data_PGP # _chem_comp.id PGP _chem_comp.name "GUANOSINE-3',5'-DIPHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H15 N5 O11 P2" _chem_comp.mon_nstd_parent_comp_id G _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _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 443.201 _chem_comp.one_letter_code G _chem_comp.three_letter_code PGP _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1DUH _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 PGP P1 P1 P 0 1 N N N -2.803 49.524 -53.258 3.086 0.369 2.531 P1 PGP 1 PGP O4P O4P O 0 1 N N N -3.723 50.673 -53.021 2.155 0.664 3.643 O4P PGP 2 PGP O5P O5P O 0 1 N N N -3.269 48.351 -54.060 4.395 -0.370 3.109 O5P PGP 3 PGP O6P O6P O 0 1 N N N -1.490 50.084 -53.965 3.519 1.744 1.814 O6P PGP 4 PGP P P P 0 1 N N N -5.204 45.297 -51.725 -2.618 -0.217 4.131 P PGP 5 PGP OP1 O1P O 0 1 N N N -5.113 44.655 -53.065 -2.863 1.229 3.943 OP1 PGP 6 PGP OP2 O2P O 0 1 N N N -6.093 46.473 -51.525 -4.010 -0.961 4.447 OP2 PGP 7 PGP OP3 O3P O 0 1 N Y N -5.687 44.234 -50.621 -1.602 -0.433 5.362 OP3 PGP 8 PGP "O5'" O5* O 0 1 N N N -3.724 45.688 -51.277 -1.973 -0.831 2.790 "O5'" PGP 9 PGP "C5'" C5* C 0 1 N N N -3.502 46.584 -50.186 -0.746 -0.133 2.564 "C5'" PGP 10 PGP "C4'" C4* C 0 1 N N R -2.120 47.191 -50.278 -0.079 -0.671 1.297 "C4'" PGP 11 PGP "O4'" O4* O 0 1 N N N -1.105 46.202 -49.966 -0.929 -0.453 0.150 "O4'" PGP 12 PGP "C3'" C3* C 0 1 N N S -1.743 47.720 -51.651 1.210 0.120 0.988 "C3'" PGP 13 PGP "O3'" O3* O 0 1 N N N -2.277 49.038 -51.813 2.357 -0.588 1.461 "O3'" PGP 14 PGP "C2'" C2* C 0 1 N N R -0.213 47.688 -51.602 1.231 0.217 -0.555 "C2'" PGP 15 PGP "O2'" O2* O 0 1 N N N 0.351 48.815 -50.948 2.393 -0.425 -1.082 "O2'" PGP 16 PGP "C1'" C1* C 0 1 N N R 0.046 46.434 -50.759 -0.051 -0.524 -0.993 "C1'" PGP 17 PGP N9 N9 N 0 1 Y N N 0.321 45.211 -51.509 -0.659 0.145 -2.145 N9 PGP 18 PGP C8 C8 C 0 1 Y N N -0.600 44.286 -51.941 -1.568 1.162 -2.101 C8 PGP 19 PGP N7 N7 N 0 1 Y N N -0.056 43.266 -52.546 -1.894 1.516 -3.309 N7 PGP 20 PGP C5 C5 C 0 1 Y N N 1.306 43.537 -52.523 -1.216 0.750 -4.199 C5 PGP 21 PGP C6 C6 C 0 1 N N N 2.402 42.778 -53.017 -1.172 0.687 -5.611 C6 PGP 22 PGP O6 O6 O 0 1 N N N 2.379 41.696 -53.605 -1.849 1.438 -6.292 O6 PGP 23 PGP N1 N1 N 0 1 N N N 3.621 43.403 -52.766 -0.356 -0.222 -6.188 N1 PGP 24 PGP C2 C2 C 0 1 N N N 3.769 44.607 -52.127 0.392 -1.061 -5.417 C2 PGP 25 PGP N2 N2 N 0 1 N N N 5.036 45.041 -51.967 1.208 -1.979 -6.030 N2 PGP 26 PGP N3 N3 N 0 1 N N N 2.749 45.335 -51.670 0.360 -1.012 -4.104 N3 PGP 27 PGP C4 C4 C 0 1 Y N N 1.557 44.737 -51.897 -0.419 -0.134 -3.463 C4 PGP 28 PGP HOP5 5HOP H 0 0 N N N -2.682 47.618 -54.211 4.800 0.235 3.744 HOP5 PGP 29 PGP HOP6 6HOP H 0 0 N N N -0.903 49.351 -54.116 4.123 1.507 1.098 HOP6 PGP 30 PGP HOP2 2HOP H 0 0 N N N -6.151 46.882 -50.669 -4.362 -0.565 5.256 HOP2 PGP 31 PGP HOP3 3HOP H 0 0 N N N -5.745 44.643 -49.765 -1.469 -1.387 5.450 HOP3 PGP 32 PGP "H5'" 1H5* H 0 1 N N N -4.295 47.364 -50.121 -0.082 -0.281 3.416 "H5'" PGP 33 PGP "H5''" 2H5* H 0 0 N N N -3.674 46.090 -49.201 -0.951 0.930 2.444 "H5''" PGP 34 PGP "H4'" H4* H 0 1 N N N -2.159 48.038 -49.553 0.143 -1.732 1.408 "H4'" PGP 35 PGP "H3'" H3* H 0 1 N N N -2.140 47.139 -52.516 1.165 1.113 1.434 "H3'" PGP 36 PGP "H2'" H2* H 0 1 N N N 0.238 47.691 -52.621 1.195 1.259 -0.872 "H2'" PGP 37 PGP "HO2'" *HO2 H 0 0 N N N 1.300 48.795 -50.917 2.352 -0.332 -2.043 "HO2'" PGP 38 PGP "H1'" H1* H 0 1 N N N 0.969 46.647 -50.172 0.175 -1.562 -1.235 "H1'" PGP 39 PGP H8 H8 H 0 1 N N N -1.693 44.356 -51.811 -1.958 1.607 -1.197 H8 PGP 40 PGP HN1 HN1 H 0 1 N N N 4.475 42.940 -53.075 -0.308 -0.284 -7.155 HN1 PGP 41 PGP HN21 1HN2 H 0 0 N N N 5.146 45.936 -51.491 1.750 -2.579 -5.495 HN21 PGP 42 PGP HN22 2HN2 H 0 0 N N N 5.508 45.068 -52.870 1.240 -2.029 -6.998 HN22 PGP 43 # 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 PGP P1 O4P DOUB N N 1 PGP P1 O5P SING N N 2 PGP P1 O6P SING N N 3 PGP P1 "O3'" SING N N 4 PGP O5P HOP5 SING N N 5 PGP O6P HOP6 SING N N 6 PGP P OP1 DOUB N N 7 PGP P OP2 SING N N 8 PGP P OP3 SING N N 9 PGP P "O5'" SING N N 10 PGP OP2 HOP2 SING N N 11 PGP OP3 HOP3 SING N N 12 PGP "O5'" "C5'" SING N N 13 PGP "C5'" "C4'" SING N N 14 PGP "C5'" "H5'" SING N N 15 PGP "C5'" "H5''" SING N N 16 PGP "C4'" "O4'" SING N N 17 PGP "C4'" "C3'" SING N N 18 PGP "C4'" "H4'" SING N N 19 PGP "O4'" "C1'" SING N N 20 PGP "C3'" "O3'" SING N N 21 PGP "C3'" "C2'" SING N N 22 PGP "C3'" "H3'" SING N N 23 PGP "C2'" "O2'" SING N N 24 PGP "C2'" "C1'" SING N N 25 PGP "C2'" "H2'" SING N N 26 PGP "O2'" "HO2'" SING N N 27 PGP "C1'" N9 SING N N 28 PGP "C1'" "H1'" SING N N 29 PGP N9 C8 SING Y N 30 PGP N9 C4 SING Y N 31 PGP C8 N7 DOUB Y N 32 PGP C8 H8 SING N N 33 PGP N7 C5 SING Y N 34 PGP C5 C6 SING N N 35 PGP C5 C4 DOUB Y N 36 PGP C6 O6 DOUB N N 37 PGP C6 N1 SING N N 38 PGP N1 C2 SING N N 39 PGP N1 HN1 SING N N 40 PGP C2 N2 SING N N 41 PGP C2 N3 DOUB N N 42 PGP N2 HN21 SING N N 43 PGP N2 HN22 SING N N 44 PGP N3 C4 SING N N 45 # 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 PGP SMILES ACDLabs 10.04 "O=C1c2ncn(c2N=C(N)N1)C3OC(C(OP(=O)(O)O)C3O)COP(=O)(O)O" PGP SMILES_CANONICAL CACTVS 3.341 "NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O[P](O)(O)=O)[C@H]3O" PGP SMILES CACTVS 3.341 "NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH]3O" PGP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)OP(=O)(O)O)O)N=C(NC2=O)N" PGP SMILES "OpenEye OEToolkits" 1.5.0 "c1nc2c(n1C3C(C(C(O3)COP(=O)(O)O)OP(=O)(O)O)O)N=C(NC2=O)N" PGP InChI InChI 1.03 "InChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(17)14-10)12-2-15(7)9-5(16)6(26-28(21,22)23)3(25-9)1-24-27(18,19)20/h2-3,5-6,9,16H,1H2,(H2,18,19,20)(H2,21,22,23)(H3,11,13,14,17)/t3-,5-,6-,9-/m1/s1" PGP InChIKey InChI 1.03 XYVNHPYNSPGYLI-UUOKFMHZSA-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 PGP "SYSTEMATIC NAME" ACDLabs 10.04 ;guanosine 3',5'-bis(dihydrogen phosphate) ; PGP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-4-hydroxy-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 PGP "Create component" 1999-07-08 RCSB PGP "Modify descriptor" 2011-06-04 RCSB #