data_TM1 # _chem_comp.id TM1 _chem_comp.name ;2',3'-O-[(1r)-2,4,6-trinitrocyclohexa-2,5-diene-1,1-diyl]adenosine 5'-(dihydrogen phosphate) ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H15 N8 O13 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-01-07 _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 558.310 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TM1 _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 3AR5 _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 TM1 N1 N1 N 0 1 Y N N 39.356 -6.409 136.376 0.246 -6.153 -0.186 N1 TM1 1 TM1 C2 C2 C 0 1 Y N N 38.800 -5.490 137.258 -0.588 -5.238 -0.646 C2 TM1 2 TM1 N3 N3 N 0 1 Y N N 38.256 -4.310 136.803 -0.292 -3.955 -0.660 N3 TM1 3 TM1 C4 C4 C 0 1 Y N N 38.223 -3.955 135.444 0.880 -3.526 -0.203 C4 TM1 4 TM1 C5 C5 C 0 1 Y N N 38.776 -4.857 134.519 1.802 -4.460 0.298 C5 TM1 5 TM1 C6 C6 C 0 1 Y N N 39.355 -6.109 134.982 1.440 -5.818 0.292 C6 TM1 6 TM1 N6 N6 N 0 1 N N N 39.873 -6.956 134.096 2.306 -6.784 0.773 N6 TM1 7 TM1 N7 N7 N 0 1 Y N N 38.670 -4.386 133.292 2.897 -3.768 0.693 N7 TM1 8 TM1 C8 C8 C 0 1 Y N N 38.063 -3.202 133.413 2.711 -2.499 0.472 C8 TM1 9 TM1 N9 N9 N 0 1 Y N N 37.787 -2.932 134.721 1.481 -2.298 -0.080 N9 TM1 10 TM1 PA PA P 0 1 N N N 35.516 -0.828 129.727 4.587 3.506 -0.380 PA TM1 11 TM1 "C1'" C1* C 0 1 N N R 37.064 -1.622 135.277 0.906 -1.009 -0.471 C1* TM1 12 TM1 O1A O1A O 0 1 N N N 35.017 0.186 128.632 5.414 2.917 0.870 O1A TM1 13 TM1 C1F C1F C 0 1 N N N 37.599 1.504 136.660 -2.071 0.391 0.132 C1F TM1 14 TM1 "C2'" C2* C 0 1 N N R 38.015 -0.374 135.434 0.019 -0.442 0.664 C2* TM1 15 TM1 "O2'" O2* O 0 1 N N N 38.167 0.111 136.802 -1.346 -0.815 0.419 O2* TM1 16 TM1 O2A O2A O 0 1 N N N 34.690 -2.090 129.653 4.043 4.837 -0.029 O2A TM1 17 TM1 C2F C2F C 0 1 N N N 38.807 2.366 137.121 -2.650 0.951 1.396 C2F TM1 18 TM1 N2F N2F N 1 1 N N N 40.128 2.364 136.448 -1.848 0.877 2.637 N2F TM1 19 TM1 O2F O2F O -1 1 N N N 40.442 1.709 135.471 -1.851 -0.142 3.305 O2F TM1 20 TM1 "C3'" C3* C 0 1 N N R 37.471 0.670 134.496 0.073 1.090 0.391 C3* TM1 21 TM1 "O3'" O3* O 0 1 N N N 37.077 1.819 135.290 -1.109 1.318 -0.411 O3* TM1 22 TM1 O3A O3A O 0 1 N N N 37.043 -1.143 129.448 5.564 3.644 -1.652 O3A TM1 23 TM1 C3F C3F C 0 1 N N N 38.700 3.213 138.228 -3.827 1.498 1.446 C3F TM1 24 TM1 O3F O3F O 0 1 N N N 41.074 3.072 136.841 -1.185 1.835 2.992 O3F TM1 25 TM1 "C4'" C4* C 0 1 N N R 36.311 0.222 133.772 1.315 1.268 -0.501 C4* TM1 26 TM1 "O4'" O4* O 0 1 N N N 36.167 -1.106 134.300 1.944 -0.018 -0.625 O4* TM1 27 TM1 C4F C4F