data_A1ELV # _chem_comp.id A1ELV _chem_comp.name Loganin _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C17 H26 O10" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "methyl (1S,4aS,6S,7R,7aS)-6-hydroxy-7-methyl-1-[(2S,3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-1,4a,5,6,7,7a-hexahydrocyclopenta[c]pyran-4-carboxylate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-02-08 _chem_comp.pdbx_modified_date 2026-01-09 _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 390.382 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1ELV _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 9LFS _chem_comp.pdbx_subcomponent_list "A1ELU BGC" _chem_comp.pdbx_processing_site PDBC _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 A1ELV C11 C1 C 0 1 N N S N N N -57.396 -24.410 -16.545 1.615 1.300 0.622 C11 A1ELU 1 A1ELV C12 C2 C 0 1 N N S N N N -57.928 -23.138 -15.783 2.480 0.028 0.725 C12 A1ELU 2 A1ELV C13 C3 C 0 1 N N R N N N -55.844 -24.302 -16.544 2.489 2.262 -0.212 C13 A1ELU 3 A1ELV C14 C4 C 0 1 N N S N N N -55.570 -22.802 -16.341 3.928 1.980 0.268 C14 A1ELU 4 A1ELV C15 C5 C 0 1 N N N N N N -56.676 -22.342 -15.373 3.923 0.559 0.860 C15 A1ELU 5 A1ELV C16 C6 C 0 1 N N S N N N -57.892 -25.781 -16.001 0.319 0.995 -0.122 C16 A1ELU 6 A1ELV C17 C7 C 0 1 N N N N N N -58.820 -23.501 -14.642 2.384 -0.781 -0.536 C17 A1ELU 7 A1ELV C18 C8 C 0 1 N N N N N N -55.172 -24.835 -17.789 2.106 3.716 0.073 C18 A1ELU 8 A1ELV C20 C10 C 0 1 N N N N N N -59.369 -24.718 -14.528 1.510 -0.529 -1.511 C20 A1ELU 9 A1ELV C25 C15 C 0 1 N N N N N N -58.753 -22.735 -13.392 3.270 -1.872 -0.699 C25 A1ELU 10 A1ELV C27 C17 C 0 1 N N N N N N -60.871 -21.975 -12.691 5.033 -3.275 0.034 C27 A1ELU 11 A1ELV O1 O1 O 0 1 N N N N N N -58.749 -26.330 -16.947 -0.426 0.014 0.601 O1 A1ELU 12 A1ELV O02 O2 O 0 1 N N N N N N -58.691 -25.814 -14.863 0.632 0.487 -1.446 O02 A1ELU 13 A1ELV O03 O3 O 0 1 N N N N N N -55.722 -22.138 -17.574 4.305 2.926 1.271 O03 A1ELU 14 A1ELV O07 O7 O 0 1 N N N N N N -59.629 -21.694 -13.311 4.170 -2.160 0.265 O07 A1ELU 15 A1ELV O09 O9 O 0 1 N N N N N N -58.001 -22.970 -12.454 3.222 -2.550 -1.708 O09 A1ELU 16 A1ELV C2 C11 C 0 1 N N R N N N -59.882 -28.454 -17.028 -2.368 -1.409 0.822 C2 BGC 17 A1ELV C3 C12 C 0 1 N N S N N N -59.538 -29.912 -17.434 -3.772 -1.659 0.262 C3 BGC 18 A1ELV C4 C13 C 0 1 N N S N N N -58.858 -29.895 -18.811 -4.582 -0.362 0.347 C4 BGC 19 A1ELV C5 C14 C 0 1 N N R N N N -57.576 -29.009 -18.730 -3.842 0.744 -0.411 C5 BGC 20 A1ELV C6 C16 C 0 1 N N N N N N -56.904 -28.794 -20.111 -4.616 2.057 -0.280 C6 BGC 21 A1ELV C1 C9 C 0 1 N N S N N N -58.529 -27.686 -17.071 -1.714 -0.263 0.047 C1 BGC 22 A1ELV O2 O5 O 0 1 N N N N N N -60.304 -28.428 -15.690 -1.580 -2.593 0.683 O2 BGC 23 A1ELV O3 O6 O 0 1 N N N N N N -60.733 -30.598 -17.577 -4.418 -2.678 1.027 O3 