data_WF9 # _chem_comp.id WF9 _chem_comp.name "(2S)-2-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]amino}-5-carbamimidamidopentanoic acid (non-preferred name)" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H26 N9 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-10-02 _chem_comp.pdbx_modified_date 2024-10-11 _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 503.407 _chem_comp.one_letter_code ? _chem_comp.three_letter_code WF9 _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 8UAY _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 WF9 N1 N1 N 0 1 Y N N N N N -14.081 -11.314 19.121 6.953 -2.755 0.777 N1 WF9 1 WF9 C2 C1 C 0 1 Y N N N N N -13.617 -10.474 18.099 6.951 -1.525 1.257 C2 WF9 2 WF9 N3 N2 N 0 1 Y N N N N N -12.580 -10.943 17.265 5.938 -0.701 1.085 N3 WF9 3 WF9 C4 C2 C 0 1 Y N N N N N -12.065 -12.172 17.478 4.860 -1.085 0.409 C4 WF9 4 WF9 C5 C3 C 0 1 Y N N N N N -12.539 -12.959 18.470 4.814 -2.386 -0.122 C5 WF9 5 WF9 C6 C4 C 0 1 Y N N N N N -13.526 -12.530 19.277 5.920 -3.227 0.088 C6 WF9 6 WF9 C8 C5 C 0 1 Y N N N N N -10.969 -14.026 17.431 2.952 -1.407 -0.648 C8 WF9 7 WF9 N6 N3 N 0 1 N N N N N N -13.925 -13.368 20.255 5.932 -4.518 -0.411 N6 WF9 8 WF9 N7 N4 N 0 1 Y N N N N N -11.853 -14.095 18.442 3.623 -2.517 -0.754 N7 WF9 9 WF9 N9 N5 N 0 1 Y N N N N N -11.105 -12.827 16.849 3.672 -0.493 0.061 N9 WF9 10 WF9 "C1'" C6 C 0 1 N N R N N N -10.388 -12.289 15.684 3.255 0.872 0.392 "C1'" WF9 11 WF9 "O4'" O1 O 0 1 N N N N N N -11.421 -12.391 14.689 1.816 0.985 0.334 "O4'" WF9 12 WF9 "C2'" C7 C 0 1 N N R N N N -9.379 -13.261 15.145 3.775 1.866 -0.670 "C2'" WF9 13 WF9 "O2'" O2 O 0 1 N N N N N N -8.119 -12.928 15.649 4.968 2.507 -0.214 "O2'" WF9 14 WF9 "C3'" C8 C 0 1 N N S N N N -9.409 -12.960 13.654 2.630 2.893 -0.816 "C3'" WF9 15 WF9 "O3'" O3 O 0 1 N N N N N N -8.557 -11.852 13.372 3.081 4.200 -0.458 "O3'" WF9 16 WF9 "C4'" C9 C 0 1 N N R N N N -10.805 -12.540 13.415 1.552 2.397 0.178 "C4'" WF9 17 WF9 "C5'" C10 C 0 1 N N N N N N -11.565 -13.664 12.743 0.153 2.616 -0.400 "C5'" WF9 18 WF9 "O5'" O4 O 0 1 N N N N N N -12.944 -13.316 12.727 -0.828 2.261 0.577 "O5'" WF9 19 WF9 P P1 P 0 1 N N N N N N -13.852 -13.742 11.485 -2.412 2.367 0.308 P WF9 20 WF9 OP1 O5 O 0 1 N N N N N N -15.178 -13.080 11.730 -3.200 2.273 1.709 OP1 WF9 21 WF9 OP2 O6 O 0 1 N N N N N N -13.113 -13.476 10.240 -2.716 3.660 -0.344 OP2 WF9 22 WF9 N N6 N 0 1 N N N N N N -14.125 -15.408 11.715 -2.897 1.105 -0.694 N WF9 23 WF9 CA C11 C 0 1 N N S N N N -13.654 -16.419 10.739 -2.609 -0.197 -0.078 CA WF9 24 WF9 C C12 C 0 1 N N N N N N -14.814 -16.933 9.772 -1.281 -0.706 -0.576 C WF9 25 WF9 O O7 O 0 1 N N N N N N -15.262 -16.141 8.969 -0.640 -0.052 -1.363 O WF9 26 WF9 OXT O8 O 0 1 N N N N N N -15.219 -18.111 9.845 -0.811 -1.887 -0.144 OXT WF9 