data_KFV # _chem_comp.id KFV _chem_comp.name "[1-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethylsulfanyl]-1-oxidanylidene-propan-2-ylidene]-bis(oxidanidyl)azanium" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H38 N8 O19 P3 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge -1 _chem_comp.pdbx_initial_date 2018-12-03 _chem_comp.pdbx_modified_date 2019-04-05 _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 867.587 _chem_comp.one_letter_code ? _chem_comp.three_letter_code KFV _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 6N92 _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 KFV N1 N1 N 0 1 Y N N 49.712 7.582 -18.953 -3.505 -7.104 -2.708 N1 KFV 1 KFV C2 C1 C 0 1 Y N N 48.823 7.299 -19.930 -4.674 -6.501 -2.826 C2 KFV 2 KFV N3 N2 N 0 1 Y N N 49.188 7.074 -21.202 -4.927 -5.335 -2.269 N3 KFV 3 KFV C4 C2 C 0 1 Y N N 50.488 7.136 -21.560 -3.998 -4.711 -1.552 C4 KFV 4 KFV C5 C3 C 0 1 Y N N 51.515 7.465 -20.559 -2.737 -5.312 -1.396 C5 KFV 5 KFV C6 C4 C 0 1 Y N N 51.048 7.687 -19.177 -2.515 -6.556 -2.010 C6 KFV 6 KFV N6 N3 N 0 1 N N N 51.920 7.991 -18.184 -1.294 -7.196 -1.892 N6 KFV 7 KFV N7 N4 N 0 1 Y N N 52.700 7.486 -21.198 -1.990 -4.479 -0.634 N7 KFV 8 KFV C8 C5 C 0 1 Y N N 52.436 7.206 -22.510 -2.694 -3.430 -0.319 C8 KFV 9 KFV N9 N5 N 0 1 Y N N 51.126 6.983 -22.703 -3.940 -3.526 -0.862 N9 KFV 10 KFV "C1'" C6 C 0 1 N N R 50.493 6.660 -23.996 -5.020 -2.545 -0.733 "C1'" KFV 11 KFV "C2'" C7 C 0 1 N N R 50.476 7.892 -24.888 -5.934 -2.895 0.470 "C2'" KFV 12 KFV "O2'" O1 O 0 1 N N N 49.299 8.674 -24.694 -6.953 -3.819 0.084 "O2'" KFV 13 KFV "C3'" C8 C 0 1 N N S 50.598 7.267 -26.256 -6.543 -1.517 0.826 "C3'" KFV 14 KFV "O3'" O2 O 0 1 N N N 49.345 6.710 -26.549 -7.841 -1.376 0.246 "O3'" KFV 15 KFV "C4'" C9 C 0 1 N N R 51.530 6.082 -26.064 -5.564 -0.500 0.208 "C4'" KFV 16 KFV "O4'" O3 O 0 1 N N N 51.307 5.736 -24.679 -4.489 -1.247 -0.390 "O4'" KFV 17 KFV "C5'" C10 C 0 1 N N N 53.003 6.323 -26.450 -5.015 0.423 1.298 "C5'" KFV 18 KFV "O5'" O4 O 0 1 N N N 53.599 7.591 -26.009 -4.200 1.433 0.701 "O5'" KFV 19 KFV O31 O5 O 0 1 N N N 47.149 6.615 -27.769 -10.405 -0.808 0.119 O31 KFV 20 KFV P3 P1 P 0 1 N N N 48.504 7.276 -27.787 -9.152 -1.014 1.108 P3 KFV 21 KFV O32 O6 O 0 1 N N N 48.384 8.734 -27.426 -9.469 -2.214 2.134 O32 KFV 22 KFV O33 O7 O 0 1 N N N 49.320 7.000 -29.018 -8.913 0.234 1.868 O33 KFV 23 KFV P1 P2 P 0 1 N N N 55.181 7.989 -26.266 -3.458 2.579 1.554 P1 KFV 24 KFV O11 O8 O 0 1 N N N 55.922 6.777 -26.787 -4.558 3.528 2.248 O11 KFV 25 KFV O12 O9 O 0 1 N N N 55.330 9.137 -27.259 -2.619 1.951 2.599 O12 KFV 26 KFV O6 O10 O 0 1 N N N 56.054 8.668 -25.056 -2.529 3.460 0.578 O6 KFV 27 KFV P2 P3 P 0 1 N N N 57.645 8.667 -25.431 -1.271 4.437 0.811 P2 KFV 28 KFV O21 O11 O 0 1 N N N 58.018 9.740 -26.428 -0.318 3.799 1.747 O21 KFV 29 KFV O22 O12 O 0 1 N N N 57.903 7.318 -26.047 -1.782 5.831 1.433 O22 KFV 30 KFV O7 O13 O 0 1 N N N 58.526 8.810 -24.122 -0.538 4.713 -0.595 O7 KFV 31 KFV CPB C11 C 0 1 N N N 58.584 7.617 -23.355 0.676 5.459 -0.707 CPB KFV 32 KFV CPA C12 C 0 1 N N N 57.542 7.609 -22.229 1.097 5.532 -2.176 CPA KFV 33 KFV CP9 C13 C 0 1 N N N 57.571 6.331 -21.311 1.317 4.116 -2.714 CP9 KFV 34 KFV CP8 C14 C 0 1 N N N 58.661 8.083 -21.301 -0.002 6.220 -2.988 CP8 KFV 35 KFV CP7 C15 C 0 1 N N R 56.756 8.902 -21.889 2.396 6.331 -2.296 CP7 KFV 36 KFV OP3 O14 O 0 1 N N N 55.368 8.779 -22.189 2.157 7.688 -1.916 OP3 KFV 37 KFV CP6 C16 C 0 1 N N N 56.896 9.326 -20.465 3.440 5.732 -1.388 CP6 KFV 38 KFV OP2 O15 O 0 1 N N N 57.919 9.887 -20.173 3.818 6.344 -0.412 OP2 KFV 39 KFV NP2 N6 N 0 1 N N N 55.918 9.111 -19.565 3.952 4.516 -1.662 NP2 KFV 40 KFV CP5 C17 C 0 1 N N N 56.141 9.489 -18.154 4.894 3.891 -0.730 CP5 KFV 41 KFV CP4 C18 C 0 1 N N N 56.236 8.236 -17.298 5.320 2.526 -1.273 CP4 KFV 42 KFV CP3 C19 C 0 1 N N N 56.233 8.486 -15.840 6.289 1.883 -0.314 CP3 KFV 43 KFV OP1 O16 O 0 1 N N N 57.068 9.154 -15.281 6.607 2.460 0.704 OP1 KFV 44 KFV NP1 N7 N 0 1 N N N 55.248 7.964 -15.161 6.801 0.667 -0.588 NP1 KFV 45 KFV CP2 C20 C 0 1 N N N 55.308 8.033 -13.744 7.743 0.043 0.345 CP2 KFV 46 KFV CP1 C21 C 0 1 N N N 54.528 9.200 -13.208 8.169 -1.323 -0.199 CP1 KFV 47 KFV S S1 S 0 1 N N N 54.666 8.987 -11.479 9.332 -2.094 0.953 S KFV 48 KFV CS1 C22 C 0 1 N N N 54.184 7.465 -10.980 9.638 -3.563 0.128 CS1 KFV 49 KFV OS1 O17 O 0 1 N N N 54.141 6.473 -11.687 9.094 -3.787 -0.934 OS1 KFV 50 KFV CS2 C23 C 0 1 N N N 53.825 7.443 -9.550 10.570 -4.562 0.710 CS2 KFV 51 KFV CS3 C24 C 0 1 N N N 53.467 6.130 -8.904 10.839 -5.854 -0.016 CS3 KFV 52 KFV NS4 N8 N 1 1 N N N 53.847 8.574 -8.923 11.231 -4.289 2.000 NS4 KFV 53 KFV OS4 O18 O -1 1 N N N 54.443 9.504 -9.421 12.120 -5.242 2.556 OS4 KFV 54 KFV OS5 O19 O -1 1 N N N 53.303 8.753 -7.850 10.978 -3.075 2.683 OS5 KFV 55 KFV H1 H1 H 0 1 N N N 47.774 7.252 -19.677 -5.451 -6.981 -3.402 H1 KFV 56 KFV H2 H2 H 0 1 N N N 51.420 8.112 -17.326 -0.579 -6.786 -1.380 H2 KFV 57 KFV H3 H3 H 0 1 N N N 52.582 7.248 -18.082 -1.153 -8.055 -2.320 H3 KFV 58 KFV H4 H4 H 0 1 N N N 53.183 7.169 -23.289 -2.342 -2.606 0.283 H4 KFV 59 KFV H5 H5 H 0 1 N N N 49.471 6.280 -23.850 -5.601 -2.492 -1.653 H5 KFV 60 KFV H6 H6 H 0 1 N N N 51.373 8.495 -24.684 -5.349 -3.288 1.301 H6 KFV 61 KFV H7 H7 H 0 1 N N N 49.297 9.031 -23.813 -6.615 -4.667 -0.233 H7 KFV 62 KFV H8 H8 H 0 1 N N N 50.969 7.974 -27.012 -6.591 -1.391 1.907 H8 KFV 63 KFV H9 H9 H 0 1 N N N 51.157 5.261 -26.694 -6.073 0.088 -0.556 H9 KFV 64 KFV H10 H10 H 0 1 N N N 53.599 5.506 -26.018 -5.843 0.891 1.829 H10 KFV 65 KFV H11 H11 H 0 1 N N N 53.071 6.286 -27.547 -4.416 -0.160 1.999 H11 KFV 66 KFV H12 H12 H 0 1 N N N 47.030 6.115 -28.568 -11.231 -0.587 0.571 H12 KFV 67 KFV H13 H13 H 0 1 N N N 48.861 9.258 -28.059 -9.636 -3.064 1.704 H13 KFV 68 KFV H14 H14 H 0 1 N N N 56.324 6.986 -27.622 -5.144 3.974 1.622 H14 KFV 69 KFV H15 H15 H 0 1 N N N 58.244 7.431 -26.927 -2.411 6.305 0.872 H15 KFV 70 KFV H16 H16 H 0 1 N N N 58.398 6.759 -24.018 0.519 6.468 -0.324 H16 KFV 71 KFV H17 H17 H 0 1 N N N 59.587 7.528 -22.912 1.459 4.969 -0.128 H17 KFV 72 KFV H18 H18 H 0 1 N N N 56.793 6.416 -20.538 0.367 3.583 -2.734 H18 KFV 73 KFV H19 H19 H 0 1 N N N 57.384 5.436 -21.923 1.725 4.170 -3.723 H19 KFV 74 KFV H20 H20 H 0 1 N N N 58.557 6.247 -20.831 2.017 3.587 -2.067 H20 KFV 75 KFV H21 H21 H 0 1 N N N 58.265 8.209 -20.282 -0.103 7.254 -2.659 H21 KFV 76 KFV H22 H22 H 0 1 N N N 59.469 7.337 -21.291 0.261 6.199 -4.046 H22 KFV 77 KFV H23 H23 H 0 1 N N N 59.054 9.045 -21.662 -0.947 5.697 -2.838 H23 KFV 78 KFV H24 H24 H 0 1 N N N 57.176 9.703 -22.515 2.749 6.299 -3.326 H24 KFV 79 KFV H25 H25 H 0 1 N N N 54.923 9.588 -21.968 1.840 7.792 -1.008 H25 KFV 80 KFV H26 H26 H 0 1 N N N 55.051 8.700 -19.848 3.698 4.054 -2.476 H26 KFV 81 KFV H27 H27 H 0 1 N N N 57.078 10.060 -18.072 5.772 4.528 -0.618 H27 KFV 82 KFV H28 H28 H 0 1 N N N 55.302 10.108 -17.804 4.413 3.762 0.240 H28 KFV 83 KFV H29 H29 H 0 1 N N N 55.378 7.591 -17.537 4.442 1.889 -1.384 H29 KFV 84 KFV H30 H30 H 0 1 N N N 57.170 7.715 -17.555 5.801 2.655 -2.243 H30 KFV 85 KFV H31 H31 H 0 1 N N N 54.476 7.529 -15.624 6.547 0.206 -1.402 H31 KFV 86 KFV H32 H32 H 0 1 N N N 54.893 7.105 -13.325 8.620 0.679 0.456 H32 KFV 87 KFV H33 H33 H 0 1 N N N 56.359 8.136 -13.437 7.262 -0.086 