data_V2S # _chem_comp.id V2S _chem_comp.name "(2~{S})-2-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]amino]-3-phenyl-propanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H23 N6 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-06-19 _chem_comp.pdbx_modified_date 2021-03-12 _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 494.395 _chem_comp.one_letter_code ? _chem_comp.three_letter_code V2S _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 6XHF _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 V2S C C1 C 0 1 N N N 5.739 -6.670 32.181 -1.279 1.092 0.662 C V2S 1 V2S O O1 O 0 1 N N N 6.807 -5.799 31.821 -0.623 2.178 0.223 O V2S 2 V2S CA C2 C 0 1 N N S 5.653 -7.244 33.595 -2.715 0.868 0.264 CA V2S 3 V2S CB C3 C 0 1 N N N 4.482 -6.572 34.311 -3.570 2.039 0.753 CB V2S 4 V2S CG C4 C 0 1 Y N N 4.183 -7.292 35.603 -4.981 1.875 0.250 CG V2S 5 V2S C6 C5 C 0 1 Y N N 9.754 -9.634 42.433 5.772 2.671 -0.029 C6 V2S 6 V2S C5 C6 C 0 1 Y N N 8.943 -9.923 41.216 4.567 1.957 0.086 C5 V2S 7 V2S C4 C7 C 0 1 Y N N 9.684 -10.438 40.049 4.535 0.631 -0.377 C4 V2S 8 V2S C2 C8 C 0 1 Y N N 11.703 -10.281 41.312 6.745 0.809 -0.985 C2 V2S 9 V2S OXT O2 O 0 1 N N N 4.756 -7.021 31.207 -0.717 0.293 1.372 OXT V2S 10 V2S OP1 O3 O 0 1 N N N 8.291 -7.928 32.347 -3.547 -2.906 0.439 OP1 V2S 11 V2S P P1 P 0 1 N N N 8.363 -7.454 33.786 -3.049 -1.669 -0.203 P V2S 12 V2S OP2 O4 O 0 1 N N N 9.401 -6.388 34.000 -3.910 -1.368 -1.530 OP2 V2S 13 V2S N10 N1 N 0 1 N N N 6.898 -6.876 34.269 -3.201 -0.380 0.868 N10 V2S 14 V2S CD1 C9 C 0 1 Y N N 4.307 -8.682 35.631 -5.909 1.183 1.007 CD1 V2S 15 V2S CE1 C10 C 0 1 Y N N 4.077 -9.369 36.823 -7.203 1.033 0.545 CE1 V2S 16 V2S CZ C11 C 0 1 Y N N 3.669 -8.656 37.953 -7.570 1.576 -0.672 CZ V2S 17 V2S CE2 C12 C 0 1 Y N N 3.560 -7.262 37.917 -6.643 2.269 -1.428 CE2 V2S 18 V2S CD2 C13 C 0 1 Y N N 3.819 -6.560 36.740 -5.349 2.422 -0.964 CD2 V2S 19 V2S "O5'" O5 O 0 1 N N N 8.690 -8.665 34.790 -1.500 -1.857 -0.600 "O5'" V2S 20 V2S "C5'" C14 C 0 1 N N N 9.910 -9.395 34.674 -0.535 -2.433 0.283 "C5'" V2S 21 V2S "C4'" C15 C 0 1 N N R 9.729 -10.645 35.527 0.832 -2.462 -0.404 "C4'" V2S 22 V2S "O4'" O6 O 0 1 N N N 10.013 -10.393 36.914 1.306 -1.120 -0.606 "O4'" V2S 23 V2S "C1'" C16 C 0 1 N N R 9.085 -11.160 37.711 2.742 -1.153 -0.462 "C1'" V2S 24 V2S "C2'" C17 C 0 1 N N R 7.813 -11.328 36.883 2.964 -2.121 0.728 "C2'" V2S 25 V2S "O2'" O7 O 0 1 N N N 7.247 -12.627 37.106 4.260 -2.718 0.665 "O2'" V2S 26 V2S "C3'" C18 C 0 1 N N S 8.278 -11.127 35.443 1.856 -3.178 0.497 "C3'" V2S 27 V2S "O3'" O8 O 0 1 N N N 8.233 -12.353 34.707 2.391 -4.325 -0.167 "O3'" V2S 28 V2S N9 N2 N 0 1 Y N N 8.776 -10.636 39.077 3.260 0.180 -0.147 N9 V2S 29 V2S C8 C19 C 0 1 Y N N 7.555 -10.326 39.565 2.564 1.200 0.431 C8 V2S 30 V2S N7 N3 N 0 1 Y N N 7.647 -9.868 40.844 3.333 2.242 0.566 N7 V2S 31 V2S N6 N4 N 0 1 N N N 9.123 -9.174 43.541 5.863 3.981 0.410 N6 V2S 32 V2S N1 N5 N 0 1 Y N N 11.106 -9.847 42.418 6.823 2.058 -0.563 N1 V2S 33 V2S N3 N6 N 0 1 Y N N 11.031 -10.574 40.173 5.636 0.104 -0.903 N3 V2S 34 V2S H1 H1 H 0 1 N N N 6.717 -5.547 30.909 0.296 2.280 0.505 H1 V2S 35 V2S H2 H2 H 0 1 N N N 5.515 -8.335 33.564 -2.784 0.796 -0.822 H2 V2S 36 V2S H3 H3 H 0 1 N N N 4.741 -5.525 34.529 -3.572 2.056 1.843 H3 V2S 37 V2S H4 H4 H 0 1 N N N 3.593 -6.603 33.663 -3.155 2.973 0.376 H4 V2S 38 V2S H5 H5 H 0 1 N N N 12.776 -10.406 41.322 7.623 0.350 -1.413 H5 V2S 39 V2S H6 H6 H 0 1 N N N 9.835 -6.198 33.177 -3.637 -0.570 -2.003 H6 V2S 40 V2S H7 H7 H 0 1 N N N 6.960 -5.879 34.215 -2.723 -0.572 1.735 H7 V2S 41 V2S H8 H8 H 0 1 N N N 4.579 -9.222 34.736 -5.622 0.759 1.957 H8 V2S 42 V2S H9 H9 H 0 1 N N N 4.213 -10.439 36.872 -7.927 0.492 1.135 H9 V2S 43 V2S H10 H10 H 0 1 N N N 3.435 -9.187 38.864 -8.581 1.459 -1.033 H10 V2S 44 V2S H11 H11 H 0 1 N N N 3.273 -6.724 38.809 -6.929 2.692 -2.379 H11 V2S 45 V2S H12 H12 H 0 1 N N N 3.741 -5.483 36.706 -4.626 2.967 -1.553 H12 V2S 46 V2S H13 H13 H 0 1 N N N 10.093 -9.670 33.625 -0.472 -1.836 1.193 H13 V2S 47 V2S H14 H14 H 0 1 N N N 10.753 -8.795 35.048 -0.836 -3.450 0.536 H14 V2S 48 V2S H15 H15 H 0 1 N N N 10.389 -11.437 35.144 0.754 -2.975 -1.362 H15 V2S 49 V2S H16 H16 H 0 1 N N N 9.511 -12.166 37.841 3.209 -1.541 -1.367 H16 V2S 50 V2S H17 H17 H 0 1 N N N 7.095 -10.539 37.150 2.819 -1.608 1.679 H17 V2S 51 V2S H18 H18 H 0 1 N N N 6.974 -12.703 38.013 4.446 -3.332 1.389 H18 V2S 52 V2S H19 H19 H 0 1 N N N 7.661 -10.355 34.960 1.398 -3.464 1.444 H19 V2S 53 V2S H20 H20 H 0 1 N N N 7.335 -12.657 34.652 3.041 -4.814 0.355 H20 V2S 54 V2S H21 H21 H 0 1 N N N 6.631 -10.428 39.015 1.528 1.151 0.732 H21 V2S 55 V2S H22 H22 H 0 1 N N N 9.791 -9.037 44.273 5.090 4.416 0.802 H22 V2S 56 V2S H23 H23 H 0 1 N N N 8.674 -8.305 43.332 6.700 4.463 0.325 H23 V2S 57 # # 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 V2S OXT C DOUB N N 1 V2S O C SING N N 2 V2S C CA SING N N 3 V2S OP1 P DOUB N N 4 V2S CA N10 SING N N 5 V2S CA CB SING N N 6 V2S P OP2 SING N N 7 V2S P N10 SING N N 8 V2S P "O5'" SING N N 9 V2S CB CG SING N N 10 V2S "C5'" "O5'" SING N N 11 