data_47C # _chem_comp.id 47C _chem_comp.name "2'-DEOXY-N-(PROP-2-EN-1-YLOXY)CYTIDINE 5'-(DIHYDROGEN PHOSPHATE)" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C12 H18 N3 O8 P" _chem_comp.mon_nstd_parent_comp_id DC _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2010-08-10 _chem_comp.pdbx_modified_date 2019-04-29 _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 363.260 _chem_comp.one_letter_code C _chem_comp.three_letter_code 47C _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 2XO7 _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 47C N1 N1 N 0 1 N N N 26.952 9.986 15.630 1.022 -1.531 -0.763 N1 47C 1 47C C2 C2 C 0 1 N N N 26.453 10.354 16.830 1.438 -0.604 0.120 C2 47C 2 47C N3 N3 N 0 1 N N N 25.600 11.382 16.884 2.672 -0.108 0.066 N3 47C 3 47C C4 C4 C 0 1 N N N 25.237 12.021 15.771 3.527 -0.517 -0.863 C4 47C 4 47C C5 C5 C 0 1 N N N 25.710 11.670 14.532 3.123 -1.487 -1.803 C5 47C 5 47C C6 C6 C 0 1 N N N 26.583 10.621 14.509 1.864 -1.982 -1.735 C6 47C 6 47C O2 O2 O 0 1 N N N 26.775 9.769 17.884 0.671 -0.211 0.983 O2 47C 7 47C N4 N4 N 0 1 N N N 24.394 13.025 15.884 4.800 0.003 -0.909 N4 47C 8 47C "C1'" "C1'" C 0 1 N N R 27.861 8.866 15.454 -0.340 -2.062 -0.675 "C1'" 47C 9 47C "C2'" "C2'" C 0 1 N N N 27.472 8.071 14.216 -0.513 -2.845 0.641 "C2'" 47C 10 47C CM2 CM2 C 0 1 N N N 22.548 13.761 14.869 6.547 1.429 -0.130 CM2 47C 11 47C "C3'" "C3'" C 0 1 N N S 28.679 7.195 14.068 -1.679 -2.123 1.361 "C3'" 47C 12 47C "C4'" "C4'" C 0 1 N N R 29.796 8.116 14.534 -2.382 -1.392 0.189 "C4'" 47C 13 47C "O4'" "O4'" O 0 1 N N N 29.172 9.260 15.165 -1.286 -0.980 -0.656 "O4'" 47C 14 47C "O3'" "O3'" O 0 1 N N N 28.578 6.089 14.917 -2.559 -3.065 1.976 "O3'" 47C 15 47C "C5'" "C5'" C 0 1 N N N 30.663 8.583 13.398 -3.156 -0.176 0.699 "C5'" 47C 16 47C "O5'" "O5'" O 0 1 N N N 29.864 9.324 12.526 -3.887 0.411 -0.379 "O5'" 47C 17 47C P P P 0 1 N N N 30.545 9.894 11.225 -4.816 1.714 -0.203 P 47C 18 47C OP1 OP1 O 0 1 N N N 31.554 8.925 10.746 -5.807 1.472 0.870 OP1 47C 19 47C OP2 OP2 O 0 1 N N N 29.448 10.390 10.363 -3.899 2.978 0.188 OP2 47C 20 47C O O O 0 1 N N N 23.986 13.714 14.740 5.201 0.978 0.036 O 47C 21 47C CD CD C 0 1 N N N 22.108 14.865 13.911 6.865 2.459 0.924 CD 47C 22 47C CE CE C 0 1 N N N 21.180 14.626 12.993 8.000 2.400 1.575 CE 47C 23 47C OP3 OP3 O 0 1 N Y N 31.364 11.118 11.836 -5.585 2.016 -1.585 OP3 47C 24 47C H6 H6 H 0 1 N N N 26.987 10.294 13.562 1.531 -2.726 -2.443 H6 47C 25 47C "H1'" "H1'" H 0 1 N N N 27.802 8.308 16.400 -0.538 -2.716 -1.524 "H1'" 47C 26 47C H5 H5 H 0 1 N N N 25.411 12.190 13.634 3.807 -1.831 -2.565 H5 47C 27 47C H4 H4 H 0 1 N N N 24.048 13.293 16.783 5.422 -0.298 -1.589 H4 47C 28 47C "H2'1" "H2'1" H 0 0 N N N 26.546 7.495 14.357 -0.776 -3.882 0.436 "H2'1" 47C 29 47C "H2'2" "H2'2" H 0 0 N N N 27.243 8.685 13.333 0.396 -2.791 1.240 "H2'2" 47C 30 47C "H3'" "H3'" H 0 1 N N N 28.822 6.795 13.053 -1.301 -1.410 2.094 "H3'" 47C 31 47C HM21 HM21 H 0 0 N N N 22.095 12.797 14.596 7.228 0.584 -0.029 HM21 47C 32 47C HM22 HM22 H 0 0 N N N 22.232 13.960 15.903 6.662 1.873 -1.118 