data_1RY # _chem_comp.id 1RY _chem_comp.name "[[(2R,5S)-5-(4-azanyl-5-fluoranyl-2-oxidanylidene-pyrimidin-1-yl)-1,3-oxathiolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C8 H13 F N3 O12 P3 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2013-05-14 _chem_comp.pdbx_modified_date 2014-07-11 _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 487.186 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 1RY _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 4K4I _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 1RY OAC OAC O 0 1 N N N -35.427 25.410 8.344 4.946 -0.698 -2.302 OAC 1RY 1 1RY PAZ PAZ P 0 1 N N N -34.412 24.428 7.815 4.559 -1.385 -0.899 PAZ 1RY 2 1RY OAF OAF O 0 1 N N N -34.980 23.041 7.697 4.272 -2.952 -1.129 OAF 1RY 3 1RY OAG OAG O 0 1 N N N -33.704 24.860 6.560 5.678 -1.223 0.056 OAG 1RY 4 1RY OAQ OAQ O 0 1 N N N -33.288 24.378 8.963 3.240 -0.680 -0.302 OAQ 1RY 5 1RY PBB PBB P 0 1 N N N -33.012 23.109 9.912 2.954 0.734 0.414 PBB 1RY 6 1RY OAI OAI O 0 1 N N N -31.961 23.568 10.884 3.504 0.691 1.926 OAI 1RY 7 1RY OAE OAE O 0 1 N N N -34.299 22.529 10.416 3.641 1.812 -0.331 OAE 1RY 8 1RY OAR OAR O 0 1 N N N -32.241 22.077 8.944 1.369 1.017 0.427 OAR 1RY 9 1RY PBA PBA P 0 1 N N N -32.471 20.482 8.856 0.471 2.343 0.597 PBA 1RY 10 1RY OAH OAH O 0 1 N N N -31.591 19.995 7.728 1.031 3.428 -0.240 OAH 1RY 11 1RY OAD OAD O 0 1 N N N -33.964 20.239 8.822 0.475 2.800 2.141 OAD 1RY 12 1RY OAO OAO O 0 1 N N N -31.762 20.022 10.232 -1.038 2.032 0.132 OAO 1RY 13 1RY CAL CAL C 0 1 N N N -32.432 19.877 11.481 -2.054 3.035 0.065 CAL 1RY 14 1RY CAW CAW C 0 1 N N R -31.791 18.708 12.231 -3.364 2.404 -0.411 CAW 1RY 15 1RY OAP OAP O 0 1 N N N -30.368 18.851 12.195 -3.760 1.329 0.461 OAP 1RY 16 1RY SAS SAS S 0 1 N N N -32.216 17.166 11.468 -3.129 1.551 -2.026 SAS 1RY 17 1RY CAM CAM C 0 1 N N N -30.714 16.478 12.035 -4.460 0.319 -1.695 CAM 1RY 18 1RY CAX CAX C 0 1 N N S -29.705 17.608 12.185 -4.367 0.204 -0.150 CAX 1RY 19 1RY NAY NAY N 0 1 N N N -28.758 17.543 11.083 -3.586 -0.990 0.186 NAY 1RY 20 1RY CAK CAK C 0 1 N N N -29.100 17.985 9.867 -2.438 -0.868 0.912 CAK 1RY 21 1RY CAU CAU C 0 1 N N N -28.185 17.899 8.828 -1.728 -1.981 1.220 CAU 1RY 22 1RY FAJ FAJ F 0 1 N N N -28.490 18.356 7.605 -0.588 -1.890 1.938 FAJ 1RY 23 1RY CAV CAV C 0 1 N N N -27.549 17.001 11.278 -4.009 -2.202 -0.219 CAV 1RY 24 1RY OAB OAB O 0 1 N N N -27.199 16.540 12.486 -5.041 -2.292 -0.864 OAB 1RY 25 1RY NAN NAN N 0 1 N N N -26.647 16.895 10.300 -3.320 -3.303 0.071 NAN 1RY 26 1RY CAT CAT C 0 1 N N N -26.943 17.345 9.067 -2.201 -3.236 0.780 CAT 1RY 27 1RY NAA NAA N 0 1 N N N -26.036 17.256 8.066 -1.500 -4.383 1.078 NAA 1RY 28 1RY H1 H1 H 0 1 N N N -35.456 26.172 7.777 4.257 -0.766 -2.977 H1 1RY 29 1RY H2 H2 H 0 1 N N N -34.783 22.690 6.837 5.025 -3.441 -1.487 H2 1RY 30 1RY H3 H3 H 0 1 N N N -32.265 23.423 11.772 3.096 0.006 2.473 H3 1RY 31 1RY H4 H4 H 0 1 N N N -34.191 19.769 8.028 0.120 