BGC 24 A1ELV O4 O8 O 0 1 N N N N N N -58.460 -31.206 -19.068 -5.870 -0.564 -0.240 O4 BGC 25 A1ELV O5 O4 O 0 1 N N N N N N -57.989 -27.730 -18.365 -2.534 0.904 0.141 O5 BGC 26 A1ELV O6 O10 O 0 1 N N N N N N -55.627 -28.314 -19.844 -3.989 3.061 -1.081 O6 BGC 27 A1ELV H111 H1 H 0 0 N N N N N N -57.732 -24.328 -17.589 1.414 1.715 1.610 H111 A1ELU 28 A1ELV H121 H2 H 0 0 N N N N N N -58.500 -22.532 -16.501 2.199 -0.563 1.597 H121 A1ELU 29 A1ELV H131 H3 H 0 0 N N N N N N -55.460 -24.849 -15.670 2.391 2.042 -1.275 H131 A1ELU 30 A1ELV H141 H4 H 0 0 N N N N N N -54.576 -22.646 -15.896 4.619 2.031 -0.573 H141 A1ELU 31 A1ELV H151 H5 H 0 0 N N N N N N -56.855 -21.262 -15.477 4.212 0.592 1.910 H151 A1ELU 32 A1ELV H152 H6 H 0 0 N N N N N N -56.398 -22.569 -14.333 4.609 -0.079 0.303 H152 A1ELU 33 A1ELV H161 H7 H 0 0 N N N N N N -57.013 -26.429 -15.865 -0.271 1.907 -0.213 H161 A1ELU 34 A1ELV H182 H8 H 0 0 N N N N N N -54.082 -24.717 -17.697 2.254 3.931 1.131 H182 A1ELU 35 A1ELV H183 H9 H 0 0 N N N N N N -55.416 -25.901 -17.910 2.732 4.380 -0.523 H183 A1ELU 36 A1ELV H181 H10 H 0 0 N N N N N N -55.529 -24.275 -18.666 1.059 3.873 -0.187 H181 A1ELU 37 A1ELV H201 H12 H 0 0 N N N N N N -60.379 -24.812 -14.158 1.508 -1.164 -2.385 H201 A1ELU 38 A1ELV H272 H19 H 0 0 N N N N N N -61.491 -21.067 -12.683 5.705 -3.396 0.884 H272 A1ELU 39 A1ELV H271 H20 H 0 0 N N N N N N -61.389 -22.768 -13.251 4.436 -4.178 -0.088 H271 A1ELU 40 A1ELV H273 H21 H 0 0 N N N N N N -60.697 -22.309 -11.658 5.618 -3.101 -0.869 H273 A1ELU 41 A1ELV H031 H22 H 0 0 N N N N N N -55.554 -21.210 -17.457 5.200 2.801 1.613 H031 A1ELU 42 A1ELV H2 H13 H 0 1 N N N N N N -60.609 -28.011 -17.724 -2.440 -1.141 1.877 H2 BGC 43 A1ELV H3 H14 H 0 1 N N N N N N -58.874 -30.367 -16.685 -3.697 -1.975 -0.779 H3 BGC 44 A1ELV H4 H15 H 0 1 N N N N N N -59.544 -29.501 -19.575 -4.699 -0.073 1.391 H4 BGC 45 A1ELV H5 H16 H 0 1 N N N N N N -56.858 -29.444 -18.019 -3.763 0.472 -1.463 H5 BGC 46 A1ELV H61 H18 H 0 1 N N N N N N -56.848 -29.745 -20.661 -5.642 1.910 -0.618 H61 BGC 47 A1ELV H62 H17 H 0 1 N N N N N N -57.472 -28.061 -20.703 -4.619 2.375 0.763 H62 BGC 48 A1ELV H1 H11 H 0 1 N N N N N N -57.840 -28.082 -16.310 -1.606 -0.547 -1.000 H1 BGC 49 A1ELV HO2 H23 H 0 1 N Y N N N N -61.132 -28.887 -15.610 -0.678 -2.506 1.018 HO2 BGC 50 A1ELV HO3 H24 H 0 1 N Y N N N N -60.555 -31.497 -17.826 -3.954 -3.526 1.023 HO3 BGC 51 A1ELV HO4 H25 H 0 1 N Y N N N N -58.031 -31.247 -19.915 -6.393 -1.256 0.188 HO4 BGC 52 A1ELV HO6 H26 H 0 1 N Y N N N N -55.167 -28.164 -20.662 -4.427 3.922 -1.046 HO6 BGC 53 # 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 A1ELV O1 C16 SING N N 1 A1ELV O1 C1 SING N N 2 A1ELV O02 C16 SING N N 3 A1ELV O02 C20 SING N N 4 A1ELV O03 C14 SING N N 5 A1ELV O5 C1 SING N N 6 A1ELV O5 C5 SING N N 7 A1ELV O2 C2 SING N N 8 A1ELV O3 C3 SING N