data_TD7 # _chem_comp.id TD7 _chem_comp.name "(4E)-4-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3-thiazol-2(3H)-ylidene}-4-hydroxybutanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H24 N4 O10 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2010-10-05 _chem_comp.pdbx_modified_date 2011-06-10 _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 526.395 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TD7 _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 2XT7 _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 TD7 O1B O1B O 0 1 N N N 19.472 10.056 -67.049 8.166 0.831 0.869 O1B TD7 1 TD7 PB PB P 0 1 N N N 20.062 10.848 -65.786 7.436 0.197 -0.419 PB TD7 2 TD7 O3B O3B O 0 1 N N N 21.539 10.759 -65.829 8.125 0.764 -1.759 O3B TD7 3 TD7 O2B O2B O 0 1 N N N 19.519 10.245 -64.396 7.567 -1.277 -0.384 O2B TD7 4 TD7 O3A O3A O 0 1 N N N 19.610 12.283 -65.875 5.877 0.598 -0.405 O3A TD7 5 TD7 PA PA P 0 1 N N N 20.326 13.613 -66.388 4.603 0.105 0.447 PA TD7 6 TD7 O1A O1A O 0 1 N N N 19.500 14.771 -65.967 4.667 -1.363 0.625 O1A TD7 7 TD7 O2A O2A O 0 1 N N N 21.816 13.709 -65.793 4.612 0.822 1.889 O2A TD7 8 TD7 O7 O7 O 0 1 N N N 20.489 13.572 -67.998 3.251 0.493 -0.336 O7 TD7 9 TD7 C7 C7 C 0 1 N N N 19.370 13.423 -68.860 1.952 0.098 0.111 C7 TD7 10 TD7 C6 C6 C 0 1 N N N 19.746 13.104 -70.320 0.896 0.630 -0.860 C6 TD7 11 TD7 C5 C5 C 0 1 N N N 18.422 12.970 -71.031 -0.474 0.215 -0.389 C5 TD7 12 TD7 S1 S1 S 0 1 N N N 17.171 11.868 -70.498 -1.309 -1.321 -0.706 S1 TD7 13 TD7 C4 C4 C 0 1 N N N 17.883 13.731 -72.003 -1.316 0.911 0.357 C4 TD7 14 TD7 CM4 CM4 C 0 1 N N N 18.736 14.824 -72.601 -0.947 2.291 0.838 CM4 TD7 15 TD7 N3 N3 N 0 1 N N N 16.651 13.414 -72.376 -2.527 0.363 0.687 N3 TD7 16 TD7 C2 C2 C 0 1 N N N 16.135 12.414 -71.726 -2.785 -0.920 0.202 C2 TD7 17 TD7 OL1 OL1 O 0 1 N N N 14.257 11.547 -73.248 -4.861 -1.248 1.227 OL1 TD7 18 TD7 CLB CLB C 0 1 N N N 14.028 11.304 -70.713 -4.020 -2.977 -0.353 CLB TD7 19 TD7 CLC CLC C 0 1 N N N 11.830 10.186 -70.825 -3.680 -5.428 -0.190 CLC TD7 20 TD7 OL2 OL2 O 0 1 N N N 11.110 9.845 -71.783 -4.125 -5.446 -1.314 OL2 TD7 21 TD7 OL3 OL3 O 0 1 N N N 11.362 10.699 -69.787 -3.315 -6.575 0.405 OL3 TD7 22 TD7 "C7'" "C7'" C 0 1 N N N 15.950 14.130 -73.456 -3.500 1.084 1.510 "C7'" TD7 23 TD7 "C5'" "C5'" C 0 1 Y N N 15.421 15.472 -72.978 -4.045 2.255 0.734 "C5'" TD7 24 TD7 "C6'" "C6'" C 0 1 Y N N 15.973 16.661 -73.426 -3.868 3.548 1.186 "C6'" TD7 25 TD7 "N1'" "N1'" N 0 1 Y N N 15.496 17.830 -72.993 -4.361 4.554 0.477 "N1'" TD7 26 TD7 "C2'" "C2'" C 0 1 Y N N 14.480 17.879 -72.151 -5.013 4.337 -0.648 "C2'" TD7 27 TD7 CM2 CM2 C 0 1 N N N 13.934 