1.315 H33 KFV 88 KFV H34 H34 H 0 1 N N N 54.972 10.155 -13.527 7.291 -1.959 -0.310 H34 KFV 89 KFV H35 H35 H 0 1 N N N 53.477 9.158 -13.531 8.650 -1.194 -1.168 H35 KFV 90 KFV H37 H37 H 0 1 N N N 53.228 6.296 -7.843 11.688 -5.724 -0.687 H37 KFV 91 KFV H38 H38 H 0 1 N N N 52.593 5.697 -9.413 11.065 -6.637 0.707 H38 KFV 92 KFV H39 H39 H 0 1 N N N 54.318 5.438 -8.984 9.959 -6.136 -0.595 H39 KFV 93 # # 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 KFV O33 P3 DOUB N N 1 KFV P3 O31 SING N N 2 KFV P3 O32 SING N N 3 KFV P3 "O3'" SING N N 4 KFV O12 P1 DOUB N N 5 KFV O11 P1 SING N N 6 KFV "O3'" "C3'" SING N N 7 KFV "C5'" "C4'" SING N N 8 KFV "C5'" "O5'" SING N N 9 KFV O21 P2 DOUB N N 10 KFV P1 "O5'" SING N N 11 KFV P1 O6 SING N N 12 KFV "C3'" "C4'" SING N N 13 KFV "C3'" "C2'" SING N N 14 KFV "C4'" "O4'" SING N N 15 KFV O22 P2 SING N N 16 KFV P2 O6 SING N N 17 KFV P2 O7 SING N N 18 KFV "C2'" "O2'" SING N N 19 KFV "C2'" "C1'" SING N N 20 KFV "O4'" "C1'" SING N N 21 KFV O7 CPB SING N N 22 KFV "C1'" N9 SING N N 23 KFV CPB CPA SING N N 24 KFV N9 C8 SING Y N 25 KFV N9 C4 SING Y N 26 KFV C8 N7 DOUB Y N 27 KFV CPA CP7 SING N N 28 KFV CPA CP9 SING N N 29 KFV CPA CP8 SING N N 30 KFV OP3 CP7 SING N N 31 KFV CP7 CP6 SING N N 32 KFV C4 N3 DOUB Y N 33 KFV C4 C5 SING Y N 34 KFV N3 C2 SING Y N 35 KFV N7 C5 SING Y N 36 KFV C5 C6 DOUB Y N 37 KFV CP6 OP2 DOUB N N 38 KFV CP6 NP2 SING N N 39 KFV C2 N1 DOUB Y N 40 KFV NP2 CP5 SING N N 41 KFV C6 N1 SING Y N 42 KFV C6 N6 SING N N 43 KFV CP5 CP4 SING N N 44 KFV CP4 CP3 SING N N 45 KFV CP3 OP1 DOUB N N 46 KFV CP3 NP1 SING N N 47 KFV NP1 CP2 SING N N 48 KFV CP2 CP1 SING N N 49 KFV CP1 S SING N N 50 KFV OS1 CS1 DOUB N N 51 KFV S CS1 SING N N 52 KFV CS1 CS2 SING N N 53 KFV CS2 NS4 DOUB N N 54 KFV CS2 CS3 SING N N 55 KFV OS4 NS4 SING N N 56 KFV NS4 OS5 SING N N 57 KFV C2 H1 SING N N 58 KFV N6 H2 SING N N 59 KFV N6 H3 SING N N 60 KFV C8 H4 SING N N 61 KFV "C1'" H5 SING N N 62 KFV "C2'" H6 SING N N 63 KFV "O2'" H7 SING N N 64 KFV "C3'" H8 SING N N 65 KFV "C4'" H9 SING N N 66 KFV "C5'" H10 SING N N 67 KFV "C5'" H11 SING N N 68 KFV O31 H12 SING N N 69 KFV O32 H13 SING N N 70 KFV O11 H14 SING N N 71 KFV O22 H15 SING N N 72 KFV CPB H16 SING N N 73 KFV CPB H17 SING N N 74 KFV CP9 H18 SING N N 75 KFV CP9 H19 SING N N 76 KFV CP9 H20 SING N N 77 KFV CP8 H21 SING N N 78 KFV CP8 H22 SING N N 79 KFV CP8 H23 SING N N 80 KFV CP7 H24 SING N N 81 KFV OP3 