2.136 2.748 H4 1RY 32 1RY H5 H5 H 0 1 N N N -32.327 20.800 12.070 -2.200 3.472 1.053 H5 1RY 33 1RY H6 H6 H 0 1 N N N -33.499 19.670 11.310 -1.751 3.814 -0.635 H6 1RY 34 1RY H7 H7 H 0 1 N N N -32.166 18.673 13.265 -4.151 3.155 -0.481 H7 1RY 35 1RY H8 H8 H 0 1 N N N -30.872 15.987 13.007 -5.434 0.701 -2.001 H8 1RY 36 1RY H9 H9 H 0 1 N N N -30.343 15.741 11.308 -4.244 -0.634 -2.177 H9 1RY 37 1RY H10 H10 H 0 1 N N N -29.166 17.465 13.133 -5.372 0.084 0.253 H10 1RY 38 1RY H11 H11 H 0 1 N N N -30.080 18.405 9.696 -2.098 0.104 1.237 H11 1RY 39 1RY H12 H12 H 0 1 N N N -25.137 16.853 8.240 -0.679 -4.330 1.592 H12 1RY 40 1RY H13 H13 H 0 1 N N N -26.265 17.593 7.153 -1.827 -5.244 0.774 H13 1RY 41 # 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 1RY OAG PAZ DOUB N N 1 1RY FAJ CAU SING N N 2 1RY OAF PAZ SING N N 3 1RY OAH PBA DOUB N N 4 1RY PAZ OAC SING N N 5 1RY PAZ OAQ SING N N 6 1RY NAA CAT SING N N 7 1RY OAD PBA SING N N 8 1RY CAU CAT SING N N 9 1RY CAU CAK DOUB N N 10 1RY PBA OAR SING N N 11 1RY PBA OAO SING N N 12 1RY OAR PBB SING N N 13 1RY OAQ PBB SING N N 14 1RY CAT NAN DOUB N N 15 1RY CAK NAY SING N N 16 1RY PBB OAE DOUB N N 17 1RY PBB OAI SING N N 18 1RY OAO CAL SING N N 19 1RY NAN CAV SING N N 20 1RY NAY CAV SING N N 21 1RY NAY CAX SING N N 22 1RY CAV OAB DOUB N N 23 1RY SAS CAM SING N N 24 1RY SAS CAW SING N N 25 1RY CAL CAW SING N N 26 1RY CAM CAX SING N N 27 1RY CAX OAP SING N N 28 1RY OAP CAW SING N N 29 1RY OAC H1 SING N N 30 1RY OAF H2 SING N N 31 1RY OAI H3 SING N N 32 1RY OAD H4 SING N N 33 1RY CAL H5 SING N N 34 1RY CAL H6 SING N N 35 1RY CAW H7 SING N N 36 1RY CAM H8 SING N N 37 1RY CAM H9 SING N N 38 1RY CAX H10 SING N N 39 1RY CAK H11 SING N N 40 1RY NAA H12 SING N N 41 1RY NAA H13 SING N N 42 # 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 1RY InChI InChI 1.03 "InChI=1S/C8H13FN3O12P3S/c9-4-1-12(8(13)11-7(4)10)5-3-28-6(22-5)2-21-26(17,18)24-27(19,20)23-25(14,15)16/h1,5-6H,2-3H2,(H,17,18)(H,19,20)(H2,10,11,13)(H2,14,15,16)/t5-,6+/m0/s1" 1RY InChIKey InChI 1.03 WIEOLFZNMKSGEX-NTSWFWBYSA-N 1RY SMILES_CANONICAL CACTVS 3.370 "NC1=NC(=O)N(C=C1F)[C@@H]2CS[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O2" 1RY SMILES CACTVS 3.370 "NC1=NC(=O)N(C=C1F)[CH]2CS[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O2" 1RY SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1[C@H](O[C@H](S1)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)N2C=C(C(=NC2=O)N)F" 1RY SMILES "OpenEye OEToolkits" 1.7.6 "C1C(OC(S1)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)N2C=C(C(=NC2=O)N)F" # 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 1RY "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[[(2R,5S)-5-(4-azanyl-5-fluoranyl-2-oxidanylidene-pyrimidin-1-yl)-1,3-oxathiolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen 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 1RY "Create component" 2013-05-14 RCSB 1RY "Initial release" 2014-07-16 RCSB #