data_RMY # _chem_comp.id RMY _chem_comp.name "ethyl 3-O-[5-(acetylamino)-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulopyranonosyl]-1-thio-beta-D-galactopyranoside" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H33 N O13 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "alpha-2,3-sialyl (1-thioethyl)galactose" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-04-13 _chem_comp.pdbx_modified_date 2021-03-13 _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 515.529 _chem_comp.one_letter_code ? _chem_comp.three_letter_code RMY _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 3QD1 _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 RMY C1 C1 C 0 1 N N S -20.690 -7.074 90.320 3.267 -0.451 0.392 C1 RMY 1 RMY C2 C2 C 0 1 N N R -19.498 -7.497 91.181 2.036 0.157 1.069 C2 RMY 2 RMY O1 O1 O 0 1 N N N -18.360 -6.703 90.843 1.074 -0.869 1.322 O1 RMY 3 RMY C3 C3 C 0 1 N N S -19.172 -8.978 90.973 1.425 1.215 0.144 C3 RMY 4 RMY O2 O2 O 0 1 N N N -18.202 -9.395 91.947 0.319 1.840 0.798 O2 RMY 5 RMY C4 C4 C 0 1 N N S -20.446 -9.809 91.131 2.489 2.268 -0.181 C4 RMY 6 RMY O3 O3 O 0 1 N N N -20.843 -9.818 92.506 2.886 2.932 1.020 O3 RMY 7 RMY C5 C5 C 0 1 N N R -21.580 -9.243 90.275 3.703 1.578 -0.809 C5 RMY 8 RMY O4 O4 O 0 1 N N N -21.830 -7.881 90.652 4.203 0.585 0.089 O4 RMY 9 RMY C6 C6 C 0 1 N N N -22.847 -10.073 90.493 4.794 2.615 -1.082 C6 RMY 10 RMY O5 O5 O 0 1 N N N -23.991 -9.214 90.466 5.880 1.994 -1.774 O5 RMY 11 RMY C7 C7 C 0 1 N N N -22.390 -5.314 93.075 6.121 -3.416 1.304 C7 RMY 12 RMY C8 C8 C 0 1 N N N -20.990 -5.287 92.458 5.362 -2.365 0.492 C8 RMY 13 RMY S1 S1 S 0 1 N N N -21.077 -5.312 90.633 4.038 -1.655 1.508 S1 RMY 14 RMY C9 C9 C 0 1 N N N -16.810 -7.787 90.796 -1.035 2.083 -1.166 C9 RMY 15 RMY C10 C10 C 0 1 N N R -15.683 -6.565 93.746 -3.504 0.187 0.433 C10 RMY 16 RMY C11 C11 C 0 1 N N R -16.953 -6.181 92.981 -2.334 -0.338 -0.404 C11 RMY 17 RMY C12 C12 C 0 1 N N S -15.014 -7.788 93.119 -3.424 1.715 0.507 C12 RMY 18 RMY C13 C13 C 0 1 N N S -17.246 -8.350 92.151 -0.951 1.517 0.228 C13 RMY 19 RMY C14 C14 C 0 1 N N N -17.339 -4.289 96.086 -1.152 -3.922 -1.160 C14 RMY 20 RMY C15 C15 C 0 1 N N R -17.644 -5.018 93.692 -2.373 -1.867 -0.433 C15 RMY 21 RMY C16 C16 C 0 1 N N R -17.918 -5.359 95.160 -1.163 -2.393 -1.209 C16 RMY 22 RMY C17 C17 C 0 1 N N N -16.028 -8.911 92.886 -2.065 2.116 1.091 C17 RMY 23 RMY C18 C18 C 0 1 N N N -13.943 -5.172 94.763 -5.884 -0.320 0.557 C18 RMY 24 RMY C19 C19 C 0 1 N N N -13.277 -6.021 95.348 -7.185 -0.726 -0.085 C19 RMY 25 RMY N1 N1 N 0 1 N N N -14.746 -5.432 93.733 -4.769 -0.208 -0.191 N1 RMY 26 RMY O6 O6 O 0 1 N N N -15.851 -6.989 90.798 -2.180 1.990 -1.860 O6 RMY 27 RMY O7 O7 O 0 1 N N N -17.447 -8.170 89.791 -0.072 2.622 -1.658 O7 RMY 28 RMY O8 O8 O 0 1 N N N -13.973 -8.258 93.982 -4.469 2.208 1.348 O8 RMY 29 RMY O9 O9 O 0 1 N N N -17.808 -3.000 95.681 0.038 -4.410 -1.783 O9 RMY 30 RMY O10 O10 O 0 1 N N N -16.820 -3.852 93.618 -2.338 -2.370 0.904 O10 RMY 31 RMY O11 O11 O 0 1 N N N -19.329 -5.462 95.372 -1.244 -1.960 -2.568 O11 RMY 32 RMY O12 O12 O 