data_WC7 # _chem_comp.id WC7 _chem_comp.name "6-[2-deoxy-5-O-(trihydroxy-lambda~5~-phosphanyl)-beta-D-erythro-pentofuranosyl]thieno[2,3-c]pyridine-7(6H)-thione" _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C12 H14 N O6 P S2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-10-12 _chem_comp.pdbx_modified_date 2021-06-18 _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 363.346 _chem_comp.one_letter_code ? _chem_comp.three_letter_code WC7 _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 7KEF _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # 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 WC7 C1 C1 C 0 1 N N N 181.961 2.147 50.537 -1.552 -0.336 1.491 C1 WC7 1 WC7 C2 C2 C 0 1 N N N 180.699 2.755 50.541 -2.588 -1.084 1.895 C2 WC7 2 WC7 C3 C3 C 0 1 Y N N 179.573 2.062 50.115 -3.804 -1.155 1.060 C3 WC7 3 WC7 N1 N1 N 0 1 N N N 182.199 0.883 50.134 -1.599 0.368 0.321 N1 WC7 4 WC7 C4 C4 C 0 1 Y N N 179.775 0.685 49.672 -3.812 -0.427 -0.128 C4 WC7 5 WC7 C5 C5 C 0 1 N N N 181.127 0.075 49.683 -2.681 0.344 -0.474 C5 WC7 6 WC7 C6 C6 C 0 1 Y N N 178.191 2.501 50.040 -4.995 -1.859 1.271 C6 WC7 7 WC7 C8 C7 C 0 1 Y N N 177.359 1.480 49.550 -5.919 -1.724 0.329 C8 WC7 8 WC7 "C1'" C8 C 0 1 N N R 183.566 0.336 50.192 -0.439 1.171 -0.076 "C1'" WC7 9 WC7 "C2'" C9 C 0 1 N N N 184.375 0.571 48.933 -0.166 2.276 0.969 "C2'" WC7 10 WC7 "C3'" C10 C 0 1 N N S 185.458 1.566 49.278 1.375 2.361 1.031 "C3'" WC7 11 WC7 "C4'" C11 C 0 1 N N R 185.440 1.657 50.790 1.851 1.298 0.016 "C4'" WC7 12 WC7 "C5'" C12 C 0 1 N N N 185.296 3.102 51.225 3.110 0.597 0.530 "C5'" WC7 13 WC7 "O3'" O1 O 0 1 N N N 186.726 1.112 48.792 1.821 3.661 0.640 "O3'" WC7 14 WC7 "O4'" O2 O 0 1 N N N 184.296 0.942 51.264 0.756 0.361 -0.078 "O4'" WC7 15 WC7 "O5'" O3 O 0 1 N N N 186.116 3.306 52.364 3.600 -0.298 -0.471 "O5'" WC7 16 WC7 OP1 O4 O 0 1 N N N 188.440 2.789 51.458 4.771 -2.016 0.959 OP1 WC7 17 WC7 OP2 O5 O 0 1 N N N 187.492 5.224 51.529 5.095 -2.179 -1.539 OP2 WC7 18 WC7 P P1 P 0 1 N N N 187.608 3.848 52.144 4.915 -1.204 -0.270 P WC7 19 WC7 S1 S1 S 0 1 N N N 181.358 -1.427 49.200 -2.681 1.242 -1.932 S1 WC7 20 WC7 S3 S2 S 0 1 Y N N 178.300 0.042 49.207 -5.351 -0.660 -0.947 S3 WC7 21 WC7 H1 H1 H 0 1 N N N 182.802 2.732 50.881 -0.664 -0.285 2.103 H1 WC7 22 WC7 H2 H2 H 0 1 N N N 180.600 3.776 50.880 -2.534 -1.631 2.825 H2 WC7 23 WC7 H3 H3 H 0 1 N N N 177.847 3.485 50.324 -5.151 -2.473 2.145 H3 WC7 24 WC7 H4 H4 H 0 1 N N N 176.292 1.569 49.405 -6.888 -2.201 0.345 H4 WC7 25 WC7 H5 H5 H 0 1 N N N 183.505 -0.749 50.363 -0.601 1.610 -1.061 H5 WC7 26 WC7 H6 H6 H 0 1 N N N 183.729 0.976 48.140 -0.588 3.225 0.640 H6 WC7 27 WC7 H7 H7 H 0 1 N N N 184.825 -0.373 48.592 -0.572 1.992 1.940 H7 WC7 28 WC7 H8 H8 H 0 1 N