data_A1IF6 # _chem_comp.id A1IF6 _chem_comp.name "(2~{R},4~{S},5~{S},6~{S})-5-acetamido-6-[(1~{S},2~{S})-1-acetamido-2-oxidanyl-propyl]-2-[[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-4-oxidanyl-oxane-2-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C22 H34 N5 O15 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-06-27 _chem_comp.pdbx_modified_date 2024-10-04 _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 639.504 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1IF6 _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 9FTC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _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_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 A1IF6 C1 C1 C 0 1 N N N N N N 9.677 41.713 8.857 -6.164 -3.718 -1.820 C1 A1IF6 1 A1IF6 N1 N1 N 0 1 N N N N N N 2.831 39.878 14.540 6.383 -0.005 -0.903 N1 A1IF6 2 A1IF6 O1 O1 O 0 1 N N N N N N 8.755 43.277 7.326 -6.579 -2.655 0.246 O1 A1IF6 3 A1IF6 C2 C2 C 0 1 N N N N N N 2.792 39.954 15.932 6.694 0.452 0.324 C2 A1IF6 4 A1IF6 C3 C3 C 0 1 N N S N N N 6.265 41.909 7.174 -4.321 -1.189 0.386 C3 A1IF6 5 A1IF6 C4 C4 C 0 1 N N N N N N 2.997 42.266 15.786 8.443 1.704 -0.520 C4 A1IF6 6 A1IF6 C5 C5 C 0 1 N N N N N N 3.059 42.227 14.383 8.144 1.243 -1.819 C5 A1IF6 7 A1IF6 C6 C6 C 0 1 N N N N N N 3.004 41.020 13.804 7.108 0.388 -1.988 C6 A1IF6 8 A1IF6 C7 C7 C 0 1 N N R N N N 2.815 42.427 8.228 -2.164 1.847 0.580 C7 A1IF6 9 A1IF6 C8 C8 C 0 1 N N N N N N 1.854 43.114 7.268 -1.922 2.736 1.772 C8 A1IF6 10 A1IF6 C9 C9 C 0 1 N N N N N N 2.996 43.163 9.545 -2.758 2.675 -0.563 C9 A1IF6 11 A1IF6 C10 C10 C 0 1 N N S N N N 4.199 42.636 10.310 -3.058 1.754 -1.749 C10 A1IF6 12 A1IF6 C11 C11 C 0 1 N N S N N N 5.423 42.714 9.457 -4.001 0.638 -1.289 C11 A1IF6 13 A1IF6 C12 C12 C 0 1 N N N N N N 6.790 44.721 9.696 -6.236 1.482 -1.766 C12 A1IF6 14 A1IF6 C13 C13 C 0 1 N N N N N N 7.185 46.056 9.117 -7.547 2.080 -1.323 C13 A1IF6 15 A1IF6 O3P O2 O 0 1 N N N N N N 2.456 41.074 8.470 -0.928 1.269 0.157 O3P A1IF6 16 A1IF6 P P1 P 0 1 N N N N N N 1.281 40.461 9.387 -0.027 0.332 1.108 P A1IF6 17 A1IF6 O1P O3 O 0 1 N N N N N N 0.749 39.372 8.584 -0.847 -0.793 1.610 O1P A1IF6 18 A1IF6 O2P O4 O 0 1 N N N N N N 0.406 41.506 9.954 0.518 1.196 2.352 O2P A1IF6 19 A1IF6 "O5'" O5 O 0 1 N N N N N N 2.071 39.861 10.633 1.219 -0.245 0.267 "O5'" A1IF6 20 A1IF6 "C5'" C14 C 0 1 N N N N N N 2.997 38.746 10.414 2.146 -1.192 0.802 "C5'" A1IF6 21 A1IF6 "C4'" C15 C 0 1 N N R N N N 3.035 37.879 11.649 3.201 -1.525 -0.256 "C4'" A1IF6 22 A1IF6 "O4'" O6 O 0 1 N N N N N N 3.605 38.588 12.782 4.064 -0.389 -0.480 "O4'" A1IF6 23 A1IF6 "C3'" C16 C 0 1 N N S N N N 1.659 37.402 12.105 4.140 -2.640 0.255 "C3'" A1IF6 