0 1 N N N -17.840 -7.309 92.933 -1.102 0.097 0.176 O12 RMY 33 RMY O13 O13 O 0 1 N N N -13.899 -3.703 95.192 -5.840 -0.093 1.748 O13 RMY 34 RMY H1 H1 H 0 1 N N N -20.441 -7.210 89.257 2.966 -0.951 -0.529 H1 RMY 35 RMY H2 H2 H 0 1 N N N -19.759 -7.344 92.239 2.329 0.621 2.010 H2 RMY 36 RMY H3 H3 H 0 1 N N N -18.763 -9.125 89.962 1.086 0.742 -0.777 H3 RMY 37 RMY H4 H4 H 0 1 N N N -20.236 -10.835 90.794 2.079 2.996 -0.882 H4 RMY 38 RMY HO4 HO4 H 0 1 N N N -21.634 -10.334 92.604 3.560 3.614 0.888 HO4 RMY 39 RMY H5 H5 H 0 1 N N N -21.293 -9.283 89.214 3.408 1.106 -1.746 H5 RMY 40 RMY H6 H6 H 0 1 N N N -22.934 -10.825 89.695 4.386 3.420 -1.694 H6 RMY 41 RMY H6A H6A H 0 1 N N N -22.791 -10.578 91.469 5.152 3.023 -0.137 H6A RMY 42 RMY HO6 HO6 H 0 1 N N N -24.778 -9.729 90.601 6.609 2.593 -1.980 HO6 RMY 43 RMY HAA HAA H 0 1 N N N -22.308 -5.298 94.172 6.916 -3.843 0.693 HAA RMY 44 RMY HAAA HAAA H 0 0 N N N -22.956 -4.434 92.737 6.553 -2.950 2.189 HAAA RMY 45 RMY HAAB HAAB H 0 0 N N N -22.912 -6.229 92.760 5.434 -4.206 1.608 HAAB RMY 46 RMY HAB HAB H 0 1 N N N -20.476 -4.369 92.779 6.049 -1.575 0.187 HAB RMY 47 RMY HABA HABA H 0 0 N N N -20.431 -6.170 92.801 4.930 -2.831 -0.394 HABA RMY 48 RMY HAE HAE H 0 1 N N N -15.960 -6.814 94.781 -3.448 -0.230 1.438 HAE RMY 49 RMY HAF HAF H 0 1 N N N -16.688 -5.878 91.957 -2.413 0.047 -1.421 HAF RMY 50 RMY HAG HAG H 0 1 N N N -14.593 -7.492 92.147 -3.531 2.135 -0.493 HAG RMY 51 RMY HAI HAI H 0 1 N N N -17.659 -4.487 97.119 -1.181 -4.253 -0.122 HAI RMY 52 RMY HAIA HAIA H 0 0 N N N -16.241 -4.313 96.031 -2.024 -4.309 -1.688 HAIA RMY 53 RMY HAJ HAJ H 0 1 N N N -18.605 -4.828 93.193 -3.289 -2.198 -0.922 HAJ RMY 54 RMY HAK HAK H 0 1 N N N -17.434 -6.319 95.391 -0.248 -2.009 -0.758 HAK RMY 55 RMY HAL HAL H 0 1 N N N -16.343 -9.328 93.854 -1.977 3.202 1.096 HAL RMY 56 RMY HALA HALA H 0 0 N N N -15.566 -9.703 92.279 -1.980 1.737 2.110 HALA RMY 57 RMY HAN HAN H 0 1 N N N -12.705 -5.545 96.158 -7.969 -0.762 0.672 HAN RMY 58 RMY HANA HANA H 0 0 N N N -13.946 -6.784 95.771 -7.454 0.000 -0.852 HANA RMY 59 RMY HANB HANB H 0 0 N N N -12.582 -6.495 94.639 -7.074 -1.711 -0.540 HANB RMY 60 RMY HNAO HNAO H 0 0 N N N -14.711 -4.840 92.928 -4.804 -0.390 -1.144 HNAO RMY 61 RMY HOAP HOAP H 0 0 N N N -15.670 -6.708 89.909 -2.186 2.368 -2.750 HOAP RMY 62 RMY HOAQ HOAQ H 0 0 N N N -13.557 -9.018 93.592 -4.478 3.170 1.440 HOAQ RMY 63 RMY HOAR HOAR H 0 0 N N N -17.448 -2.336 96.257 0.112 -5.374 -1.789 HOAR RMY 64 RMY HOAS HOAS H 0 0 N N N -17.251 -3.130 94.060 -1.548 -2.114 1.399 HOAS RMY 65 RMY HOAT HOAT H 0 0 N N N -19.498 -5.673 96.283 -2.035 -2.266 -3.032 HOAT RMY 66 RMY HOAU HOAU H 0 0 N N N -17.759 -7.218 90.318 1.396 -1.576 1.898 HOAU RMY 67 # # 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 RMY C1 S1 SING N N 1 RMY C1 O4 SING N N 2 RMY C1 C2 SING N N 3 RMY C1 H1 SING N N 4 RMY C2 H2 SING N N 5 RMY O1 C2 SING N N 6 RMY C3 C2 SING N N 7 RMY C3 C4 SING N N 8 RMY C3 O2 SING N N 9 RMY C3 H3 SING N N 10 RMY O2 C13 SING N N 11 RMY C4 O3 SING N N 12 RMY C4 H4 SING N N 13 RMY O3 HO4 SING N N 14 RMY C5 