data_PGN # _chem_comp.id PGN _chem_comp.name "2'-DEOXYGUANOSINE-3',5'-DIPHOSPHATE" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H15 N5 O10 P2" _chem_comp.mon_nstd_parent_comp_id DG _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2001-07-02 _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 427.201 _chem_comp.one_letter_code G _chem_comp.three_letter_code PGN _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 ? _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 PGN P1 P1 P 0 1 N N N -8.652 0.840 9.232 0.705 -1.727 -2.352 P1 PGN 1 PGN O4P O4P O 0 1 N N N -8.146 0.436 10.565 0.413 -2.287 -0.990 O4P PGN 2 PGN O5P O5P O 0 1 N N N -10.099 1.106 9.069 1.453 -2.739 -3.368 O5P PGN 3 PGN O6P O6P O 0 1 N N N ? ? ? -0.594 -1.252 -3.188 O6P PGN 4 PGN P P P 0 1 N N N -10.531 0.309 3.644 3.461 4.758 -3.952 P PGN 5 PGN OP1 O1P O 0 1 N N N -11.913 -0.217 3.707 4.534 5.779 -3.708 OP1 PGN 6 PGN OP2 O2P O 0 1 N N N -10.173 1.505 4.440 1.983 5.359 -4.217 OP2 PGN 7 PGN OP3 O3P O 0 1 N Y N ? ? ? 3.708 3.799 -5.230 OP3 PGN 8 PGN "O5'" O5* O 0 1 N N N -9.513 -0.901 4.007 3.235 3.702 -2.745 "O5'" PGN 9 PGN "C5'" C5* C 0 1 N N N -9.673 -1.759 5.131 2.240 2.706 -2.896 "C5'" PGN 10 PGN "C4'" C4* C 0 1 N N R -8.535 -1.581 6.151 2.219 1.846 -1.646 "C4'" PGN 11 PGN "O4'" O4* O 0 1 N N N -7.278 -1.859 5.563 1.879 2.654 -0.508 "O4'" PGN 12 PGN "C3'" C3* C 0 1 N N S -8.504 -0.193 6.791 1.177 0.741 -1.684 "C3'" PGN 13 PGN "O3'" O3* O 0 1 N N N -8.242 -0.312 8.182 1.636 -0.408 -2.366 "O3'" PGN 14 PGN "C2'" C2* C 0 1 N N N -7.289 0.390 6.079 0.970 0.461 -0.212 "C2'" PGN 15 PGN "C1'" C1* C 0 1 N N R -6.409 -0.835 5.975 1.171 1.827 0.433 "C1'" PGN 16 PGN N9 N9 N 0 1 Y N N -5.247 -0.695 5.075 -0.077 2.488 0.819 N9 PGN 17 PGN C8 C8 C 0 1 Y N N -4.878 0.430 4.411 -0.848 3.296 0.017 C8 PGN 18 PGN N7 N7 N 0 1 Y N N -3.673 0.423 3.925 -1.918 3.751 0.639 N7 PGN 19 PGN C5 C5 C 0 1 Y N N -3.215 -0.851 4.248 -1.825 3.211 1.888 C5 PGN 20 PGN C6 C6 C 0 1 N N N -1.942 -1.456 4.000 -2.721 3.365 3.001 C6 PGN 21 PGN O6 O6 O 0 1 N N N -0.947 -0.951 3.486 -3.741 4.041 2.966 O6 PGN 22 PGN N1 N1 N 0 1 N N N -1.888 -2.778 4.428 -2.263 2.641 4.111 N1 PGN 23 PGN C2 C2 C 0 1 N N N -2.930 -3.441 5.042 -1.083 1.861 4.148 C2 PGN 24 PGN N2 N2 N 0 1 N N N -2.692 -4.708 5.380 -0.830 1.237 5.342 N2 PGN 25 PGN N3 N3 N 0 1 N N N -4.110 -2.861 5.335 -0.281 1.738 3.113 N3 PGN 26 PGN C4 C4 C 0 1 Y N N -4.194 -1.568 4.906 -0.705 2.429 2.031 C4 PGN 27 PGN HOP5 5HOP H 0 0 N N N -10.571 0.282 9.034 1.101 -3.648 -3.477 HOP5 PGN 28 PGN HOP6 6HOP H 0 0 N N N -0.324 0.259 -0.854 -1.366 -1.854 -3.248 HOP6 PGN 29 PGN HOP2 2HOP H 0 0 N N N -10.954 2.018 4.610 1.875 6.082 -4.871 HOP2 PGN 30 PGN HOP3 3HOP H 0 0 N N N 0.887 0.338 -0.040 3.963 4.205 -6.086 HOP3 PGN 31 PGN "H5'" 1H5* H 0 1 N N N -9.655 -2.799 4.774 1.270 3.186 -3.037 "H5'" PGN 32 PGN "H5''" 2H5* H 0 0 N N N -10.628 -1.522 5.623 2.475 2.094 -3.768 "H5''" PGN 33 PGN "H4'" H4* H 0 1 N N N -8.740 -2.305 