24 A1IF6 "O3'" O7 O 0 1 N N N N N N 1.765 36.051 12.547 3.740 -3.909 -0.266 "O3'" A1IF6 25 A1IF6 "C2'" C17 C 0 1 N N R N N N 1.344 38.330 13.267 5.528 -2.243 -0.295 "C2'" A1IF6 26 A1IF6 "O2'" O8 O 0 1 N N N N N N 0.383 37.828 14.173 6.028 -3.254 -1.172 "O2'" A1IF6 27 A1IF6 "C1'" C18 C 0 1 N N R N N N 2.723 38.548 13.887 5.263 -0.934 -1.072 "C1'" A1IF6 28 A1IF6 N3 N2 N 0 1 N N N N N N 2.855 41.158 16.530 7.710 1.294 0.507 N3 A1IF6 29 A1IF6 O2 O9 O 0 1 N N N N N N 2.655 38.907 16.586 6.034 0.090 1.284 O2 A1IF6 30 A1IF6 N4 N3 N 0 1 N N N N N N 3.074 43.415 16.418 9.491 2.572 -0.319 N4 A1IF6 31 A1IF6 C21 C19 C 0 1 N N N N N N 8.600 42.210 7.935 -5.817 -2.785 -0.688 C21 A1IF6 32 A1IF6 N11 N4 N 0 1 N N N N N N 7.510 41.449 7.830 -4.659 -2.096 -0.714 N11 A1IF6 33 A1IF6 C41 C20 C 0 1 N N S N N N 6.006 41.109 5.898 -3.655 -1.981 1.513 C41 A1IF6 34 A1IF6 C51 C21 C 0 1 N N N N N N 5.796 39.614 6.113 -4.559 -3.145 1.923 C51 A1IF6 35 A1IF6 O21 O10 O 0 1 N N N N N N 7.088 41.282 4.963 -3.442 -1.124 2.636 O21 A1IF6 36 A1IF6 C61 C22 C 0 1 N N S N N N 5.151 41.884 8.204 -3.359 -0.112 -0.119 C61 A1IF6 37 A1IF6 O3 O11 O 0 1 N N N N N N 4.024 42.402 7.484 -3.078 0.808 0.938 O3 A1IF6 38 A1IF6 O5 O12 O 0 1 N N N N N N 2.092 44.265 6.865 -2.402 2.454 2.844 O5 A1IF6 39 A1IF6 O6 O13 O 0 1 N N N N N N 0.851 42.495 6.891 -1.173 3.843 1.643 O6 A1IF6 40 A1IF6 O7 O14 O 0 1 N N N N N N 4.434 43.351 11.527 -3.680 2.505 -2.793 O7 A1IF6 41 A1IF6 N2 N5 N 0 1 N N N N N N 5.830 44.063 9.101 -5.274 1.220 -0.859 N2 A1IF6 42 A1IF6 O8 O15 O 0 1 N N N N N N 7.381 44.268 10.675 -6.048 1.235 -2.938 O8 A1IF6 43 A1IF6 H1 H1 H 0 1 N N N N N N 10.516 42.425 8.859 -5.365 -3.703 -2.561 H1 A1IF6 44 A1IF6 H2 H2 H 0 1 N N N N N N 9.273 41.619 9.876 -6.282 -4.730 -1.434 H2 A1IF6 45 A1IF6 H3 H3 H 0 1 N N N N N N 10.031 40.731 8.511 -7.096 -3.395 -2.284 H3 A1IF6 46 A1IF6 H51 H4 H 0 1 N N N N N N 6.411 42.958 6.876 -5.230 -0.719 0.761 H51 A1IF6 47 A1IF6 H5 H5 H 0 1 N N N N N N 3.147 43.130 13.797 8.732 1.567 -2.665 H5 A1IF6 48 A1IF6 H6 H6 H 0 1 N N N N N N 3.098 40.946 12.731 6.859 0.021 -2.973 H6 A1IF6 49 A1IF6 H13 H7 H 0 1 N N N N N N 3.142 44.234 9.340 -3.681 3.149 -0.228 H13 A1IF6 50 A1IF6 H14 H8 H 0 1 N N N N N N 2.093 43.027 10.159 -2.044 3.441 -0.867 H14 A1IF6 51 A1IF6 H15 H9 H 0 1 N N N N N N 4.012 41.578 10.546 -2.128 1.318 -2.116 H15 A1IF6 52 A1IF6 H17 H10 H 0 1 N N N N N N 6.248 42.232 10.002 -4.176 -0.054 -2.113 H17 A1IF6 53 A1IF6 H21 H11 H 0 1 N N N N N N 8.018 46.477 9.699 -8.194 2.219 -2.189 H21 A1IF6 54 A1IF6 H19 H12 H 0 1 N N N N N N 7.499 45.923 8.071 -8.030 1.410 -0.612 H19 A1IF6 55 A1IF6 H20 H13 H 0 1 N N N N N N 6.326 46.742 9.158 -7.364 3.044 -0.848 H20 A1IF6 56 A1IF6 H12 H14 H 0 1 