C4 SING N N 15 RMY C5 C6 SING N N 16 RMY C5 O4 SING N N 17 RMY C5 H5 SING N N 18 RMY C6 H6 SING N N 19 RMY C6 H6A SING N N 20 RMY O5 C6 SING N N 21 RMY O5 HO6 SING N N 22 RMY C7 HAA SING N N 23 RMY C7 HAAA SING N N 24 RMY C7 HAAB SING N N 25 RMY C8 C7 SING N N 26 RMY C8 HAB SING N N 27 RMY C8 HABA SING N N 28 RMY S1 C8 SING N N 29 RMY C9 O6 SING N N 30 RMY C9 C13 SING N N 31 RMY C10 HAE SING N N 32 RMY C11 C10 SING N N 33 RMY C11 C15 SING N N 34 RMY C11 HAF SING N N 35 RMY C12 C10 SING N N 36 RMY C12 O8 SING N N 37 RMY C12 HAG SING N N 38 RMY C13 C17 SING N N 39 RMY C13 O12 SING N N 40 RMY C14 HAI SING N N 41 RMY C14 HAIA SING N N 42 RMY C15 C16 SING N N 43 RMY C15 HAJ SING N N 44 RMY C16 C14 SING N N 45 RMY C16 O11 SING N N 46 RMY C16 HAK SING N N 47 RMY C17 C12 SING N N 48 RMY C17 HAL SING N N 49 RMY C17 HALA SING N N 50 RMY C18 O13 DOUB N N 51 RMY C18 C19 SING N N 52 RMY C19 HAN SING N N 53 RMY C19 HANA SING N N 54 RMY C19 HANB SING N N 55 RMY N1 C10 SING N N 56 RMY N1 C18 SING N N 57 RMY N1 HNAO SING N N 58 RMY O6 HOAP SING N N 59 RMY O7 C9 DOUB N N 60 RMY O8 HOAQ SING N N 61 RMY O9 C14 SING N N 62 RMY O9 HOAR SING N N 63 RMY O10 C15 SING N N 64 RMY O10 HOAS SING N N 65 RMY O11 HOAT SING N N 66 RMY O12 C11 SING N N 67 RMY O1 HOAU SING N N 68 # # 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 RMY SMILES ACDLabs 12.01 "O=C(O)C2(OC1C(O)C(SCC)OC(CO)C1O)OC(C(NC(=O)C)C(O)C2)C(O)C(O)CO" RMY SMILES_CANONICAL CACTVS 3.370 "CCS[C@@H]1O[C@H](CO)[C@H](O)[C@H](O[C@@]2(C[C@H](O)[C@@H](NC(C)=O)[C@@H](O2)[C@H](O)[C@H](O)CO)C(O)=O)[C@H]1O" RMY SMILES CACTVS 3.370 "CCS[CH]1O[CH](CO)[CH](O)[CH](O[C]2(C[CH](O)[CH](NC(C)=O)[CH](O2)[CH](O)[CH](O)CO)C(O)=O)[CH]1O" RMY SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CCS[C@H]1[C@@H]([C@H]([C@H]([C@H](O1)CO)O)O[C@@]2(C[C@@H]([C@H]([C@@H](O2)[C@@H]([C@@H](CO)O)O)NC(=O)C)O)C(=O)O)O" RMY SMILES "OpenEye OEToolkits" 1.7.0 "CCSC1C(C(C(C(O1)CO)O)OC2(CC(C(C(O2)C(C(CO)O)O)NC(=O)C)O)C(=O)O)O" RMY InChI InChI 1.03 "InChI=1S/C19H33NO13S/c1-3-34-17-14(28)16(13(27)10(6-22)31-17)33-19(18(29)30)4-8(24)11(20-7(2)23)15(32-19)12(26)9(25)5-21/h8-17,21-22,24-28H,3-6H2,1-2H3,(H,20,23)(H,29,30)/t8-,9+,10+,11+,12+,13-,14+,15+,16-,17-,19-/m0/s1" RMY InChIKey InChI 1.03 XJSZEPMRURTGAF-DGRRIGLBSA-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 RMY "SYSTEMATIC NAME" ACDLabs 12.01 "ethyl 3-O-[5-(acetylamino)-3,5-dideoxy-D-glycero-alpha-D-galacto-non-2-ulopyranonosyl]-1-thio-beta-D-galactopyranoside" RMY "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "(2S,4S,5R,6R)-5-acetamido-2-[(2S,3R,4S,5S,6R)-2-ethylsulfanyl-3,5-dihydroxy-6-(hydroxymethyl)oxan-4-yl]oxy-4-hydroxy-6-[(1R,2R)-1,2,3-trihydroxypropyl]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 RMY "Create component" 2011-04-13 RCSB RMY "Modify descriptor" 2011-06-04 RCSB RMY "Modify synonyms" 2011-07-28 RCSB RMY "Modify synonyms" 2021-03-13 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id RMY _pdbx_chem_comp_synonyms.name "alpha-2,3-sialyl (1-thioethyl)galactose" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? ##