data_0AP # _chem_comp.id 0AP _chem_comp.name ;2'-deoxycytidine 3',5'-bis(dihydrogen phosphate) ; _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C9 H15 N3 O10 P2" _chem_comp.mon_nstd_parent_comp_id DC _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2007-11-11 _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 387.177 _chem_comp.one_letter_code C _chem_comp.three_letter_code 0AP _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 1FLO _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 0AP P P P 0 1 N N N 17.747 -3.852 6.428 3.045 2.909 -0.157 P 0AP 1 0AP OP1 OP1 O 0 1 N N N 19.017 -4.108 5.717 2.609 3.192 -1.543 OP1 0AP 2 0AP OP2 OP2 O 0 1 N N N 17.582 -4.310 7.827 3.148 4.290 0.665 OP2 0AP 3 0AP "O5'" "O5'" O 0 1 N N N 17.495 -2.283 6.434 1.975 1.940 0.555 "O5'" 0AP 4 0AP "C5'" "C5'" C 0 1 N N N 18.452 -1.387 5.876 1.581 0.680 0.008 "C5'" 0AP 5 0AP "C4'" "C4'" C 0 1 N N R 18.270 -1.286 4.380 0.556 0.020 0.932 "C4'" 0AP 6 0AP "O4'" "O4'" O 0 1 N N N 16.879 -1.022 4.073 -0.672 0.780 0.954 "O4'" 0AP 7 0AP "C3'" "C3'" C 0 1 N N S 19.042 -0.101 3.794 0.120 -1.356 0.369 "C3'" 0AP 8 0AP "O3'" "O3'" O 0 1 N N N 19.275 -0.382 2.409 1.015 -2.387 0.791 "O3'" 0AP 9 0AP P1 P1 P 0 1 N N N 20.534 0.251 1.654 1.856 -3.294 -0.241 P1 0AP 10 0AP O11 O11 O 0 1 N N N 20.871 -0.691 0.562 2.642 -2.419 -1.139 O11 0AP 11 0AP O21 O21 O 0 1 N N N 20.200 1.656 1.307 2.853 -4.255 0.580 O21 0AP 12 0AP O31 O31 O 0 1 N N N 21.674 0.228 2.770 0.844 -4.190 -1.115 O31 0AP 13 0AP "C2'" "C2'" C 0 1 N N N 18.042 1.035 3.927 -1.277 -1.541 1.012 "C2'" 0AP 14 0AP "C1'" "C1'" C 0 1 N N R 16.747 0.310 3.585 -1.710 -0.112 1.393 "C1'" 0AP 15 0AP N1 N1 N 0 1 N N N 15.441 0.859 4.015 -2.970 0.221 0.725 N1 0AP 16 0AP C2 C2 C 0 1 N N N 14.804 1.797 3.193 -3.015 0.298 -0.618 C2 0AP 17 0AP O2 O2 O 0 1 N N N 15.388 2.208 2.193 -2.003 0.087 -1.266 O2 0AP 18 0AP N3 N3 N 0 1 N N N 13.562 2.224 3.506 -4.147 0.599 -1.252 N3 0AP 19 0AP C4 C4 C 0 1 N N N 12.956 1.760 4.591 -5.262 0.833 -0.572 C4 0AP 20 0AP N4 N4 N 0 1 N N N 11.729 2.186 4.830 -6.426 1.143 -1.237 N4 0AP 21 0AP C5 C5 C 0 1 N N N 13.589 0.834 5.473 -5.248 0.761 0.836 C5 0AP 22 0AP C6 C6 C 0 1 N N N 14.829 0.424 5.155 -4.091 0.448 1.465 C6 0AP 23 0AP OP3 OP3 O 0 1 N N N 16.606 -4.437 5.447 4.486 2.192 -0.183 OP3 0AP 24 0AP "H5'1" "1H5'" H 0 0 N N N 18.318 -0.391 6.324 1.138 0.834 -0.976 "H5'1" 0AP 25 0AP "H5'2" "2H5'" H 0 0 N N N 19.462 -1.767 6.088 2.455 0.035 -0.085 "H5'2" 0AP 26 0AP "H4'" "H4'" H 0 1 N N N 18.628 -2.236 3.957 0.960 -0.085 1.939 "H4'" 0AP 27 0AP "H3'" "H3'" H 0 1 N N N 20.008 0.114 4.274 0.047 -1.327 -0.718 "H3'" 0AP 28 0AP "H1'" "H1'" H 0 1 N N N 16.670 0.422 2.493 -1.830 -0.038 2.474 "H1'" 0AP 29 0AP "H2'1" "1H2'" H 0 0 N N N 18.028 1.469 4.938 -1.974 -1.972 0.292 "H2'1" 0AP 30 