data_9YP # _chem_comp.id 9YP _chem_comp.name "{[(2R)-2-[(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)methyl]-3-(2-phosphonoethoxy)propoxy]methyl}phosphonic acid" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C12 H21 N5 O9 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2017-06-27 _chem_comp.pdbx_modified_date 2024-03-02 _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 441.271 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 9YP _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 5W8V _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.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 9YP OAE O1 O 0 1 N N N N N N -1.448 28.053 81.689 6.372 -2.297 -1.409 OAE 9YP 1 9YP PBA P1 P 0 1 N N N N N N -0.429 29.192 81.990 5.412 -2.134 -0.127 PBA 9YP 2 9YP OAF O2 O 0 1 N N N N N N 0.903 28.915 81.229 5.213 -3.454 0.512 OAF 9YP 3 9YP OAC O3 O 0 1 N N N N N N -0.160 29.250 83.461 6.092 -1.125 0.928 OAC 9YP 4 9YP CAL C1 C 0 1 N N N N N N -1.125 30.792 81.459 3.800 -1.466 -0.655 CAL 9YP 5 9YP CAK C2 C 0 1 N N N N N N -0.457 31.484 80.323 2.847 -1.428 0.540 CAK 9YP 6 9YP OAS O4 O 0 1 N N N N N N -0.947 31.206 79.068 1.584 -0.904 0.126 OAS 9YP 7 9YP CAM C3 C 0 1 N N N N N N -0.229 30.366 78.250 0.615 -0.825 1.174 CAM 9YP 8 9YP CAY C4 C 0 1 N N R N N N -0.900 29.859 77.022 -0.691 -0.254 0.619 CAY 9YP 9 9YP CAN C5 C 0 1 N N N N N N 0.007 30.025 75.851 -0.465 1.191 0.168 CAN 9YP 10 9YP OAT O5 O 0 1 N N N N N N 0.984 30.999 75.891 0.451 1.209 -0.928 OAT 9YP 11 9YP CAO C6 C 0 1 N N N N N N 1.837 31.096 74.812 0.733 2.518 -1.429 CAO 9YP 12 9YP PBB P2 P 0 1 N N N N N N 2.493 32.724 74.299 1.848 3.383 -0.274 PBB 9YP 13 9YP OAG O6 O 0 1 N N N N N N 3.176 33.444 75.496 2.165 4.857 -0.838 OAG 9YP 14 9YP OAH O7 O 0 1 N N N N N N 3.531 32.501 73.163 1.198 3.490 1.051 OAH 9YP 15 9YP OAD O8 O 0 1 N N N N N N 1.386 33.590 73.789 3.221 2.555 -0.133 OAD 9YP 16 9YP CAP C7 C 0 1 N N N N N N -2.198 30.560 76.769 -1.765 -0.286 1.708 CAP 9YP 17 9YP NAZ N1 N 0 1 Y N N N N N -2.959 30.062 75.661 -3.046 0.149 1.144 NAZ 9YP 18 9YP CAW C8 C 0 1 Y N N N N N -3.812 28.973 75.700 -3.948 -0.638 0.483 CAW 9YP 19 9YP NAJ N2 N 0 1 N N N N N N -4.199 28.104 76.696 -3.988 -1.934 0.151 NAJ 9YP 20 9YP CAU C9 C 0 1 N N N N N N -5.071 27.120 76.444 -5.011 -2.436 -0.504 CAU 9YP 21 9YP NAA N3 N 0 1 N N N N N N -5.456 26.233 77.496 -5.008 -3.771 -0.823 NAA 9YP 22 9YP NAR N4 N 0 1 N N N N N N -5.587 26.953 75.211 -6.076 -1.670 -0.875 NAR 9YP 23 9YP CAV C10 C 0 1 N N N N N N -5.257 27.761 74.182 -6.106 -0.352 -0.574 CAV 9YP 24 9YP OAB O9 O 0 1 N N N N N N -5.802 27.563 72.935 -7.053 0.342 -0.901 OAB 9YP 25 9YP CAX C11 C 0 1 Y N N N N N -4.331 28.819 74.430 -5.011 0.201 0.130 CAX 9YP 26 9YP NAQ N5 N 0 1 Y N N N N N -3.771 29.819 73.653 -4.711 1.442 0.585 NAQ 9YP 27 9YP CAI C12 C 0 1 Y N N N N N -2.941 30.558 74.412 -3.559 1.413 1.188 CAI 9YP 28 9YP H1 H1 H 0 1 N N N N N N -1.052 27.420 81.102 7.248 -2.649 -1.202 H1 9YP 29 9YP H2 H2 H 0 1 N N N N N N 0.765 29.106 83.620 6.252 -0.238 0.576 H2 9YP 30 9YP H3 H3 H 0 1 N N N N N N -1.092 31.470 82.324 3.935 -0.457 -1.045 H3 9YP 31 9YP H4 H4 H 0 1 N N N N N N -2.172 30.617 81.170 3.381 -2.103 -1.434 H4 9YP 32 9YP H5 H5 H 0 1 N N N N N N 0.606 31.203 80.338 2.712 -2.437 0.930 H5 9YP 33 9YP H6 H6 H 0 1 N N N N N N -0.552 32.567 80.488 3.266 -0.791 1.319 H6 9YP 34 9YP H7 H7 H 0 1 N N N N N N 0.062 29.492 78.851 0.434 -1.822 1.576 H7 9YP 35 9YP H8 H8 H 0 1 N N N N N N 0.673 30.909 77.932 0.988 -0.176 1.966 H8 9YP 36 9YP H9 H9 H 0 1 N N N N N N -1.105 28.786 77.154 -1.018 -0.853 -0.231 H9 9YP 37 9YP H10 H10 H 0 1 N N N N N N -0.629 30.242 74.980 -1.414 1.627 -0.145 H10 9YP 38 9YP H11 H11 H 0 1 N N N N N N 0.518 29.063 75.701 -0.054 1.769 0.995 H11 9YP 39 9YP H12 H12 H 0 1 N N N N N N 1.299 30.685 73.945 1.211 2.439 -2.405 H12 9YP 40 9YP H13 H13 H 0 1 N N N N N N 2.707 30.462 75.038 -0.197 3.078 -1.524 H13 9YP 41 9YP H14 H14 H 0 1 N N N N N N 4.090 33.602 75.291 2.754 5.376 -0.273 H14 9YP 42 9YP H15 H15 H 0 1 N N N N N N 1.554 33.818 72.882 3.702 2.445 -0.965 H15 9YP 43 9YP H16 H16 H 0 1 N N N N N N -1.980 31.622 76.581 -1.863 -1.301 2.092 H16 9YP 44 9YP H17 H17 H 0 1 N N N N N N -2.816 30.467 77.674 -1.480 0.384 2.520 H17 9YP 45 9YP H18 H18 H 0 1 N N N N N N -5.075 26.350 78.413 -4.258 -4.329 -0.565 H18 9YP 46 9YP H19 H19 H 0 1 N N N N N N -6.107 25.496 77.315 -5.756 -4.156 -1.306 H19 9YP 47 9YP H20 H20 H 0 1 N N N N N N -6.234 26.207 75.053 -6.815 -2.072 -1.357 H20 9YP 48 9YP H21 H21 H 0 1 N N N N N N -2.360 31.404 74.075 -3.076 2.264 1.646 H21 9YP 49 # 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 9YP OAB CAV DOUB N N 1 9YP OAH PBB DOUB N N 2 9YP NAQ CAI DOUB Y N 3 9YP NAQ CAX SING Y N 4 9YP OAD PBB SING N N 5 9YP CAV CAX SING N N 6 9YP CAV NAR SING N N 7 9YP PBB CAO SING N N 8 9YP PBB OAG SING N N 9 9YP CAI NAZ SING Y N 10 9YP CAX CAW DOUB Y N 11 9YP CAO OAT SING N N 12 9YP NAR CAU SING N N 13 9YP NAZ CAW SING Y N 14 9YP NAZ CAP SING N N 15 9YP CAW NAJ SING N N 16 9YP CAN OAT SING N N 17 9YP CAN CAY SING N N 18 9YP CAU NAJ DOUB N N 19 9YP CAU NAA SING N N 20 9YP CAP CAY SING N N 21 9YP CAY CAM SING N N 22 9YP CAM OAS SING N N 23 9YP OAS CAK SING N N 24 9YP CAK CAL SING N N 25 9YP OAF PBA DOUB N N 26 9YP CAL PBA SING N N 27 9YP OAE PBA SING N N 28 9YP PBA OAC SING N N 29 9YP OAE H1 SING N N 30 9YP OAC H2 SING N N 31 9YP CAL H3 SING N N 32 9YP CAL H4 SING N N 33 9YP CAK H5 SING N N 34 9YP CAK H6 SING N N 35 9YP CAM H7 SING N N 36 9YP CAM H8 SING N N 37 9YP CAY H9 SING N N 38 9YP CAN H10 SING N N 39 9YP CAN H11 SING N N 40 9YP CAO H12 SING N N 41 9YP CAO H13 SING N N 42 9YP OAG H14 SING N N 43 9YP OAD H15 SING N N 44 9YP CAP H16 SING N N 45 9YP CAP H17 SING N N 46 9YP NAA H18 SING N N 47 9YP NAA H19 SING N N 48 9YP NAR H20 SING N N 49 9YP CAI H21 SING N N 50 # 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 9YP SMILES ACDLabs 12.01 "O=P(O)(O)CCOCC(COCP(=O)(O)O)Cn1cnc2c1N=C(N)NC2=O" 9YP InChI InChI 1.06 "InChI=1S/C12H21N5O9P2/c13-12-15-10-9(11(18)16-12)14-6-17(10)3-8(5-26-7-28(22,23)24)4-25-1-2-27(19,20)21/h6,8H,1-5,7H2,(H2,19,20,21)(H2,22,23,24)(H3,13,15,16,18)/t8-/m1/s1" 9YP InChIKey InChI 1.06 VTOAZXSSULBZBZ-MRVPVSSYSA-N 9YP SMILES_CANONICAL CACTVS 3.385 "NC1=Nc2n(C[C@H](COCC[P](O)(O)=O)COC[P](O)(O)=O)cnc2C(=O)N1" 9YP SMILES CACTVS 3.385 "NC1=Nc2n(C[CH](COCC[P](O)(O)=O)COC[P](O)(O)=O)cnc2C(=O)N1" 9YP SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc2c(n1C[C@H](COCCP(=O)(O)O)COCP(=O)(O)O)N=C(NC2=O)N" 9YP SMILES "OpenEye OEToolkits" 2.0.7 "c1nc2c(n1CC(COCCP(=O)(O)O)COCP(=O)(O)O)N=C(NC2=O)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 9YP "SYSTEMATIC NAME" ACDLabs 12.01 "{[(2R)-2-[(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)methyl]-3-(2-phosphonoethoxy)propoxy]methyl}phosphonic acid" 9YP "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R})-2-[(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)methyl]-3-(2-phosphonoethoxy)propoxy]methylphosphonic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 9YP "Create component" 2017-06-27 RCSB 9YP "Initial release" 2017-08-30 RCSB 9YP "Modify atom id" 2024-03-02 RCSB #