N N N N N N -0.495 41.334 9.707 1.064 1.952 2.096 H12 A1IF6 57 A1IF6 "H5'1" H15 H 0 0 N N N N N N 2.656 38.148 9.556 2.633 -0.768 1.680 "H5'1" A1IF6 58 A1IF6 "H5'2" H16 H 0 0 N N N N N N 4.004 39.139 10.210 1.614 -2.101 1.084 "H5'2" A1IF6 59 A1IF6 "H4'" H17 H 0 1 N N N N N N 3.650 36.993 11.432 2.721 -1.829 -1.186 "H4'" A1IF6 60 A1IF6 "H3'" H18 H 0 1 N N N N N N 0.919 37.520 11.299 4.150 -2.662 1.345 "H3'" A1IF6 61 A1IF6 "HO3'" H19 H 0 0 N N N N N N 0.913 35.743 12.834 4.296 -4.646 0.023 "HO3'" A1IF6 62 A1IF6 "H2'1" H20 H 0 0 N N N N N N 0.998 39.290 12.856 6.227 -2.068 0.523 "H2'1" A1IF6 63 A1IF6 "HO2'" H21 H 0 0 N N N N N N 0.241 38.461 14.867 6.155 -4.114 -0.749 "HO2'" A1IF6 64 A1IF6 "H1'" H22 H 0 1 N N N N N N 2.966 37.737 14.589 5.102 -1.147 -2.129 "H1'" A1IF6 65 A1IF6 HN41 H23 H 0 0 N N N N N N 3.026 43.441 17.417 10.026 2.870 -1.071 HN41 A1IF6 66 A1IF6 HN42 H24 H 0 0 N N N N N N 3.180 44.264 15.901 9.694 2.888 0.576 HN42 A1IF6 67 A1IF6 H4 H25 H 0 1 N N N N N N 7.535 40.525 8.212 -4.049 -2.200 -1.462 H4 A1IF6 68 A1IF6 H61 H26 H 0 1 N N N N N N 5.087 41.507 5.443 -2.697 -2.370 1.166 H61 A1IF6 69 A1IF6 H9 H27 H 0 1 N N N N N N 5.618 39.125 5.144 -4.721 -3.799 1.066 H9 A1IF6 70 A1IF6 H7 H28 H 0 1 N N N N N N 6.692 39.182 6.582 -4.085 -3.709 2.726 H7 A1IF6 71 A1IF6 H8 H29 H 0 1 N N N N N N 4.927 39.456 6.768 -5.517 -2.756 2.269 H8 A1IF6 72 A1IF6 H10 H30 H 0 1 N N N N N N 6.911 40.779 4.177 -2.800 -0.419 2.477 H10 A1IF6 73 A1IF6 H11 H31 H 0 1 N N N N N N 4.963 40.842 8.502 -2.432 -0.579 -0.450 H11 A1IF6 74 A1IF6 H22 H32 H 0 1 N N N N N N 0.353 43.035 6.288 -1.046 4.382 2.435 H22 A1IF6 75 A1IF6 H16 H33 H 0 1 N N N N N N 3.660 43.306 12.076 -3.140 3.234 -3.128 H16 A1IF6 76 A1IF6 H18 H34 H 0 1 N N N N N N 5.345 44.517 8.353 -5.425 1.417 0.079 H18 A1IF6 77 # 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 A1IF6 O3P P SING N N 1 A1IF6 O3P C7 SING N N 2 A1IF6 P O2P SING N N 3 A1IF6 P "O5'" SING N N 4 A1IF6 P O1P DOUB N N 5 A1IF6 "O5'" "C5'" SING N N 6 A1IF6 "C5'" "C4'" SING N N 7 A1IF6 "C4'" "C3'" SING N N 8 A1IF6 "O4'" "C1'" SING N N 9 A1IF6 "C4'" "O4'" SING N N 10 A1IF6 "C3'" "O3'" SING N N 11 A1IF6 "C3'" "C2'" SING N N 12 A1IF6 "C2'" "O2'" SING N N 13 A1IF6 "C2'" "C1'" SING N N 14 A1IF6 "C1'" N1 SING N N 15 A1IF6 C2 O2 DOUB N N 16 A1IF6 N1 C2 SING N N 17 A1IF6 C2 N3 SING N N 18 A1IF6 C4 C5 SING N N 19 A1IF6 N3 C4 DOUB N N 20 A1IF6 C5 C6 DOUB N N 21 A1IF6 N1 C6 SING N N 22 A1IF6 C4 N4 SING N N 23 A1IF6 C1 C21 SING N N 24 A1IF6 C21 N11 SING N N 25 A1IF6 C21 O1 DOUB N N 26 A1IF6 N11 C3 SING N N 27 A1IF6 C3 C41 SING N N 28 A1IF6 C41 C51 SING N N 29 A1IF6 C41 O21 SING N N 30 A1IF6 C3 C61 SING N N 31 A1IF6 C61 O3 SING N N 32 A1IF6 O3 C7 SING N N 33 A1IF6 