V2S "C5'" "C4'" SING N N 12 V2S "O3'" "C3'" SING N N 13 V2S "C3'" "C4'" SING N N 14 V2S "C3'" "C2'" SING N N 15 V2S "C4'" "O4'" SING N N 16 V2S CG CD1 DOUB Y N 17 V2S CG CD2 SING Y N 18 V2S CD1 CE1 SING Y N 19 V2S CD2 CE2 DOUB Y N 20 V2S CE1 CZ DOUB Y N 21 V2S "C2'" "O2'" SING N N 22 V2S "C2'" "C1'" SING N N 23 V2S "O4'" "C1'" SING N N 24 V2S "C1'" N9 SING N N 25 V2S CE2 CZ SING Y N 26 V2S N9 C8 SING Y N 27 V2S N9 C4 SING Y N 28 V2S C8 N7 DOUB Y N 29 V2S C4 N3 DOUB Y N 30 V2S C4 C5 SING Y N 31 V2S N3 C2 SING Y N 32 V2S N7 C5 SING Y N 33 V2S C5 C6 DOUB Y N 34 V2S C2 N1 DOUB Y N 35 V2S N1 C6 SING Y N 36 V2S C6 N6 SING N N 37 V2S O H1 SING N N 38 V2S CA H2 SING N N 39 V2S CB H3 SING N N 40 V2S CB H4 SING N N 41 V2S C2 H5 SING N N 42 V2S OP2 H6 SING N N 43 V2S N10 H7 SING N N 44 V2S CD1 H8 SING N N 45 V2S CE1 H9 SING N N 46 V2S CZ H10 SING N N 47 V2S CE2 H11 SING N N 48 V2S CD2 H12 SING N N 49 V2S "C5'" H13 SING N N 50 V2S "C5'" H14 SING N N 51 V2S "C4'" H15 SING N N 52 V2S "C1'" H16 SING N N 53 V2S "C2'" H17 SING N N 54 V2S "O2'" H18 SING N N 55 V2S "C3'" H19 SING N N 56 V2S "O3'" H20 SING N N 57 V2S C8 H21 SING N N 58 V2S N6 H22 SING N N 59 V2S N6 H23 SING N N 60 # # 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 V2S SMILES ACDLabs 12.01 "C(C(NP(=O)(O)OCC3OC(n2c1c(c(N)ncn1)nc2)C(O)C3O)Cc4ccccc4)(O)=O" V2S InChI InChI 1.03 "InChI=1S/C19H23N6O8P/c20-16-13-17(22-8-21-16)25(9-23-13)18-15(27)14(26)12(33-18)7-32-34(30,31)24-11(19(28)29)6-10-4-2-1-3-5-10/h1-5,8-9,11-12,14-15,18,26-27H,6-7H2,(H,28,29)(H2,20,21,22)(H2,24,30,31)/t11-,12+,14+,15+,18+/m0/s1" V2S InChIKey InChI 1.03 OXCQKAQOLIIWJO-URQYDQELSA-N V2S SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)N[C@@H](Cc4ccccc4)C(O)=O)[C@@H](O)[C@H]3O" V2S SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)N[CH](Cc4ccccc4)C(O)=O)[CH](O)[CH]3O" V2S SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)C[C@@H](C(=O)O)NP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" V2S SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(C(=O)O)NP(=O)(O)OCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O" # # 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 V2S "SYSTEMATIC NAME" ACDLabs 12.01 "(2S)-2-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]amino}-3-phenylpropanoic acid (non-preferred name)" V2S "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]amino]-3-phenyl-propanoic 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 V2S "Create component" 2020-06-19 RCSB V2S "Initial release" 2021-03-17 RCSB ##