27 WF9 CB C13 C 0 1 N N N N N N -13.201 -17.645 11.573 -3.710 -1.192 -0.452 CB WF9 28 WF9 CG C14 C 0 1 N N N N N N -11.705 -17.585 11.918 -5.037 -0.739 0.160 CG WF9 29 WF9 CD C15 C 0 1 N N N N N N -11.437 -16.904 13.254 -6.137 -1.734 -0.214 CD WF9 30 WF9 NE N7 N 0 1 N N N N N N -12.238 -17.435 14.362 -7.408 -1.299 0.372 NE WF9 31 WF9 CZ C16 C 0 1 N N N N N N -11.743 -17.473 15.620 -8.547 -2.042 0.169 CZ WF9 32 WF9 NH2 N8 N 0 1 N N N N N N -12.474 -17.956 16.628 -9.740 -1.634 0.719 NH2 WF9 33 WF9 NH1 N9 N 0 1 N N N N N N -10.486 -17.028 15.851 -8.497 -3.132 -0.543 NH1 WF9 34 WF9 H1 H1 H 0 1 N N N N N N -14.043 -9.492 17.954 7.811 -1.181 1.811 H1 WF9 35 WF9 H2 H2 H 0 1 N N N N N N -10.273 -14.799 17.140 1.969 -1.236 -1.061 H2 WF9 36 WF9 H3 H3 H 0 1 N N N N N N -14.652 -12.936 20.789 6.701 -5.089 -0.259 H3 WF9 37 WF9 H4 H4 H 0 1 N N N N N N -14.269 -14.215 19.849 5.171 -4.851 -0.912 H4 WF9 38 WF9 H5 H5 H 0 1 N N N N N N -9.988 -11.275 15.830 3.618 1.150 1.382 H5 WF9 39 WF9 H6 H6 H 0 1 N N N N N N -9.669 -14.302 15.349 3.955 1.355 -1.616 H6 WF9 40 WF9 H7 H7 H 0 1 N N N N N N -8.091 -13.113 16.580 5.337 3.142 -0.843 H7 WF9 41 WF9 H8 H8 H 0 1 N N N N N N -9.147 -13.852 13.066 2.241 2.889 -1.834 H8 WF9 42 WF9 H9 H9 H 0 1 N N N N N N -7.652 -12.102 13.520 3.799 4.535 -1.013 H9 WF9 43 WF9 H10 H10 H 0 1 N N N N N N -10.853 -11.619 12.816 1.653 2.910 1.134 H10 WF9 44 WF9 H11 H11 H 0 1 N N N N N N -11.423 -14.599 13.305 0.032 3.665 -0.671 H11 WF9 45 WF9 H12 H12 H 0 1 N N N N N N -11.202 -13.796 11.713 0.024 1.995 -1.287 H12 WF9 46 WF9 H13 H13 H 0 1 N N N N N N -15.396 -12.524 10.991 -3.047 1.450 2.192 H13 WF9 47 WF9 H14 H14 H 0 1 N N N N N N -15.116 -15.523 11.783 -2.464 1.178 -1.603 H14 WF9 48 WF9 H15 H15 H 0 1 N N N N N N -12.815 -16.035 10.140 -2.573 -0.086 1.006 H15 WF9 49 WF9 H16 H16 H 0 1 N N N N N N -15.897 -18.254 9.195 0.045 -2.172 -0.492 H16 WF9 50 WF9 H17 H17 H 0 1 N N N N N N -13.780 -17.672 12.508 -3.806 -1.237 -1.537 H17 WF9 51 WF9 H18 H18 H 0 1 N N N N N N -13.396 -18.560 10.994 -3.452 -2.180 -0.069 H18 WF9 52 WF9 H19 H19 H 0 1 N N N N N N -11.312 -18.612 11.961 -4.940 -0.694 1.245 H19 WF9 53 WF9 H20 H20 H 0 1 N N N N N N -11.184 -17.026 11.127 -5.295 0.249 -0.223 H20 WF9 54 WF9 H21 H21 H 0 1 N N N N N N -10.373 -17.034 13.502 -6.234 -1.778 -1.299 H21 WF9 55 WF9 H22 H22 H 0 1 N N N N N N -11.660 -15.832 13.148 -5.879 -2.721 0.169 H22 WF9 56 WF9 H23 H23 H 0 1 N N N N N N -13.162 -17.773 14.185 -7.445 -0.488 0.902 H23 WF9 57 WF9 H24 H24 H 0 1 N N N N N N -12.092 -17.988 17.552 -9.777 -0.823 1.250 H24 WF9 58 WF9 H25 H25 H 0 1 N N N N N N -13.403 -18.285 16.459 -10.544 -2.158 0.577 H25 WF9 59 WF9 H26 H26 H 0 1 N N N N N N -10.228 -17.116 16.813 -9.301 -3.656 -0.686 H26 WF9 60 # 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 