19.210 -71.708 -5.555 5.513 -1.419 CM2 TD7 28 TD7 "N3'" "N3'" N 0 1 Y N N 13.906 16.781 -71.704 -5.204 3.121 -1.116 "N3'" TD7 29 TD7 "C4'" "C4'" C 0 1 Y N N 14.346 15.578 -72.079 -4.735 2.061 -0.464 "C4'" TD7 30 TD7 C13 C13 C 0 1 N N N 13.324 9.968 -70.928 -3.536 -4.120 0.543 C13 TD7 31 TD7 "N4'" "N4'" N 0 1 N N N 13.694 14.461 -71.616 -4.933 0.783 -0.963 "N4'" TD7 32 TD7 C11 C11 C 0 1 N N N 14.796 11.744 -71.939 -3.876 -1.669 0.380 C11 TD7 33 TD7 H1B H1B H 0 1 N N N 19.355 10.658 -67.775 8.120 1.796 0.911 H1B TD7 34 TD7 H2A H2A H 0 1 N N N 22.442 13.728 -66.507 4.572 1.787 1.849 H2A TD7 35 TD7 H71C H71C H 0 0 N N N 18.754 12.595 -68.478 1.896 -0.989 0.149 H71C TD7 36 TD7 H72C H72C H 0 0 N N N 18.838 14.386 -68.867 1.771 0.507 1.105 H72C TD7 37 TD7 H61C H61C H 0 0 N N N 20.353 13.910 -70.759 0.952 1.718 -0.899 H61C TD7 38 TD7 H62C H62C H 0 0 N N N 20.357 12.193 -70.403 1.077 0.221 -1.854 H62C TD7 39 TD7 HM41 HM41 H 0 0 N N N 18.943 15.587 -71.837 0.060 2.536 0.502 HM41 TD7 40 TD7 HM42 HM42 H 0 0 N N N 19.684 14.395 -72.958 -1.652 3.017 0.432 HM42 TD7 41 TD7 HM43 HM43 H 0 0 N N N 18.202 15.286 -73.444 -0.984 2.319 1.927 HM43 TD7 42 TD7 "H7'1" "H7'1" H 0 0 N N N 16.653 14.300 -74.285 -4.317 0.415 1.778 "H7'1" TD7 43 TD7 "H7'2" "H7'2" H 0 0 N N N 15.097 13.517 -73.783 -3.013 1.444 2.417 "H7'2" TD7 44 TD7 HL1 HL1 H 0 1 N N N 13.309 11.503 -73.197 -5.643 -1.816 1.233 HL1 TD7 45 TD7 HLB1 HLB1 H 0 0 N N N 13.270 12.067 -70.480 -3.422 -2.951 -1.264 HLB1 TD7 46 TD7 HLB2 HLB2 H 0 0 N N N 14.745 11.183 -69.887 -5.068 -3.136 -0.610 HLB2 TD7 47 TD7 H131 H131 H 0 0 N N N 13.574 9.572 -71.923 -2.489 -3.961 0.800 H131 TD7 48 TD7 H132 H132 H 0 0 N N N 13.651 9.245 -70.166 -4.134 -4.146 1.454 H132 TD7 49 TD7 HL3 HL3 H 0 1 N N N 10.418 10.772 -69.867 -3.426 -7.389 -0.105 HL3 TD7 50 TD7 "H6'" "H6'" H 0 1 N N N 16.793 16.642 -74.129 -3.336 3.738 2.106 "H6'" TD7 51 TD7 HM21 HM21 H 0 0 N N N 13.801 19.207 -70.616 -4.803 5.859 -2.129 HM21 TD7 52 TD7 HM22 HM22 H 0 0 N N N 14.638 20.007 -71.989 -6.452 5.211 -1.959 HM22 TD7 53 TD7 HM23 HM23 H 0 0 N N N 12.964 19.388 -72.195 -5.801 6.319 -0.728 HM23 TD7 54 TD7 "H4'1" "H4'1" H 0 0 N N N 13.536 13.829 -72.374 -4.673 0.011 -0.436 "H4'1" TD7 55 TD7 "H4'2" "H4'2" H 0 0 N N N 14.255 14.013 -70.920 -5.331 0.661 -1.839 "H4'2" TD7 56 TD7 H3B H3B H 0 1 N N N 21.829 10.740 -66.733 9.066 0.559 -1.835 H3B TD7 57 # 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 TD7 O1B PB SING N N 1 TD7 PB O2B DOUB N N 2 TD7 PB O3B SING N N 3 TD7 PB O3A SING N N 4 TD7 O3A PA SING N N 5 TD7 PA O1A DOUB N N 6 TD7 PA O2A SING N N 7 TD7 PA O7 SING N N 8 TD7 O7 C7 SING N N 9 TD7 C7 C6 SING