data_C4S # _chem_comp.id C4S _chem_comp.name ;2'-deoxy-4'-thiocytidine 5'-(dihydrogen phosphate) ; _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 2007-11-28 _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 C4S _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 2RMQ _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 C4S O3P O3P O 0 1 N Y N 9.339 -2.279 -7.570 3.180 2.534 -0.670 O3P C4S 1 C4S P P P 0 1 N N N 7.787 -2.024 -7.225 3.654 1.151 0.005 P C4S 2 C4S O1P O1P O 0 1 N N N 7.736 -1.254 -5.956 4.823 0.493 -0.885 O1P C4S 3 C4S O2P O2P O 0 1 N N N 7.125 -1.482 -8.439 4.162 1.417 1.369 O2P C4S 4 C4S "O5'" "O5'" O 0 1 N N N 7.200 -3.480 -6.944 2.406 0.138 0.085 "O5'" C4S 5 C4S N1 N1 N 0 1 N N N 5.706 -6.368 -3.792 -2.632 -0.529 0.171 N1 C4S 6 C4S C6 C6 C 0 1 N N N 6.204 -5.112 -3.627 -3.897 -0.854 0.559 C6 C4S 7 C4S C2 C2 C 0 1 N N N 5.205 -7.071 -2.714 -2.372 0.683 -0.353 C2 C4S 8 C4S O2 O2 O 0 1 N N N 4.774 -8.215 -2.900 -1.233 0.957 -0.696 O2 C4S 9 C4S N3 N3 N 0 1 N N N 5.200 -6.492 -1.495 -3.336 1.589 -0.503 N3 C4S 10 C4S C4 C4 C 0 1 N N N 5.681 -5.260 -1.343 -4.583 1.317 -0.140 C4 C4S 11 C4S N4 N4 N 0 1 N N N 5.645 -4.715 -0.133 -5.571 2.261 -0.299 N4 C4S 12 C4S C5 C5 C 0 1 N N N 6.217 -4.529 -2.427 -4.889 0.056 0.412 C5 C4S 13 C4S "C2'" "C2'" C 0 1 N N N 4.450 -6.597 -5.920 -0.832 -1.747 -1.014 "C2'" C4S 14 C4S "C5'" "C5'" C 0 1 N N N 6.708 -4.289 -8.012 2.478 -1.137 0.728 "C5'" C4S 15 C4S "C4'" "C4'" C 0 1 N N R 6.144 -5.581 -7.466 1.123 -1.839 0.622 "C4'" C4S 16 C4S "S4'" "S4'" S 0 1 N N N 7.094 -6.384 -6.105 -0.204 -0.816 1.381 "S4'" C4S 17 C4S "C1'" "C1'" C 0 1 N N R 5.676 -6.991 -5.112 -1.548 -1.502 0.329 "C1'" C4S 18 C4S "C3'" "C3'" C 0 1 N N S 4.793 -5.396 -6.784 0.671 -1.937 -0.850 "C3'" C4S 19 C4S "O3'" "O3'" O 0 1 N N N 3.649 -5.170 -7.623 1.033 -3.222 -1.360 "O3'" C4S 20 C4S "H15'" "H15'" H 0 0 N N N 5.916 -3.744 -8.546 3.242 -1.745 0.243 "H15'" C4S 21 C4S "H25'" "H25'" H 0 0 N N N 7.534 -4.519 -8.701 2.735 -1.000 1.778 "H25'" C4S 22 C4S "H4'" "H4'" H 0 1 N N N 6.142 -6.184 -8.386 1.164 -2.827 1.080 "H4'" C4S 23 C4S "H1'" "H1'" H 0 1 N N N 5.690 -8.076 -4.932 -1.925 -2.437 0.744 "H1'" C4S 24 C4S H6 H6 H 0 1 N N N 6.595 -4.579 -4.481 -4.106 -1.826 0.979 H6 C4S 25 C4S H1N4 H1N4 H 0 0 N N N 5.238 -5.357 0.517 -5.358 3.127 -0.679 H1N4 C4S 26 C4S H2N4 H2N4 H 0 0 N N N 5.976 -3.799 0.095 -6.482 2.059 -0.032 H2N4 C4S 27 C4S H5 H5 H 0 1 N N N 6.621 -3.537 -2.289 -5.899 -0.180 0.714 H5 C4S 28 C4S "H12'" "H12'" H 0 0 N N N 4.140 -7.437 -6.558 -1.251 -2.640 -1.479 "H12'" C4S 29 C4S "H22'" "H22'" H 0 0 N N N 3.626 -6.339 -5.239 -1.008 -0.894 -1.669 "H22'" C4S 30 C4S "H3'" "H3'" H 0 1 N N N 4.960 -4.469 -6.216 1.188 -1.172 -1.429 "H3'" C4S 31 C4S HO3P HO3P H 0 0 N Y N 9.450 -2.329 -8.512 3.882 3.194 -0.751 HO3P C4S 32 C4S HO1P HO1P H 0 0 N N N 7.725 -1.855 -5.221 4.560 0.292 -1.793 HO1P C4S 33 C4S "HO3'" "HO3'" H 0 0 N Y N 2.867 -5.120 -7.086 0.783 -3.363 -2.283 "HO3'" C4S 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 C4S O3P P SING N N 1 C4S O3P HO3P SING N N 2 C4S O2P P DOUB N N 3 C4S P "O5'" SING N N 4 C4S P O1P SING N N 5 C4S O1P HO1P SING N N 6 C4S "C5'" "O5'" SING N N 7 C4S "C1'" N1 SING N N 8 C4S N1 C6 SING N N 9 C4S N1 C2 SING N N 10 C4S H6 C6 SING N N 11 C4S C6 C5 DOUB N N 12 C4S O2 C2 DOUB N N 13 C4S C2 N3 SING N N 14 C4S N3 C4 DOUB N N 15 C4S C5 C4 SING N N 16 C4S C4 N4 SING N N 17 C4S N4 H1N4 SING N N 18 C4S N4 H2N4 SING N N 19 C4S C5 H5 SING N N 20 C4S "C3'" "C2'" SING N N 21 C4S "H22'" "C2'" SING N N 22 C4S "C2'" "H12'" SING N N 23 C4S "C2'" "C1'" SING N N 24 C4S "H15'" "C5'" SING N N 25 C4S "H25'" "C5'" SING N N 26 C4S "C5'" "C4'" SING N N 27 C4S "H4'" "C4'" SING N N 28 C4S "C4'" "C3'" SING N N 29 C4S "C4'" "S4'" SING N N 30 C4S "S4'" "C1'" SING N N 31 C4S "C1'" "H1'" SING N N 32 C4S "O3'" "C3'" SING N N 33 C4S "C3'" "H3'" SING N N 34 C4S "O3'" "HO3'" 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 C4S SMILES ACDLabs 10.04 "O=C1N=C(N)C=CN1C2SC(C(O)C2)COP(=O)(O)O" C4S SMILES_CANONICAL CACTVS 3.341 "NC1=NC(=O)N(C=C1)[C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)S2" C4S SMILES CACTVS 3.341 "NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(O)=O)S2" C4S SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@@H]([C@H](S[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O)O)O" C4S SMILES "OpenEye OEToolkits" 1.5.0 "C1C(C(SC1N2C=CC(=NC2=O)N)COP(=O)(O)O)O" C4S InChI InChI 1.03 "InChI=1S/C9H14N3O6PS/c10-7-1-2-12(9(14)11-7)8-3-5(13)6(20-8)4-18-19(15,16)17/h1-2,5-6,8,13H,3-4H2,(H2,10,11,14)(H2,15,16,17)/t5-,6+,8+/m0/s1" C4S InChIKey InChI 1.03 XBGBVDAACAZVPJ-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 C4S "SYSTEMATIC NAME" ACDLabs 10.04 ;2'-deoxy-4'-thiocytidine 5'-(dihydrogen phosphate) ; C4S "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-thiolan-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 C4S "Create component" 2007-11-28 PDBJ C4S "Modify descriptor" 2011-06-04 RCSB #