6.953 3.224 1.436 -1.487 "H4'" PGN 34 PGN "H3'" H3* H 0 1 N N N -9.430 0.394 6.701 0.241 1.086 -2.140 "H3'" PGN 35 PGN "H2'" 1H2* H 0 1 N N N -6.823 1.239 6.600 -0.002 0.004 0.001 "H2'" PGN 36 PGN "H2''" 2H2* H 0 0 N N N -7.540 0.812 5.095 1.736 -0.240 0.147 "H2''" PGN 37 PGN "H1'" H1* H 0 1 N N N -5.929 -1.039 6.943 1.753 1.756 1.357 "H1'" PGN 38 PGN H8 H8 H 0 1 N N N -5.541 1.274 4.295 -0.576 3.514 -1.007 H8 PGN 39 PGN HN1 HN1 H 0 1 N N N -1.037 -3.282 4.281 -2.824 2.680 4.958 HN1 PGN 40 PGN HN21 1HN2 H 0 0 N N N -1.834 -5.198 5.224 -1.587 0.804 5.817 HN21 PGN 41 PGN HN22 2HN2 H 0 0 N N N -3.507 -5.092 5.815 0.102 1.241 5.687 HN22 PGN 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 PGN P1 O4P DOUB N N 1 PGN P1 O5P SING N N 2 PGN P1 O6P SING N N 3 PGN P1 "O3'" SING N N 4 PGN O5P HOP5 SING N N 5 PGN O6P HOP6 SING N N 6 PGN P OP1 DOUB N N 7 PGN P OP2 SING N N 8 PGN P OP3 SING N N 9 PGN P "O5'" SING N N 10 PGN OP2 HOP2 SING N N 11 PGN OP3 HOP3 SING N N 12 PGN "O5'" "C5'" SING N N 13 PGN "C5'" "C4'" SING N N 14 PGN "C5'" "H5'" SING N N 15 PGN "C5'" "H5''" SING N N 16 PGN "C4'" "O4'" SING N N 17 PGN "C4'" "C3'" SING N N 18 PGN "C4'" "H4'" SING N N 19 PGN "O4'" "C1'" SING N N 20 PGN "C3'" "O3'" SING N N 21 PGN "C3'" "C2'" SING N N 22 PGN "C3'" "H3'" SING N N 23 PGN "C2'" "C1'" SING N N 24 PGN "C2'" "H2'" SING N N 25 PGN "C2'" "H2''" SING N N 26 PGN "C1'" N9 SING N N 27 PGN "C1'" "H1'" SING N N 28 PGN N9 C8 SING Y N 29 PGN N9 C4 SING Y N 30 PGN C8 N7 DOUB Y N 31 PGN C8 H8 SING N N 32 PGN N7 C5 SING Y N 33 PGN C5 C6 SING N N 34 PGN C5 C4 DOUB Y N 35 PGN C6 O6 DOUB N N 36 PGN C6 N1 SING N N 37 PGN N1 C2 SING N N 38 PGN N1 HN1 SING N N 39 PGN C2 N2 SING N N 40 PGN C2 N3 DOUB N N 41 PGN N2 HN21 SING N N 42 PGN N2 HN22 SING N N 43 PGN N3 C4 SING N N 44 # 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 PGN SMILES ACDLabs 10.04 "O=C1c2ncn(c2N=C(N)N1)C3OC(C(OP(=O)(O)O)C3)COP(=O)(O)O" PGN SMILES_CANONICAL CACTVS 3.341 "NC1=Nc2n(cnc2C(=O)N1)[C@H]3C[C@H](O[P](O)(O)=O)[C@@H](CO[P](O)(O)=O)O3" PGN SMILES CACTVS 3.341 "NC1=Nc2n(cnc2C(=O)N1)[CH]3C[CH](O[P](O)(O)=O)[CH](CO[P](O)(O)=O)O3" PGN SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1nc2c(n1[C@H]3C[C@@H]([C@H](O3)COP(=O)(O)O)OP(=O)(O)O)N=C(NC2=O)N" PGN SMILES "OpenEye OEToolkits" 1.5.0 "c1nc2c(n1C3CC(C(O3)COP(=O)(O)O)OP(=O)(O)O)N=C(NC2=O)N" PGN InChI InChI 1.03 "InChI=1S/C10H15N5O10P2/c11-10-13-8-7(9(16)14-10)12-3-15(8)6-1-4(25-27(20,21)22)5(24-6)2-23-26(17,18)19/h3-6H,1-2H2,(H2,17,18,19)(H2,20,21,22)(H3,11,13,14,16)/t4-,5+,6+/m0/s1" PGN InChIKey InChI 1.03 HLOADLNVPDIIIB-KVQBGUIXSA-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 PGN "SYSTEMATIC NAME" ACDLabs 10.04 ;2'-deoxyguanosine 3',5'-bis(dihydrogen phosphate) ; PGN "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-2-(phosphonooxymethyl)oxolan-3-yl] 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 PGN "Create component" 2001-07-02 RCSB PGN "Modify descriptor" 2011-06-04 RCSB #