WF9 O C DOUB N N 1 WF9 C OXT SING N N 2 WF9 C CA SING N N 3 WF9 OP2 P DOUB N N 4 WF9 CA CB SING N N 5 WF9 CA N SING N N 6 WF9 P N SING N N 7 WF9 P OP1 SING N N 8 WF9 P "O5'" SING N N 9 WF9 CB CG SING N N 10 WF9 CG CD SING N N 11 WF9 "O5'" "C5'" SING N N 12 WF9 "C5'" "C4'" SING N N 13 WF9 CD NE SING N N 14 WF9 "O3'" "C3'" SING N N 15 WF9 "C4'" "C3'" SING N N 16 WF9 "C4'" "O4'" SING N N 17 WF9 "C3'" "C2'" SING N N 18 WF9 NE CZ SING N N 19 WF9 "O4'" "C1'" SING N N 20 WF9 "C2'" "O2'" SING N N 21 WF9 "C2'" "C1'" SING N N 22 WF9 CZ NH1 DOUB N N 23 WF9 CZ NH2 SING N N 24 WF9 "C1'" N9 SING N N 25 WF9 N9 C8 SING Y N 26 WF9 N9 C4 SING Y N 27 WF9 N3 C4 DOUB Y N 28 WF9 N3 C2 SING Y N 29 WF9 C8 N7 DOUB Y N 30 WF9 C4 C5 SING Y N 31 WF9 C2 N1 DOUB Y N 32 WF9 N7 C5 SING Y N 33 WF9 C5 C6 DOUB Y N 34 WF9 N1 C6 SING Y N 35 WF9 C6 N6 SING N N 36 WF9 C2 H1 SING N N 37 WF9 C8 H2 SING N N 38 WF9 N6 H3 SING N N 39 WF9 N6 H4 SING N N 40 WF9 "C1'" H5 SING N N 41 WF9 "C2'" H6 SING N N 42 WF9 "O2'" H7 SING N N 43 WF9 "C3'" H8 SING N N 44 WF9 "O3'" H9 SING N N 45 WF9 "C4'" H10 SING N N 46 WF9 "C5'" H11 SING N N 47 WF9 "C5'" H12 SING N N 48 WF9 OP1 H13 SING N N 49 WF9 N H14 SING N N 50 WF9 CA H15 SING N N 51 WF9 OXT H16 SING N N 52 WF9 CB H17 SING N N 53 WF9 CB H18 SING N N 54 WF9 CG H19 SING N N 55 WF9 CG H20 SING N N 56 WF9 CD H21 SING N N 57 WF9 CD H22 SING N N 58 WF9 NE H23 SING N N 59 WF9 NH2 H24 SING N N 60 WF9 NH2 H25 SING N N 61 WF9 NH1 H26 SING N N 62 # 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 WF9 SMILES ACDLabs 12.01 "O=C(O)C(CCCNC(=N)N)NP(=O)(O)OCC1OC(n2cnc3c(N)ncnc32)C(O)C1O" WF9 InChI InChI 1.06 "InChI=1S/C16H26N9O8P/c17-12-9-13(22-5-21-12)25(6-23-9)14-11(27)10(26)8(33-14)4-32-34(30,31)24-7(15(28)29)2-1-3-20-16(18)19/h5-8,10-11,14,26-27H,1-4H2,(H,28,29)(H2,17,21,22)(H4,18,19,20)(H2,24,30,31)/t7-,8+,10+,11+,14+/m0/s1" WF9 InChIKey InChI 1.06 AXUGFAXGFGAXFD-TWBCTODHSA-N WF9 SMILES_CANONICAL CACTVS 3.385 "NC(=N)NCCC[C@H](N[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23)C(O)=O" WF9 SMILES CACTVS 3.385 "NC(=N)NCCC[CH](N[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23)C(O)=O" WF9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/N)\NCCC[C@@H](C(=O)O)NP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O" WF9 SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(NC(CCCNC(=N)N)C(=O)O)O)O)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 WF9 "SYSTEMATIC NAME" ACDLabs 12.01 "(2S)-2-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]amino}-5-carbamimidamidopentanoic acid (non-preferred name)" WF9 "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]-5-carbamimidamido-pentanoic 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 WF9 "Create component" 2023-10-02 RCSB WF9 "Initial release" 2024-10-16 RCSB #