C 0 1 N N N 37.580 3.405 139.023 -4.717 1.623 0.247 C4F TM1 28 TM1 N4F N4F N 1 1 N N N 37.501 4.213 140.071 -4.637 2.991 -0.270 N4F TM1 29 TM1 O4F O4F O -1 1 N N N 37.540 3.825 141.214 -3.567 3.439 -0.644 O4F TM1 30 TM1 "C5'" C5* C 0 1 N N N 36.418 0.277 132.158 2.283 2.260 0.147 C5* TM1 31 TM1 "O5'" O5* O 0 1 N N N 35.341 -0.100 131.199 3.376 2.508 -0.739 O5* TM1 32 TM1 C5F C5F C 0 1 N N N 36.423 2.667 138.675 -4.314 0.665 -0.833 C5F TM1 33 TM1 O5F O5F O 0 1 N N N 37.381 5.390 139.948 -5.639 3.681 -0.326 O5F TM1 34 TM1 C6F C6F C 0 1 N N N 36.343 1.704 137.517 -3.137 0.118 -0.886 C6F TM1 35 TM1 N6F N6F N 1 1 N N N 35.084 1.075 137.357 -2.836 -0.813 -1.996 N6F TM1 36 TM1 O6F O6F O -1 1 N N N 34.146 1.299 138.096 -3.685 -1.053 -2.837 O6F TM1 37 TM1 O7F O7F O 0 1 N N N 34.796 0.302 136.538 -1.741 -1.340 -2.070 O7F TM1 38 TM1 H2 H2 H 0 1 N N N 38.795 -5.705 138.316 -1.548 -5.554 -1.026 H2 TM1 39 TM1 HN6 HN6 H 0 1 N N N 40.225 -7.762 134.571 2.045 -7.718 0.763 HN6 TM1 40 TM1 HN6A HN6A H 0 0 N N N 39.164 -7.235 133.448 3.175 -6.527 1.119 HN6A TM1 41 TM1 H8 H8 H 0 1 N N N 37.824 -2.548 132.588 3.425 -1.720 0.694 H8 TM1 42 TM1 "H1'" H1* H 0 1 N N N 36.630 -1.961 136.229 0.331 -1.110 -1.391 H1* TM1 43 TM1 HO1A HO1A H 0 0 N N N 34.298 -0.200 128.146 5.800 2.045 0.710 HO1A TM1 44 TM1 "H2'" H2* H 0 1 N N N 39.047 -0.655 135.177 0.366 -0.726 1.658 H2* TM1 45 TM1 "H3'" H3* H 0 1 N N N 38.257 0.904 133.763 0.097 1.691 1.300 H3* TM1 46 TM1 HO3A HO3A H 0 0 N N N 37.150 -2.073 129.286 6.318 4.231 -1.507 HO3A TM1 47 TM1 H3F H3F H 0 1 N N N 39.582 3.777 138.492 -4.179 1.880 2.393 H3F TM1 48 TM1 "H4'" H4* H 0 1 N N N 35.439 0.877 133.915 1.015 1.630 -1.485 H4* TM1 49 TM1 H4F H4F H 0 1 N N N 38.425 4.018 139.371 -5.745 1.413 0.543 H4F TM1 50 TM1 "H5'" H5* H 0 1 N N N 36.624 1.334 131.934 1.762 3.195 0.353 H5* TM1 51 TM1 "H5'A" H5*A H 0 0 N N N 37.248 -0.403 131.917 2.660 1.842 1.081 H5*A TM1 52 TM1 H5F H5F H 0 1 N N N 35.538 2.803 139.279 -5.032 0.420 -1.601 H5F TM1 53 # 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 TM1 N1 C2 DOUB Y N 1 TM1 N1 C6 SING Y N 2 TM1 C2 N3 SING Y N 3 TM1 C2 H2 SING N N 4 TM1 N3 C4 DOUB Y N 5 TM1 C4 C5 SING Y N 6 TM1 C4 N9 SING Y N 7 TM1 C5 C6 DOUB Y N 8 TM1 C5 N7 SING Y N 9 TM1 C6 N6 SING N N 10 TM1 N6 HN6 SING N N 11 TM1 N6 HN6A SING N N 12 TM1 N7 C8 DOUB Y N 13 TM1 C8 N9 SING Y N 14 TM1 C8 H8 SING N N 15 TM1 N9 "C1'" SING N N 16 TM1 PA O1A SING N N 17 TM1 PA O2A DOUB N N 18 TM1 PA O3A SING N N 19 TM1 PA "O5'" SING N N 20 TM1 "C1'" "C2'" SING N N 21 TM1 "C1'" "O4'" SING N