data_TPC # _chem_comp.id TPC _chem_comp.name ;5'-THIO-2'-DEOXY-CYTOSINE PHOSPHONIC ACID ; _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C9 H14 N3 O6 P S" _chem_comp.mon_nstd_parent_comp_id DC _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2004-10-06 _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 323.263 _chem_comp.one_letter_code C _chem_comp.three_letter_code TPC _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1TL8 _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 TPC "S5'" "S5'" S 0 1 N N N 24.990 1.619 34.789 -2.684 -1.263 3.575 "S5'" TPC 1 TPC N1 N1 N 0 1 N N N 22.423 -1.528 31.452 1.164 -2.047 0.989 N1 TPC 2 TPC C6 C6 C 0 1 N N N 23.714 -1.971 31.578 -0.008 -2.785 0.956 C6 TPC 3 TPC C2 C2 C 0 1 N N N 21.388 -2.443 31.228 2.328 -2.561 0.367 C2 TPC 4 TPC O2 O2 O 0 1 N N N 20.217 -2.048 31.256 3.386 -1.929 0.379 O2 TPC 5 TPC N3 N3 N 0 1 N N N 21.693 -3.742 31.001 2.260 -3.794 -0.259 N3 TPC 6 TPC C4 C4 C 0 1 N N N 22.962 -4.153 31.082 1.147 -4.479 -0.282 C4 TPC 7 TPC N4 N4 N 0 1 N N N 23.229 -5.440 30.843 1.101 -5.702 -0.910 N4 TPC 8 TPC C5 C5 C 0 1 N N N 24.023 -3.260 31.409 -0.094 -3.972 0.359 C5 TPC 9 TPC "C2'" "C2'" C 0 1 N N N 21.616 0.378 32.894 0.710 0.360 0.754 "C2'" TPC 10 TPC "C5'" "C5'" C 0 1 N N N 24.883 1.011 33.065 -2.005 -0.136 2.327 "C5'" TPC 11 TPC "C4'" "C4'" C 0 1 N N S 23.642 1.524 32.353 -0.611 0.328 2.728 "C4'" TPC 12 TPC "O4'" "O4'" O 0 1 N N N 23.334 0.607 31.279 0.247 -0.829 2.764 "O4'" TPC 13 TPC "C1'" "C1'" C 0 1 N N R 22.115 -0.088 31.529 1.157 -0.778 1.657 "C1'" TPC 14 TPC "C3'" "C3'" C 0 1 N N S 22.314 1.717 33.099 0.008 1.286 1.720 "C3'" TPC 15 TPC "O3'" "O3'" O 0 1 N N N 21.583 2.778 32.428 0.965 2.121 2.368 "O3'" TPC 16 TPC P P P 0 1 N N N ? ? ? -4.581 -1.788 2.860 P TPC 17 TPC OP1 O1P O 0 1 N N N ? ? ? -5.461 -0.578 2.699 OP1 TPC 18 TPC OP2 O2P O 0 1 N N N ? ? ? -5.230 -2.909 3.837 OP2 TPC 19 TPC OP3 O3P O 0 1 N Y N ? ? ? -4.407 -2.624 1.480 OP3 TPC 20 TPC H6 H6 H 0 1 N N N 24.496 -1.265 31.818 -0.867 -2.341 1.449 H6 TPC 21 TPC HN41 1HN4 H 0 0 N N N 24.210 -5.612 30.937 0.349 -6.310 -0.691 HN41 TPC 22 TPC HN42 2HN4 H 0 0 N N N 22.547 -6.131 30.605 1.822 -5.923 -1.553 HN42 TPC 23 TPC H5 H5 H 0 1 N N N 25.039 -3.612 31.516 -1.005 -4.554 0.330 H5 TPC 24 TPC "H2'1" "1H2'" H 0 0 N N N 20.522 0.490 32.905 -0.003 -0.001 0.003 "H2'1" TPC 25 TPC "H2'2" "2H2'" H 0 0 N N N 21.840 -0.342 33.695 1.556 0.818 0.232 "H2'2" TPC 26 TPC "H5'1" "1H5'" H 0 0 N N N 25.771 1.357 32.515 -1.969 -0.654 1.365 "H5'1" TPC 27 TPC "H5'2" "2H5'" H 0 0 N N N 24.828 -0.087 33.095 -2.674 0.724 2.226 "H5'2" TPC 28 TPC "H4'" "H4'" H 0 1 N N N 23.958 2.546 32.098 -0.644 0.753 3.736 "H4'" TPC 29 TPC "H1'" "H1'" H 0 1 N N N 21.313 0.112 30.803 2.163 -0.604 2.054 "H1'" TPC 30 TPC H1 H1 H 0 1 N N N 22.409 1.986 34.161 -0.722 1.941 1.236 H1 TPC 31 TPC "H3'" "H3'" H 0 1 N N N 21.423 3.488 33.038 0.743 3.042 2.146 "H3'" TPC 32 TPC HO2P HO2P H 0 0 N N N ? ? ? -6.164 -3.174 3.696 HO2P TPC 33 TPC HO3P HO3P H 0 0 N N N ? ? ? -5.208 -2.843 0.957 HO3P TPC 34 # 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 TPC "S5'" "C5'" SING N N 1 TPC "S5'" P SING N N 2 TPC N1 C6 SING N N 3 TPC N1 C2 SING N N 4 TPC N1 "C1'" SING N N 5 TPC C6 C5 DOUB N N 6 TPC C6 H6 SING N N 7 TPC C2 O2 DOUB N N 8 TPC C2 N3 SING N N 9 TPC N3 C4 DOUB N N 10 TPC C4 N4 SING N N 11 TPC C4 C5 SING N N 12 TPC N4 HN41 SING N N 13 TPC N4 HN42 SING N N 14 TPC C5 H5 SING N N 15 TPC "C2'" "C1'" SING N N 16 TPC "C2'" "C3'" SING N N 17 TPC "C2'" "H2'1" SING N N 18 TPC "C2'" "H2'2" SING N N 19 TPC "C5'" "C4'" SING N N 20 TPC "C5'" "H5'1" SING N N 21 TPC "C5'" "H5'2" SING N N 22 TPC "C4'" "O4'" SING N N 23 TPC "C4'" "C3'" SING N N 24 TPC "C4'" "H4'" SING N N 25 TPC "O4'" "C1'" SING N N 26 TPC "C1'" "H1'" SING N N 27 TPC "C3'" "O3'" SING N N 28 TPC "C3'" H1 SING N N 29 TPC "O3'" "H3'" SING N N 30 TPC P OP1 DOUB N N 31 TPC P OP2 SING N N 32 TPC P OP3 SING N N 33 TPC OP2 HO2P SING N N 34 TPC OP3 HO3P SING N N 35 # 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 TPC SMILES ACDLabs 10.04 "O=P(O)(O)SCC2OC(N1C(=O)N=C(N)C=C1)CC2O" TPC SMILES_CANONICAL CACTVS 3.341 "NC1=NC(=O)N(C=C1)[C@H]2C[C@H](O)[C@@H](CS[P](O)(O)=O)O2" TPC SMILES CACTVS 3.341 "NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CS[P](O)(O)=O)O2" TPC SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)CSP(=O)(O)O)O" TPC SMILES "OpenEye OEToolkits" 1.5.0 "C1C(C(OC1N2C=CC(=NC2=O)N)CSP(=O)(O)O)O" TPC InChI InChI 1.03 "InChI=1S/C9H14N3O6PS/c10-7-1-2-12(9(14)11-7)8-3-5(13)6(18-8)4-20-19(15,16)17/h1-2,5-6,8,13H,3-4H2,(H2,10,11,14)(H2,15,16,17)/t5-,6+,8+/m0/s1" TPC InChIKey InChI 1.03 MECRPJIAIGIPSF-SHYZEUOFSA-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 TPC "SYSTEMATIC NAME" ACDLabs 10.04 "2'-deoxy-5'-S-phosphono-5'-thiocytidine" TPC "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2S,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methylsulfanylphosphonic 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 TPC "Create component" 2004-10-06 EBI TPC "Modify descriptor" 2011-06-04 RCSB #