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        ?
##