HM22 47C 33 47C HD HD H 0 1 N N N 22.554 15.846 13.981 6.157 3.245 1.141 HD 47C 34 47C "H4'" "H4'" H 0 1 N N N 30.449 7.567 15.228 -3.044 -2.073 -0.346 "H4'" 47C 35 47C "H5'1" "H5'1" H 0 0 N N N 31.482 9.209 13.782 -3.849 -0.488 1.481 "H5'1" 47C 36 47C "H5'2" "H5'2" H 0 0 N N N 31.104 7.722 12.875 -2.457 0.556 1.105 "H5'2" 47C 37 47C H2P H2P H 0 1 N N N 28.660 10.496 10.883 -3.226 3.195 -0.472 H2P 47C 38 47C H55 H55 H 0 1 N N N 28.555 5.293 14.399 -2.140 -3.611 2.656 H55 47C 39 47C HE5 HE5 H 0 1 N N N 21.021 15.533 12.428 8.708 1.614 1.358 HE5 47C 40 47C HE6 HE6 H 0 1 N N N 20.671 13.686 12.837 8.228 3.138 2.330 HE6 47C 41 47C H3P H3P H 0 1 N N N 31.527 10.961 12.759 -6.165 2.789 -1.552 H3P 47C 42 # # 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 47C N1 C2 SING N N 1 47C N1 C6 SING N N 2 47C N1 "C1'" SING N N 3 47C C2 N3 SING N N 4 47C C2 O2 DOUB N N 5 47C N3 C4 DOUB N N 6 47C C4 C5 SING N N 7 47C C4 N4 SING N N 8 47C C5 C6 DOUB N N 9 47C N4 O SING N N 10 47C "C1'" "C2'" SING N N 11 47C "C1'" "O4'" SING N N 12 47C "C2'" "C3'" SING N N 13 47C CM2 O SING N N 14 47C CM2 CD SING N N 15 47C "C3'" "C4'" SING N N 16 47C "C3'" "O3'" SING N N 17 47C "C4'" "O4'" SING N N 18 47C "C4'" "C5'" SING N N 19 47C CD CE DOUB N N 20 47C "C5'" "O5'" SING N N 21 47C "O5'" P SING N N 22 47C P OP1 DOUB N N 23 47C P OP2 SING N N 24 47C P OP3 SING N N 25 47C C6 H6 SING N N 26 47C "C1'" "H1'" SING N N 27 47C C5 H5 SING N N 28 47C N4 H4 SING N N 29 47C "C2'" "H2'1" SING N N 30 47C "C2'" "H2'2" SING N N 31 47C "C3'" "H3'" SING N N 32 47C CM2 HM21 SING N N 33 47C CM2 HM22 SING N N 34 47C CD HD SING N N 35 47C "C4'" "H4'" SING N N 36 47C "C5'" "H5'1" SING N N 37 47C "C5'" "H5'2" SING N N 38 47C OP2 H2P SING N N 39 47C "O3'" H55 SING N N 40 47C CE HE5 SING N N 41 47C CE HE6 SING N N 42 47C OP3 H3P SING N N 43 # # 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 47C SMILES ACDLabs 10.04 "O=C1N=C(NOC/C=C)C=CN1C2OC(C(O)C2)COP(=O)(O)O" 47C SMILES_CANONICAL CACTVS 3.352 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=CC(=NC2=O)NOCC=C" 47C SMILES CACTVS 3.352 "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=CC(=NC2=O)NOCC=C" 47C SMILES_CANONICAL "OpenEye OEToolkits" 1.6.1 "C=CCONC1=NC(=O)N(C=C1)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O" 47C SMILES "OpenEye OEToolkits" 1.6.1 "C=CCONC1=NC(=O)N(C=C1)C2CC(C(O2)COP(=O)(O)O)O" 47C InChI InChI 1.03 "InChI=1S/C12H18N3O8P/c1-2-5-21-14-10-3-4-15(12(17)13-10)11-6-8(16)9(23-11)7-22-24(18,19)20/h2-4,8-9,11,16H,1,5-7H2,(H,13,14,17)(H2,18,19,20)/t8-,9+,11+/m0/s1" 47C InChIKey InChI 1.03 KSHWPNLXBHANGL-IQJOONFLSA-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 47C "SYSTEMATIC NAME" ACDLabs 10.04 "2'-deoxy-N-(prop-2-en-1-yloxy)cytidine 5'-(dihydrogen phosphate)" 47C "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "[(2R,3S,5R)-3-hydroxy-5-[2-oxo-4-(prop-2-enoxyamino)pyrimidin-1-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 47C "Create component" 2010-08-10 EBI 47C "Modify descriptor" 2011-06-04 RCSB 47C "Modify one letter code" 2011-04-29 EBI ##