N 22 TM1 "C1'" "H1'" SING N N 23 TM1 O1A HO1A SING N N 24 TM1 C1F "O2'" SING N N 25 TM1 C1F C2F SING N N 26 TM1 C1F "O3'" SING N N 27 TM1 C1F C6F SING N N 28 TM1 "C2'" "O2'" SING N N 29 TM1 "C2'" "C3'" SING N N 30 TM1 "C2'" "H2'" SING N N 31 TM1 C2F N2F SING N N 32 TM1 C2F C3F DOUB N N 33 TM1 N2F O2F SING N N 34 TM1 N2F O3F DOUB N N 35 TM1 "C3'" "O3'" SING N N 36 TM1 "C3'" "C4'" SING N N 37 TM1 "C3'" "H3'" SING N N 38 TM1 O3A HO3A SING N N 39 TM1 C3F C4F SING N N 40 TM1 C3F H3F SING N N 41 TM1 "C4'" "O4'" SING N N 42 TM1 "C4'" "C5'" SING N N 43 TM1 "C4'" "H4'" SING N N 44 TM1 C4F N4F SING N N 45 TM1 C4F C5F SING N N 46 TM1 C4F H4F SING N N 47 TM1 N4F O4F SING N N 48 TM1 N4F O5F DOUB N N 49 TM1 "C5'" "O5'" SING N N 50 TM1 "C5'" "H5'" SING N N 51 TM1 "C5'" "H5'A" SING N N 52 TM1 C5F C6F DOUB N N 53 TM1 C5F H5F SING N N 54 TM1 C6F N6F SING N N 55 TM1 N6F O6F SING N N 56 TM1 N6F O7F DOUB N N 57 # 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 TM1 SMILES ACDLabs 12.01 "[O-][N+](=O)C5=CC([N+]([O-])=O)C=C([N+]([O-])=O)C15OC4C(O1)C(OC4n2c3ncnc(N)c3nc2)COP(=O)(O)O" TM1 SMILES_CANONICAL CACTVS 3.370 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@H]4O[C@@]5(O[C@@H]34)C(=C[C@H](C=C5[N+]([O-])=O)[N+]([O-])=O)[N+]([O-])=O" TM1 SMILES CACTVS 3.370 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH]4O[C]5(O[CH]34)C(=C[CH](C=C5[N+]([O-])=O)[N+]([O-])=O)[N+]([O-])=O" TM1 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "c1nc(c2c(n1)n(cn2)[C@H]3[C@H]4[C@@H]([C@H](O3)COP(=O)(O)O)OC5(O4)C(=CC(C=C5[N+](=O)[O-])[N+](=O)[O-])[N+](=O)[O-])N" TM1 SMILES "OpenEye OEToolkits" 1.7.0 "c1nc(c2c(n1)n(cn2)C3C4C(C(O3)COP(=O)(O)O)OC5(O4)C(=CC(C=C5[N+](=O)[O-])[N+](=O)[O-])[N+](=O)[O-])N" TM1 InChI InChI 1.03 "InChI=1S/C16H15N8O13P/c17-13-10-14(19-4-18-13)21(5-20-10)15-12-11(7(35-15)3-34-38(31,32)33)36-16(37-12)8(23(27)28)1-6(22(25)26)2-9(16)24(29)30/h1-2,4-7,11-12,15H,3H2,(H2,17,18,19)(H2,31,32,33)/t6?,7-,11-,12-,15-,16-/m1/s1" TM1 InChIKey InChI 1.03 OHPXFACYTRBVRA-DLHKNTDHSA-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 TM1 "SYSTEMATIC NAME" ACDLabs 12.01 ;2',3'-O-[(1r)-2,4,6-trinitrocyclohexa-2,5-diene-1,1-diyl]adenosine 5'-(dihydrogen phosphate) ; TM1 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 ;[(3aR,4R,6R,6aR)-6-(6-aminopurin-9-yl)-1',3',5'-trinitro-spiro[3a,4,6,6a-tetrahydrofuro[3,4-d][1,3]dioxole-2,6'-cyclohexa-1,4-diene]-4-yl]methyl dihydrogen 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 TM1 "Create component" 2011-01-07 PDBJ TM1 "Modify descriptor" 2011-06-04 RCSB #