA PA O1A SING N N 1 PUA PA O2A DOUB N N 2 PUA PA "O5'" SING N N 3 PUA PA O3A SING N N 4 PUA O1A H1A SING N N 5 PUA "O5'" "C5'" SING N N 6 PUA PB O1B SING N N 7 PUA PB O2B DOUB N N 8 PUA PB O3A SING N N 9 PUA PB O3 SING N N 10 PUA O1B H1B SING N N 11 PUA PG O1G SING N N 12 PUA PG O2G SING N N 13 PUA PG O3G DOUB N N 14 PUA PG "O3'" SING N N 15 PUA O1G H1G SING N N 16 PUA O2G H2G SING N N 17 PUA N9A C4A SING Y N 18 PUA N9A C8A SING Y N 19 PUA N9A "C1'" SING N N 20 PUA C4A N3A SING Y N 21 PUA C4A C5A DOUB Y N 22 PUA N3A C2A DOUB Y N 23 PUA C2A N1A SING Y N 24 PUA C2A H2A SING N N 25 PUA N1A C6A DOUB Y N 26 PUA C6A N6A SING N N 27 PUA C6A C5A SING Y N 28 PUA N6A H6A1 SING N N 29 PUA N6A H6A2 SING N N 30 PUA C5A N7A SING Y N 31 PUA N7A C8A DOUB Y N 32 PUA C8A H8A SING N N 33 PUA "C5'" "C4'" SING N N 34 PUA "C5'" "H5'1" SING N N 35 PUA "C5'" "H5'2" SING N N 36 PUA "C4'" "O4'" SING N N 37 PUA "C4'" "C3'" SING N N 38 PUA "C4'" "H4'" SING N N 39 PUA "O4'" "C1'" SING N N 40 PUA "C1'" "C2'" SING N N 41 PUA "C1'" "H1'" SING N N 42 PUA "C2'" "O2'" SING N N 43 PUA "C2'" "C3'" SING N N 44 PUA "C2'" "H2'" SING N N 45 PUA "O2'" "HO2'" SING N N 46 PUA "C3'" "O3'" SING N N 47 PUA "C3'" "H3'" SING N N 48 PUA O5 C5 SING N N 49 PUA O5 PD SING N N 50 PUA C5 C4 SING N N 51 PUA C5 H51 SING N N 52 PUA C5 H52 SING N N 53 PUA C4 O4 SING N N 54 PUA C4 C3 SING N N 55 PUA C4 H4 SING N N 56 PUA O4 C1 SING N N 57 PUA C1 C2 SING N N 58 PUA C1 N1U SING N N 59 PUA C1 H1 SING N N 60 PUA C2 C3 SING N N 61 PUA C2 H21 SING N N 62 PUA C2 H22 SING N N 63 PUA C3 O3 SING N N 64 PUA C3 H3 SING N N 65 PUA PD O1D SING N N 66 PUA PD O2D SING N N 67 PUA PD O3D DOUB N N 68 PUA O1D HD1 SING N N 69 PUA O2D HD2 SING N N 70 PUA N1U C6U SING N N 71 PUA N1U C2U SING N N 72 PUA C6U C5U DOUB N N 73 PUA C6U H6U SING N N 74 PUA C2U O2U DOUB N N 75 PUA C2U N3U SING N N 76 PUA N3U C4U SING N N 77 PUA N3U H3U SING N N 78 PUA C4U O4U DOUB N N 79 PUA C4U C5U SING N N 80 PUA C5U H5U SING N N 81 # # 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 PUA SMILES ACDLabs 10.04 "O=C1C=CN(C(=O)N1)C5OC(COP(=O)(O)O)C(OP(=O)(O)OP(=O)(O)OCC4OC(n3cnc2c(ncnc23)N)C(O)C4OP(=O)(O)O)C5" PUA SMILES_CANONICAL CACTVS 3.341 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P@@](O)(=O)O[C@H]4C[C@@H](O[C@@H]4CO[P](O)(O)=O)N5C=CC(=O)NC5=O)[C@@H](O[P](O)(O)=O)[C@H]3O" PUA SMILES CACTVS 3.341 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[CH]4C[CH](O[CH]4CO[P](O)(O)=O)N5C=CC(=O)NC5=O)[CH](O[P](O)(O)=O)[CH]3O" PUA SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@](=O)(O)O[C@H]4C[C@@H](O[C@@H]4COP(=O)(O)O)N5C=CC(=O)NC5=O)OP(=O)(O)O)O)N" PUA SMILES "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OC4CC(OC4COP(=O)(O)O)N5C=CC(=O)NC5=O)OP(=O)(O)O)O)N" PUA InChI InChI 1.03 "InChI=1S/C19H27N7O20P4/c20-16-13-17(22-6-21-16)26(7-23-13)18-14(28)15(45-48(33,34)35)10(43-18)5-41-49(36,37)46-50(38,39)44-8-3-12(25-2-1-11(27)24-19(25)29)42-9(8)4-40-47(30,31)32/h1-2,6-10,12,14-15,18,28H,3-5H2,(H,36,37)(H,38,39)(H2,20,21,22)(H,24,27,29)(H2,30,31,32)(H2,33,34,35)/t8-,9+,10+,12+,14+,15+,18+/m0/s1" PUA InChIKey InChI 1.03 JIAJERGOUFOENU-LNAOLWRRSA-N # # 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 PUA "SYSTEMATIC NAME" ACDLabs 10.04 "[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]methyl (2R,3S,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2-[(phosphonooxy)methyl]tetrahydrofuran-3-yl dihydrogen diphosphate (non-preferred name)" PUA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-phosphonooxy-oxolan-2-yl]methyl [[(2R,3S,5R)-5-(2,4-dioxopyrimidin-1-yl)-2-(phosphonooxymethyl)oxolan-3-yl]oxy-hydroxy-phosphoryl] hydrogen phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site PUA "Create component" 1999-07-08 EBI PUA "Modify descriptor" 2011-06-04 RCSB PUA "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id PUA _pdbx_chem_comp_synonyms.name U-PI-A-PI _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##