N N 10 TD7 C6 C5 SING N N 11 TD7 C5 S1 SING N N 12 TD7 C5 C4 DOUB N N 13 TD7 S1 C2 SING N N 14 TD7 C4 CM4 SING N N 15 TD7 C4 N3 SING N N 16 TD7 N3 C2 SING N N 17 TD7 N3 "C7'" SING N N 18 TD7 C2 C11 DOUB N N 19 TD7 OL1 C11 SING N N 20 TD7 CLB C13 SING N N 21 TD7 CLB C11 SING N N 22 TD7 CLC OL2 DOUB N N 23 TD7 CLC OL3 SING N N 24 TD7 CLC C13 SING N N 25 TD7 "C7'" "C5'" SING N N 26 TD7 "C5'" "C6'" SING Y N 27 TD7 "C5'" "C4'" DOUB Y N 28 TD7 "C6'" "N1'" DOUB Y E 29 TD7 "N1'" "C2'" SING Y N 30 TD7 "C2'" CM2 SING N N 31 TD7 "C2'" "N3'" DOUB Y N 32 TD7 "N3'" "C4'" SING Y N 33 TD7 "C4'" "N4'" SING N N 34 TD7 O1B H1B SING N N 35 TD7 O2A H2A SING N N 36 TD7 C7 H71C SING N N 37 TD7 C7 H72C SING N N 38 TD7 C6 H61C SING N N 39 TD7 C6 H62C SING N N 40 TD7 CM4 HM41 SING N N 41 TD7 CM4 HM42 SING N N 42 TD7 CM4 HM43 SING N N 43 TD7 "C7'" "H7'1" SING N N 44 TD7 "C7'" "H7'2" SING N N 45 TD7 OL1 HL1 SING N N 46 TD7 CLB HLB1 SING N N 47 TD7 CLB HLB2 SING N N 48 TD7 C13 H131 SING N N 49 TD7 C13 H132 SING N N 50 TD7 OL3 HL3 SING N N 51 TD7 "C6'" "H6'" SING N N 52 TD7 CM2 HM21 SING N N 53 TD7 CM2 HM22 SING N N 54 TD7 CM2 HM23 SING N N 55 TD7 "N4'" "H4'1" SING N N 56 TD7 "N4'" "H4'2" SING N N 57 TD7 O3B H3B SING N N 58 # 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 TD7 SMILES ACDLabs 10.04 "O=P(O)(O)OP(=O)(O)OCCC=1S\C(=C(\O)CCC(=O)O)N(C=1C)Cc2cnc(nc2N)C" TD7 SMILES_CANONICAL CACTVS 3.352 "Cc1ncc(CN2C(=C(CCO[P](O)(=O)O[P](O)(O)=O)S\C2=C(\O)CCC(O)=O)C)c(N)n1" TD7 SMILES CACTVS 3.352 "Cc1ncc(CN2C(=C(CCO[P](O)(=O)O[P](O)(O)=O)SC2=C(O)CCC(O)=O)C)c(N)n1" TD7 SMILES_CANONICAL "OpenEye OEToolkits" 1.6.1 "Cc1ncc(c(n1)N)CN2C(=C(SC2=C(CCC(=O)O)O)CCO[P@](=O)(O)OP(=O)(O)O)C" TD7 SMILES "OpenEye OEToolkits" 1.6.1 "Cc1ncc(c(n1)N)CN2C(=C(SC2=C(CCC(=O)O)O)CCOP(=O)(O)OP(=O)(O)O)C" TD7 InChI InChI 1.03 "InChI=1S/C16H24N4O10P2S/c1-9-13(5-6-29-32(27,28)30-31(24,25)26)33-16(12(21)3-4-14(22)23)20(9)8-11-7-18-10(2)19-15(11)17/h7,21H,3-6,8H2,1-2H3,(H,22,23)(H,27,28)(H2,17,18,19)(H2,24,25,26)/b16-12+" TD7 InChIKey InChI 1.03 VGWJMSNWDAXPBE-FOWTUZBSSA-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 TD7 "SYSTEMATIC NAME" ACDLabs 10.04 "(4E)-4-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3-thiazol-2(3H)-ylidene}-4-hydroxybutanoic acid" TD7 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "4-[3-[(4-amino-2-methyl-pyrimidin-5-yl)methyl]-5-[2-(hydroxy-phosphonooxy-phosphoryl)oxyethyl]-4-methyl-1,3-thiazol-2-ylidene]-4-hydroxy-butanoic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site TD7 "Create component" 2010-10-05 EBI TD7 "Modify aromatic_flag" 2011-06-04 RCSB TD7 "Modify descriptor" 2011-06-04 RCSB #