data_T5A # _chem_comp.id T5A _chem_comp.name "P1-(5'-ADENOSYL)P5-(5'-THYMIDYL)PENTAPHOSPHATE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H30 N7 O23 P5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2011-06-04 _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 891.354 _chem_comp.one_letter_code ? _chem_comp.three_letter_code T5A _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 3TMK _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # 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 T5A N1B BN1 N 0 1 N N N 29.434 39.375 18.854 -0.041 1.135 -11.695 N1B T5A 1 T5A C6B BC6 C 0 1 N N N 29.812 40.546 18.322 0.166 2.281 -12.412 C6B T5A 2 T5A C2B BC2 C 0 1 N N N 28.604 39.290 20.004 0.917 0.194 -11.613 C2B T5A 3 T5A O2B BO2 O 0 1 N N N 28.273 38.178 20.460 0.711 -0.816 -10.970 O2B T5A 4 T5A N3B BN3 N 0 1 N N N 28.188 40.501 20.510 2.101 0.357 -12.233 N3B T5A 5 T5A C4B BC4 C 0 1 N N N 28.578 41.730 20.088 2.343 1.471 -12.953 C4B T5A 6 T5A O4B BO4 O 0 1 N N N 28.357 42.768 20.716 3.414 1.619 -13.515 O4B T5A 7 T5A C5B BC5 C 0 1 N N N 29.382 41.695 18.816 1.345 2.471 -13.043 C5B T5A 8 T5A C7B BC7 C 0 1 N N N 29.706 42.963 18.037 1.592 3.727 -13.839 C7B T5A 9 T5A C5E BC5* C 0 1 N N N 32.993 37.351 16.405 -1.646 -0.860 -7.835 C5E T5A 10 T5A C4E BC4* C 0 1 N N R 31.761 37.052 17.311 -2.092 -0.193 -9.138 C4E T5A 11 T5A O4E BO4* O 0 1 N N N 31.484 38.302 18.018 -1.095 0.744 -9.602 O4E T5A 12 T5A C1E BC1* C 0 1 N N R 30.100 38.109 18.345 -1.319 0.929 -11.009 C1E T5A 13 T5A C2E BC2* C 0 1 N N N 29.539 37.567 16.945 -1.999 -0.347 -11.540 C2E T5A 14 T5A C3E BC3* C 0 1 N N S 30.600 36.608 16.458 -2.175 -1.233 -10.284 C3E T5A 15 T5A O3E BO3* O 0 1 N N N 30.153 35.271 16.617 -3.447 -1.884 -10.292 O3E T5A 16 T5A PA PA P 0 1 N N R 33.654 38.995 14.289 -1.106 -0.648 -5.463 PA T5A 17 T5A O1A O1A O 0 1 N N N 34.837 39.685 14.877 0.336 -1.317 -5.712 O1A T5A 18 T5A O2A O2A O 0 1 N N N 32.809 39.796 13.336 -2.087 -1.703 -5.127 O2A T5A 19 T5A O5E BO5* O 0 1 N N N 32.658 38.377 15.441 -1.579 0.119 -6.797 O5E T5A 20 T5A O3A O3A O 0 1 N N N 34.021 37.667 13.626 -1.008 0.401 -4.246 O3A T5A 21 T5A PB PB P 0 1 N N S 35.009 37.194 12.416 -0.533 -0.429 -2.952 PB T5A 22 T5A O1B O1B O 0 1 N N N 35.398 35.818 12.633 0.784 -1.047 -3.219 O1B T5A 23 T5A O2X O2B O 0 1 N N N 35.924 38.311 12.131 -1.610 -1.581 -2.628 O2X T5A 24 T5A O3B O3B O 0 1 N N N 33.992 37.199 11.130 -0.413 0.564 -1.690 O3B T5A 25 T5A PC PC P 0 1 N N N 32.745 36.422 10.623 0.063 -0.328 -0.439 PC T5A 26 T5A O1C O1C O 0 1 N N N 32.709 34.989 10.900 -0.936 -1.389 -0.179 O1C T5A 27 T5A O2C O2C O 0 1 N N N 31.670 37.389 10.941 1.486 -1.003 -0.772 O2C T5A 28 T5A O3C O3C O 0 1 N N N 33.041 36.640 9.037 0.204 0.605 0.864 O3C T5A 29 T5A PD PD P 0 1 N N S 32.623 37.678 7.972 0.681 -0.347 2.071 PD T5A 30 T5A O1D O1D O 0 1 N N N 33.152 39.033 8.209 2.094 -1.021 1.695 O1D T5A 31 T5A O2D O2D O 0 1 N N N 31.167 37.423 7.821 -0.327 -1.407 2.291 O2D T5A 32 T5A O3D O3D O 0 1 N N N 33.409 37.152 6.658 0.843 0.527 3.413 O3D T5A 33 T5A PE PE P 0 1 N N R 34.669 37.611 5.781 1.320 -0.483 4.572 PE T5A 34 T5A O1E O1E O 0 1 N N N 34.302 38.907 5.123 0.211 -1.634 4.770 O1E T5A 35 T5A O2E O2E O 0 1 N N N 35.863 37.589 6.683 2.609 -1.100 4.188 O2E T5A 36 T5A O5F AO5* O 0 1 N N N 34.618 36.309 4.920 1.502 0.328 5.950 O5F T5A 37 T5A C5F AC5* C 0 1 N N N 35.195 35.129 5.369 1.924 -0.618 6.934 C5F T5A 38 T5A C4F AC4* C 0 1 N N R 35.595 34.240 4.186 2.117 0.092 8.275 C4F T5A 39 T5A O4F AO4* O 0 1 N N N 34.497 34.164 3.223 0.870 0.657 8.713 O4F T5A 40 T5A C1F AC1* C 0 1 N N R 34.994 34.705 1.940 0.849 0.568 10.154 C1F T5A 41 T5A C2F AC2* C 0 1 N N R 36.172 35.534 2.341 1.468 -0.823 10.439 C2F T5A 42 T5A O2F AO2* O 0 1 N N N 36.915 36.024 1.219 2.046 -0.866 11.745 O2F T5A 43 T5A C3F AC3* C 0 1 N N S 36.886 34.699 3.446 2.564 -0.921 9.346 C3F T5A 44 T5A O3F AO3* O 0 1 N N N 37.583 33.477 3.048 3.839 -0.562 9.883 O3F T5A 45 T5A N9A AN9 N 0 1 Y N N 33.957 35.495 1.178 -0.525 0.637 10.655 N9A T5A 46 T5A C4A AC4 C 0 1 Y N N 33.094 34.924 0.273 -0.920 1.116 11.879 C4A T5A 47 T5A N3A AN3 N 0 1 Y N N 33.233 33.704 -0.323 -0.294 1.639 12.928 N3A T5A 48 T5A C2A AC2 C 0 1 Y N N 32.258 33.477 -1.245 -0.971 2.024 13.990 C2A T5A 49 T5A N1A AN1 N 0 1 Y N N 31.244 34.280 -1.578 -2.285 1.918 14.070 N1A T5A 50 T5A C6A AC6 C 0 1 Y N N 31.187 35.541 -1.037 -2.996 1.411 13.068 C6A T5A 51 T5A N6A AN6 N 0 1 N N N 30.275 36.442 -1.463 -4.373 1.304 13.161 N6A T5A 52 T5A C5A AC5 C 0 1 Y N N 32.166 35.887 -0.038 -2.319 0.987 11.913 C5A T5A 53 T5A N7A AN7 N 0 1 Y N N 32.437 37.093 0.668 -2.697 0.439 10.733 N7A T5A 54 T5A C8A AC8 C 0 1 Y N N 33.539 36.812 1.326 -1.646 0.233 9.993 C8A T5A 55 T5A HB6 HB6 H 0 1 N N N 30.494 40.564 17.455 -0.607 3.032 -12.472 HB6 T5A 56 T5A HN3 HN3 H 0 1 N N N 27.519 40.486 21.280 2.781 -0.330 -12.164 HN3 T5A 57 T5A HB71 1HB7 H 0 0 N N N 29.343 43.931 18.453 2.593 3.693 -14.269 HB71 T5A 58 T5A HB72 2HB7 H 0 0 N N N 30.807 43.022 17.871 0.855 3.801 -14.638 HB72 T5A 59 T5A HB73 3HB7 H 0 0 N N N 29.342 42.854 16.988 1.507 4.594 -13.184 HB73 T5A 60 T5A HB51 1HB5 H 0 0 N N N 33.896 37.616 17.001 -2.363 -1.633 -7.559 HB51 T5A 61 T5A HB52 2HB5 H 0 0 N N N 33.386 36.429 15.915 -0.663 -1.309 -7.975 HB52 T5A 62 T5A HB4 HB4 H 0 1 N N N 31.946 36.227 18.038 -3.052 0.305 -9.003 HB4 T5A 63 T5A HB1 HB1 H 0 1 N N N 29.905 37.411 19.193 -1.968 1.790 -11.171 HB1 T5A 64 T5A HB21 1HB2 H 0 0 N N N 28.517 37.123 17.005 -2.968 -0.109 -11.978 HB21 T5A 65 T5A HB22 2HB2 H 0 0 N N N 29.282 38.370 16.215 -1.360 -0.843 -12.271 HB22 T5A 66 T5A HB3 HB3 H 0 1 N N N 30.867 36.622 15.375 -1.368 -1.962 -10.206 HB3 T5A 67 T5A "HB'3" 3HB* H 0 0 N N N 29.421 34.991 16.079 -3.468 -2.447 -11.079 "HB'3" T5A 68 T5A HO1A AHO1 H 0 0 N N N 35.370 39.179 15.478 0.945 -0.597 -5.928 HO1A T5A 69 T5A HO2B BHO2 H 0 0 N N N 36.499 38.035 11.426 -2.452 -1.136 -2.460 HO2B T5A 70 T5A HO2C CHO2 H 0 0 N N N 30.907 36.914 10.631 2.107 -0.279 -0.934 HO2C T5A 71 T5A HO1D DHO1 H 0 0 N N N 32.894 39.671 7.554 2.722 -0.297 1.560 HO1D T5A 72 T5A HO1E EHO1 H 0 0 N N N 35.049 39.179 4.603 -0.610 -1.190 5.018 HO1E T5A 73 T5A HA51 1HA5 H 0 0 N N N 36.055 35.322 6.051 1.166 -1.394 7.040 HA51 T5A 74 T5A HA52 2HA5 H 0 0 N N N 34.532 34.590 6.085 2.866 -1.070 6.624 HA52 T5A 75 T5A HA4 HA4 H 0 1 N N N 35.817 33.239 4.626 2.865 0.878 8.174 HA4 T5A 76 T5A HA1 HA1 H 0 1 N N N 35.261 33.895 1.221 1.458 1.357 10.596 HA1 T5A 77 T5A HC2 HC2 H 0 1 N N N 35.922 36.522 2.793 0.725 -1.611 10.318 HC2 T5A 78 T5A HO2 HO2 H 0 1 N N N 37.663 36.550 1.473 2.412 -1.754 11.860 HO2 T5A 79 T5A HC3 HC3 H 0 1 N N N 37.688 35.288 3.947 2.597 -1.927 8.928 HC3 T5A 80 T5A HA3 HA3 H 0 1 N N N 38.370 33.757 2.596 4.035 -1.197 10.586 HA3 T5A 81 T5A HA2 HA2 H 0 1 N N N 32.294 32.520 -1.792 -0.431 2.441 14.827 HA2 T5A 82 T5A HA61 1HA6 H 0 0 N N N 30.232 37.378 -1.061 -4.829 1.600 13.964 HA61 T5A 83 T5A HA62 2HA6 H 0 0 N N N 29.350 36.019 -1.379 -4.881 0.932 12.423 HA62 T5A 84 T5A HA8 HA8 H 0 1 N N N 34.048 37.584 1.926 -1.660 -0.193 9.002 HA8 T5A 85 # 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 T5A N1B C6B SING N N 1 T5A N1B C2B SING N N 2 T5A N1B C1E SING N N 3 T5A C6B C5B DOUB N N 4 T5A C6B HB6 SING N N 5 T5A C2B O2B DOUB N N 6 T5A C2B N3B SING N N 7 T5A N3B C4B SING N N 8 T5A N3B HN3 SING N N 9 T5A C4B O4B DOUB N N 10 T5A C4B C5B SING N N 11 T5A C5B C7B SING N N 12 T5A C7B HB71 SING N N 13 T5A C7B HB72 SING N N 14 T5A C7B HB73 SING N N 15 T5A C5E C4E SING N N 16 T5A C5E O5E SING N N 17 T5A C5E HB51 SING N N 18 T5A C5E HB52 SING N N 19 T5A C4E O4E SING N N 20 T5A C4E C3E SING N N 21 T5A C4E HB4 SING N N 22 T5A O4E C1E SING N N 23 T5A C1E C2E SING N N 24 T5A C1E HB1 SING N N 25 T5A C2E C3E SING N N 26 T5A C2E HB21 SING N N 27 T5A C2E HB22 SING N N 28 T5A C3E O3E SING N N 29 T5A C3E HB3 SING N N 30 T5A O3E "HB'3" SING N N 31 T5A PA O1A SING N N 32 T5A PA O2A DOUB N N 33 T5A PA O5E SING N N 34 T5A PA O3A SING N N 35 T5A O1A HO1A SING