H25 SING N N 82 KFV NP2 H26 SING N N 83 KFV CP5 H27 SING N N 84 KFV CP5 H28 SING N N 85 KFV CP4 H29 SING N N 86 KFV CP4 H30 SING N N 87 KFV NP1 H31 SING N N 88 KFV CP2 H32 SING N N 89 KFV CP2 H33 SING N N 90 KFV CP1 H34 SING N N 91 KFV CP1 H35 SING N N 92 KFV CS3 H37 SING N N 93 KFV CS3 H38 SING N N 94 KFV CS3 H39 SING N N 95 # # 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 KFV SMILES ACDLabs 12.01 "n1cnc2c(c1N)ncn2C3C(O)C(C(O3)COP(OP(OCC(C(C(=O)NCCC(=O)NCCSC(\C(=[N+](\[O-])[O-])C)=O)O)(C)C)(=O)O)(O)=O)OP(O)(O)=O" KFV InChI InChI 1.03 "InChI=1S/C24H38N8O19P3S/c1-12(32(38)39)23(37)55-7-6-26-14(33)4-5-27-21(36)18(35)24(2,3)9-48-54(45,46)51-53(43,44)47-8-13-17(50-52(40,41)42)16(34)22(49-13)31-11-30-15-19(25)28-10-29-20(15)31/h10-11,13,16-18,22,34-35H,4-9H2,1-3H3,(H8-,25,26,27,28,29,33,36,37,38,39,40,41,42,43,44,45,46)/q-1/t13-,16-,17-,18+,22-/m1/s1" KFV InChIKey InChI 1.03 BLWVPDVKNPMTPY-ZSJPKINUSA-N KFV SMILES_CANONICAL CACTVS 3.385 "CC(C(=O)SCCNC(=O)CCNC(=O)[C@H](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O[P](O)(O)=O)n2cnc3c(N)ncnc23)=[N+]([O-])[O-]" KFV SMILES CACTVS 3.385 "CC(C(=O)SCCNC(=O)CCNC(=O)[CH](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O[P](O)(O)=O)n2cnc3c(N)ncnc23)=[N+]([O-])[O-]" KFV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=[N+]([O-])[O-])C(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=O)(O)OP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)OP(=O)(O)O)O" KFV SMILES "OpenEye OEToolkits" 2.0.7 "CC(=[N+]([O-])[O-])C(=O)SCCNC(=O)CCNC(=O)C(C(C)(C)COP(=O)(O)OP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)OP(=O)(O)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 KFV "SYSTEMATIC NAME" ACDLabs 12.01 "[(3S,5R,9R)-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-20-(dioxido-lambda~5~-azanylidene)-3,5,9-trihydroxy-8,8,20-trimethyl-3,5-dioxido-10,14,19-trioxo-2,4,6-trioxa-18-thia-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaicos-1-yl]oxidanide (non-preferred name)" KFV "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[1-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethylsulfanyl]-1-oxidanylidene-propan-2-ylidene]-bis(oxidanidyl)azanium" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site KFV "Create component" 2018-12-03 RCSB KFV "Modify model coordinates code" 2018-12-03 RCSB KFV "Modify formal charge" 2019-02-25 RCSB KFV "Initial release" 2019-04-10 RCSB ##