0AP "H2'2" "2H2'" H 0 0 N N N 18.257 1.906 3.290 -1.208 -2.169 1.900 "H2'2" 0AP 31 0AP H4N1 1H4N H 0 0 N N N 11.374 1.772 5.669 -6.432 1.191 -2.206 H4N1 0AP 32 0AP H4N2 2H4N H 0 0 N N N 11.226 2.831 4.254 -7.240 1.313 -0.738 H4N2 0AP 33 0AP H10 H10 H 0 1 N N N 17.547 -5.259 7.848 3.776 4.924 0.292 H10 0AP 34 0AP H11 H11 H 0 1 N N N 20.129 2.171 2.102 3.392 -4.832 0.021 H11 0AP 35 0AP H12 H12 H 0 1 N N N 22.527 0.223 2.352 0.295 -4.789 -0.590 H12 0AP 36 0AP H13 H13 H 0 1 N N N 13.091 0.476 6.362 -6.148 0.949 1.404 H13 0AP 37 0AP H14 H14 H 0 1 N N N 15.348 -0.259 5.811 -4.056 0.382 2.543 H14 0AP 38 0AP H15 H15 H 0 1 N N N 15.798 -4.552 5.933 4.834 1.977 0.693 H15 0AP 39 # 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 0AP P OP1 DOUB N N 1 0AP P OP2 SING N N 2 0AP P "O5'" SING N N 3 0AP P OP3 SING N N 4 0AP "O5'" "C5'" SING N N 5 0AP "C5'" "C4'" SING N N 6 0AP "C5'" "H5'1" SING N N 7 0AP "C5'" "H5'2" SING N N 8 0AP "C4'" "O4'" SING N N 9 0AP "C4'" "C3'" SING N N 10 0AP "C4'" "H4'" SING N N 11 0AP "O4'" "C1'" SING N N 12 0AP "C3'" "O3'" SING N N 13 0AP "C3'" "C2'" SING N N 14 0AP "C3'" "H3'" SING N N 15 0AP "O3'" P1 SING N N 16 0AP P1 O11 DOUB N N 17 0AP P1 O21 SING N N 18 0AP P1 O31 SING N N 19 0AP "C2'" "C1'" SING N N 20 0AP "C2'" "H2'1" SING N N 21 0AP "C2'" "H2'2" SING N N 22 0AP "C1'" N1 SING N N 23 0AP "C1'" "H1'" SING N N 24 0AP N1 C2 SING N N 25 0AP N1 C6 SING N N 26 0AP C2 O2 DOUB N N 27 0AP C2 N3 SING N N 28 0AP N3 C4 DOUB N N 29 0AP C4 N4 SING N N 30 0AP C4 C5 SING N N 31 0AP N4 H4N1 SING N N 32 0AP N4 H4N2 SING N N 33 0AP C5 C6 DOUB N N 34 0AP OP2 H10 SING N N 35 0AP O21 H11 SING N N 36 0AP O31 H12 SING N N 37 0AP C5 H13 SING N N 38 0AP C6 H14 SING N N 39 0AP OP3 H15 SING N N 40 # 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 0AP SMILES ACDLabs 10.04 "O=C1N=C(N)C=CN1C2OC(C(OP(=O)(O)O)C2)COP(=O)(O)O" 0AP SMILES_CANONICAL CACTVS 3.341 "NC1=NC(=O)N(C=C1)[C@H]2C[C@H](O[P](O)(O)=O)[C@@H](CO[P](O)(O)=O)O2" 0AP SMILES CACTVS 3.341 "NC1=NC(=O)N(C=C1)[CH]2C[CH](O[P](O)(O)=O)[CH](CO[P](O)(O)=O)O2" 0AP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O)O)OP(=O)(O)O" 0AP SMILES "OpenEye OEToolkits" 1.5.0 "C1C(C(OC1N2C=CC(=NC2=O)N)COP(=O)(O)O)OP(=O)(O)O" 0AP InChI InChI 1.03 "InChI=1S/C9H15N3O10P2/c10-7-1-2-12(9(13)11-7)8-3-5(22-24(17,18)19)6(21-8)4-20-23(14,15)16/h1-2,5-6,8H,3-4H2,(H2,10,11,13)(H2,14,15,16)(H2,17,18,19)/t5-,6+,8+/m0/s1" 0AP InChIKey InChI 1.03 PIILJQRMNSOCFD-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 0AP "SYSTEMATIC NAME" ACDLabs 10.04 ;2'-deoxycytidine 3',5'-bis(dihydrogen phosphate) ; 0AP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-phosphonooxy-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 0AP "Create component" 2007-11-11 RCSB 0AP "Modify descriptor" 2011-06-04 RCSB #