C7 C8 SING N N 34 A1IF6 C8 O6 SING N N 35 A1IF6 C8 O5 DOUB N N 36 A1IF6 C7 C9 SING N N 37 A1IF6 C10 C11 SING N N 38 A1IF6 C9 C10 SING N N 39 A1IF6 C10 O7 SING N N 40 A1IF6 C61 C11 SING N N 41 A1IF6 C11 N2 SING N N 42 A1IF6 N2 C12 SING N N 43 A1IF6 C12 C13 SING N N 44 A1IF6 C12 O8 DOUB N N 45 A1IF6 C1 H1 SING N N 46 A1IF6 C1 H2 SING N N 47 A1IF6 C1 H3 SING N N 48 A1IF6 C3 H51 SING N N 49 A1IF6 C5 H5 SING N N 50 A1IF6 C6 H6 SING N N 51 A1IF6 C9 H13 SING N N 52 A1IF6 C9 H14 SING N N 53 A1IF6 C10 H15 SING N N 54 A1IF6 C11 H17 SING N N 55 A1IF6 C13 H21 SING N N 56 A1IF6 C13 H19 SING N N 57 A1IF6 C13 H20 SING N N 58 A1IF6 O2P H12 SING N N 59 A1IF6 "C5'" "H5'1" SING N N 60 A1IF6 "C5'" "H5'2" SING N N 61 A1IF6 "C4'" "H4'" SING N N 62 A1IF6 "C3'" "H3'" SING N N 63 A1IF6 "O3'" "HO3'" SING N N 64 A1IF6 "C2'" "H2'1" SING N N 65 A1IF6 "O2'" "HO2'" SING N N 66 A1IF6 "C1'" "H1'" SING N N 67 A1IF6 N4 HN41 SING N N 68 A1IF6 N4 HN42 SING N N 69 A1IF6 N11 H4 SING N N 70 A1IF6 C41 H61 SING N N 71 A1IF6 C51 H9 SING N N 72 A1IF6 C51 H7 SING N N 73 A1IF6 C51 H8 SING N N 74 A1IF6 O21 H10 SING N N 75 A1IF6 C61 H11 SING N N 76 A1IF6 O6 H22 SING N N 77 A1IF6 O7 H16 SING N N 78 A1IF6 N2 H18 SING N N 79 # 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 A1IF6 InChI InChI 1.06 "InChI=1S/C22H34N5O15P/c1-8(28)14(24-9(2)29)18-15(25-10(3)30)11(31)6-22(41-18,20(34)35)42-43(37,38)39-7-12-16(32)17(33)19(40-12)27-5-4-13(23)26-21(27)36/h4-5,8,11-12,14-19,28,31-33H,6-7H2,1-3H3,(H,24,29)(H,25,30)(H,34,35)(H,37,38)(H2,23,26,36)/t8-,11-,12+,14-,15-,16+,17+,18-,19+,22+/m0/s1" A1IF6 InChIKey InChI 1.06 XTZJKGIMUFZFBV-STPXTTIVSA-N A1IF6 SMILES_CANONICAL CACTVS 3.385 "C[C@H](O)[C@H](NC(C)=O)[C@@H]1O[C@](C[C@H](O)[C@@H]1NC(C)=O)(O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=NC3=O)N)C(O)=O" A1IF6 SMILES CACTVS 3.385 "C[CH](O)[CH](NC(C)=O)[CH]1O[C](C[CH](O)[CH]1NC(C)=O)(O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=NC3=O)N)C(O)=O" A1IF6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]([C@@H]([C@H]1[C@H]([C@H](C[C@](O1)(C(=O)O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=NC3=O)N)O)O)O)NC(=O)C)NC(=O)C)O" A1IF6 SMILES "OpenEye OEToolkits" 2.0.7 "CC(C(C1C(C(CC(O1)(C(=O)O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=NC3=O)N)O)O)O)NC(=O)C)NC(=O)C)O" # _pdbx_chem_comp_identifier.comp_id A1IF6 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "(2~{R},4~{S},5~{S},6~{S})-5-acetamido-6-[(1~{S},2~{S})-1-acetamido-2-oxidanyl-propyl]-2-[[(2~{R},3~{S},4~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-4-oxidanyl-oxane-2-carboxylic 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 A1IF6 "Create component" 2024-06-27 PDBE A1IF6 "Initial release" 2024-10-09 RCSB #