N N 36 T5A O3A PB SING N N 37 T5A PB O1B DOUB N N 38 T5A PB O2X SING N N 39 T5A PB O3B SING N N 40 T5A O2X HO2B SING N N 41 T5A O3B PC SING N N 42 T5A PC O1C DOUB N N 43 T5A PC O2C SING N N 44 T5A PC O3C SING N N 45 T5A O2C HO2C SING N N 46 T5A O3C PD SING N N 47 T5A PD O1D SING N N 48 T5A PD O2D DOUB N N 49 T5A PD O3D SING N N 50 T5A O1D HO1D SING N N 51 T5A O3D PE SING N N 52 T5A PE O1E SING N N 53 T5A PE O2E DOUB N N 54 T5A PE O5F SING N N 55 T5A O1E HO1E SING N N 56 T5A O5F C5F SING N N 57 T5A C5F C4F SING N N 58 T5A C5F HA51 SING N N 59 T5A C5F HA52 SING N N 60 T5A C4F O4F SING N N 61 T5A C4F C3F SING N N 62 T5A C4F HA4 SING N N 63 T5A O4F C1F SING N N 64 T5A C1F C2F SING N N 65 T5A C1F N9A SING N N 66 T5A C1F HA1 SING N N 67 T5A C2F O2F SING N N 68 T5A C2F C3F SING N N 69 T5A C2F HC2 SING N N 70 T5A O2F HO2 SING N N 71 T5A C3F O3F SING N N 72 T5A C3F HC3 SING N N 73 T5A O3F HA3 SING N N 74 T5A N9A C4A SING Y N 75 T5A N9A C8A SING Y N 76 T5A C4A N3A SING Y N 77 T5A C4A C5A DOUB Y N 78 T5A N3A C2A DOUB Y N 79 T5A C2A N1A SING Y N 80 T5A C2A HA2 SING N N 81 T5A N1A C6A DOUB Y N 82 T5A C6A N6A SING N N 83 T5A C6A C5A SING Y N 84 T5A N6A HA61 SING N N 85 T5A N6A HA62 SING N N 86 T5A C5A N7A SING Y N 87 T5A N7A C8A DOUB Y N 88 T5A C8A HA8 SING N N 89 # 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 T5A SMILES_CANONICAL CACTVS 3.341 "CC1=CN([C@H]2C[C@H](O)[C@@H](CO[P@](O)(=O)O[P@@](O)(=O)O[P@](O)(=O)O[P@](O)(=O)O[P@@](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)O2)C(=O)NC1=O" T5A SMILES CACTVS 3.341 "CC1=CN([CH]2C[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)O2)C(=O)NC1=O" T5A SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO[P@@](=O)(O)O[P@](=O)(O)O[P@@](=O)(O)O[P@@](=O)(O)O[P@](=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)O" T5A SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)O" T5A InChI InChI 1.03 ;InChI=1S/C20H30N7O23P5/c1-8-3-26(20(32)25-18(8)31)12-2-9(28)10(45-12)4-43-51(33,34)47-53(37,38)49-55(41,42)50-54(39,40)48-52(35,36)44-5-11-14(29)15(30)19(46-11)27-7-24-13-16(21)22-6-23-17(13)27/h3,6-7,9-12,14-15,19,28-30H,2,4-5H2,1H3,(H,33,34)(H,35,36)(H,37,38)(H,39,40)(H,41,42)(H2,21,22,23)(H,25,31,32)/t9-,10+,11+,12+,14+,15+,19+/m0/s1 ; T5A InChIKey InChI 1.03 JCFDSPQTEMXXLO-SLFMBYJQSA-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 T5A "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 ;[[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl] [(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl 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 T5A "Create component" 1999-07-08 PDBJ T5A "Modify descriptor" 2011-06-04 RCSB #