N 9 A1ELV O07 C25 SING N N 10 A1ELV O07 C27 SING N N 11 A1ELV O4 C4 SING N N 12 A1ELV O09 C25 DOUB N N 13 A1ELV O6 C6 SING N N 14 A1ELV C11 C12 SING N N 15 A1ELV C11 C13 SING N N 16 A1ELV C11 C16 SING N N 17 A1ELV C12 C15 SING N N 18 A1ELV C12 C17 SING N N 19 A1ELV C13 C14 SING N N 20 A1ELV C13 C18 SING N N 21 A1ELV C14 C15 SING N N 22 A1ELV C17 C20 DOUB N N 23 A1ELV C17 C25 SING N N 24 A1ELV C1 C2 SING N N 25 A1ELV C2 C3 SING N N 26 A1ELV C3 C4 SING N N 27 A1ELV C4 C5 SING N N 28 A1ELV C5 C6 SING N N 29 A1ELV C11 H111 SING N N 30 A1ELV C12 H121 SING N N 31 A1ELV C13 H131 SING N N 32 A1ELV C14 H141 SING N N 33 A1ELV C15 H151 SING N N 34 A1ELV C15 H152 SING N N 35 A1ELV C16 H161 SING N N 36 A1ELV C18 H182 SING N N 37 A1ELV C18 H183 SING N N 38 A1ELV C18 H181 SING N N 39 A1ELV C1 H1 SING N N 40 A1ELV C20 H201 SING N N 41 A1ELV C2 H2 SING N N 42 A1ELV C3 H3 SING N N 43 A1ELV C4 H4 SING N N 44 A1ELV C5 H5 SING N N 45 A1ELV C6 H62 SING N N 46 A1ELV C6 H61 SING N N 47 A1ELV C27 H272 SING N N 48 A1ELV C27 H271 SING N N 49 A1ELV C27 H273 SING N N 50 A1ELV O03 H031 SING N N 51 A1ELV O2 HO2 SING N N 52 A1ELV O3 HO3 SING N N 53 A1ELV O4 HO4 SING N N 54 A1ELV O6 HO6 SING N N 55 # 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 A1ELV InChI InChI 1.06 "InChI=1S/C17H26O10/c1-6-9(19)3-7-8(15(23)24-2)5-25-16(11(6)7)27-17-14(22)13(21)12(20)10(4-18)26-17/h5-7,9-14,16-22H,3-4H2,1-2H3/t6-,7+,9-,10+,11+,12+,13-,14+,16-,17-/m0/s1" A1ELV InChIKey InChI 1.06 AMBQHHVBBHTQBF-UOUCRYGSSA-N A1ELV SMILES_CANONICAL CACTVS 3.385 "COC(=O)C1=CO[C@@H](O[C@@H]2O[C@H](CO)[C@@H](O)[C@H](O)[C@H]2O)[C@@H]3[C@@H](C)[C@@H](O)C[C@H]13" A1ELV SMILES CACTVS 3.385 "COC(=O)C1=CO[CH](O[CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O)[CH]3[CH](C)[CH](O)C[CH]13" A1ELV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]1[C@H](C[C@H]2[C@@H]1[C@@H](OC=C2C(=O)OC)O[C@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O)O)O)O" A1ELV SMILES "OpenEye OEToolkits" 2.0.7 "CC1C(CC2C1C(OC=C2C(=O)OC)OC3C(C(C(C(O3)CO)O)O)O)O" # _pdbx_chem_comp_identifier.comp_id A1ELV _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 "methyl (1~{S},4~{a}~{S},6~{S},7~{R},7~{a}~{S})-1-[(2~{S},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-7-methyl-6-oxidanyl-1,4~{a},5,6,7,7~{a}-hexahydrocyclopenta[c]pyran-4-carboxylate" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1ELV _pdbx_chem_comp_synonyms.name "methyl (1S,4aS,6S,7R,7aS)-6-hydroxy-7-methyl-1-[(2S,3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-1,4a,5,6,7,7a-hexahydrocyclopenta[c]pyran-4-carboxylate" _pdbx_chem_comp_synonyms.provenance PUBCHEM _pdbx_chem_comp_synonyms.type ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1ELV "Create component" 2025-02-08 PDBC A1ELV "Modify internal type" 2025-09-17 PDBC A1ELV "Initial release" 2026-01-14 RCSB #