N N 185.206 2.547 48.849 1.731 2.119 2.032 H8 WC7 29 WC7 H9 H9 H 0 1 N N N 186.369 1.234 51.201 2.043 1.758 -0.953 H9 WC7 30 WC7 H10 H10 H 0 1 N N N 185.616 3.769 50.411 3.874 1.341 0.757 H10 WC7 31 WC7 H11 H11 H 0 1 N N N 184.247 3.311 51.479 2.870 0.035 1.433 H11 WC7 32 WC7 H12 H12 H 0 1 N N N 187.397 1.746 49.016 1.500 4.374 1.209 H12 WC7 33 WC7 H14 H14 H 0 1 N N N 187.996 5.255 50.724 5.869 -2.755 -1.485 H14 WC7 34 WC7 OP3 OP3 O 0 1 N Y N 188.175 4.027 53.635 6.207 -0.253 -0.137 OP3 WC7 35 WC7 H16 H16 H 0 1 N Y N 188.906 3.435 53.769 6.363 0.309 -0.908 H16 WC7 36 # # 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 WC7 "O3'" "C3'" SING N N 1 WC7 "C2'" "C3'" SING N N 2 WC7 "C2'" "C1'" SING N N 3 WC7 S1 C5 DOUB N N 4 WC7 S3 C8 SING Y N 5 WC7 S3 C4 SING Y N 6 WC7 "C3'" "C4'" SING N N 7 WC7 C8 C6 DOUB Y N 8 WC7 C4 C5 SING N N 9 WC7 C4 C3 DOUB Y N 10 WC7 C5 N1 SING N N 11 WC7 C6 C3 SING Y N 12 WC7 C3 C2 SING N N 13 WC7 N1 "C1'" SING N N 14 WC7 N1 C1 SING N N 15 WC7 "C1'" "O4'" SING N N 16 WC7 C1 C2 DOUB N N 17 WC7 "C4'" "C5'" SING N N 18 WC7 "C4'" "O4'" SING N N 19 WC7 "C5'" "O5'" SING N N 20 WC7 OP1 P DOUB N N 21 WC7 OP2 P SING N N 22 WC7 P "O5'" SING N N 23 WC7 C1 H1 SING N N 24 WC7 C2 H2 SING N N 25 WC7 C6 H3 SING N N 26 WC7 C8 H4 SING N N 27 WC7 "C1'" H5 SING N N 28 WC7 "C2'" H6 SING N N 29 WC7 "C2'" H7 SING N N 30 WC7 "C3'" H8 SING N N 31 WC7 "C4'" H9 SING N N 32 WC7 "C5'" H10 SING N N 33 WC7 "C5'" H11 SING N N 34 WC7 "O3'" H12 SING N N 35 WC7 OP2 H14 SING N N 36 WC7 P OP3 SING N N 37 WC7 OP3 H16 SING N N 38 # # 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 WC7 SMILES ACDLabs 12.01 "C1=Cc3c(C(N1C2OC(C(C2)O)COP(=O)(O)O)=S)scc3" WC7 InChI InChI 1.03 "InChI=1S/C12H14NO6PS2/c14-8-5-10(19-9(8)6-18-20(15,16)17)13-3-1-7-2-4-22-11(7)12(13)21/h1-4,8-10,14H,5-6H2,(H2,15,16,17)/t8-,9+,10+/m0/s1" WC7 InChIKey InChI 1.03 UPLSSFOPUAAIGQ-IVZWLZJFSA-N WC7 SMILES_CANONICAL CACTVS 3.385 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=Cc3ccsc3C2=S" WC7 SMILES CACTVS 3.385 "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=Cc3ccsc3C2=S" WC7 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1csc2c1C=CN(C2=S)[C@H]3C[C@@H]([C@H](O3)COP(=O)(O)O)O" WC7 SMILES "OpenEye OEToolkits" 2.0.7 "c1csc2c1C=CN(C2=S)C3CC(C(O3)COP(=O)(O)O)O" # # 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 WC7 "SYSTEMATIC NAME" ACDLabs 12.01 "6-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)thieno[2,3-c]pyridine-7(6H)-thione" WC7 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},5~{R})-3-oxidanyl-5-(7-sulfanylidenethieno[2,3-c]pyridin-6-yl)oxolan-2-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 WC7 "Create component" 2020-10-12 RCSB WC7 "Initial release" 2021-06-23 RCSB ##