data_SMD
#

_chem_comp.id                                   SMD
_chem_comp.name                                 "METHYL-2-S-(ALPHA-D-MANNOPYRANOSYL)-2-THIO-ALPHA-D-MANNOPYRANOSIDE"
_chem_comp.type                                 saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C13 H24 O10 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2004-09-03
_chem_comp.pdbx_modified_date                   2020-07-17
_chem_comp.pdbx_ambiguous_flag                  N
_chem_comp.pdbx_release_status                  OBS
_chem_comp.pdbx_replaced_by                     ?
_chem_comp.pdbx_replaces                        ?
_chem_comp.formula_weight                       372.389
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    SMD
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  N
_chem_comp.pdbx_ideal_coordinates_details       ?
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       1X9D
_chem_comp.pdbx_subcomponent_list               "Z5L MAN"
_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
_chem_comp_atom.pdbx_residue_numbering
_chem_comp_atom.pdbx_polymer_type
_chem_comp_atom.pdbx_component_id
SMD  S22   S22   S  0  1  N  N  N   2.759   -5.803  -0.496   0.027  -1.476   0.271  S2   Z5L   1  1  polymer  1  
SMD  C22   C22   C  0  1  N  N  S   2.918   -7.077   0.784  -0.993  -0.692  -1.008  C2   Z5L   2  1  polymer  1  
SMD  C21   C21   C  0  1  N  N  S   3.993   -8.069   0.411  -1.207   0.783  -0.662  C1   Z5L   3  1  polymer  1  
SMD  O21   O21   O  0  1  N  N  N   4.209   -8.893   1.557  -2.035   1.389  -1.656  O1   Z5L   4  1  polymer  1  
SMD  C27   C27   C  0  1  N  N  N   5.377   -9.728   1.466  -2.003   2.798  -1.418  C1M  Z5L   5  1  polymer  1  
SMD  O25   O25   O  0  1  N  N  N   3.592   -8.831  -0.720  -1.838   0.893   0.612  O5   Z5L   6  1  polymer  1  
SMD  C23   C23   C  0  1  N  N  S   1.611   -7.844   1.050  -2.353  -1.392  -1.079  C3   Z5L   7  1  polymer  1  
SMD  O23   O23   O  0  1  N  N  N   0.589   -6.898   1.339  -2.165  -2.798  -1.253  O3   Z5L   8  1  polymer  1  
SMD  C24   C24   C  0  1  N  N  S   1.225   -8.756  -0.126  -3.106  -1.132   0.231  C4   Z5L   9  1  polymer  1  
SMD  O24   O24   O  0  1  N  N  N   0.158   -9.646   0.278  -4.435  -1.649   0.131  O4   Z5L  10  1  polymer  1  
SMD  C25   C25   C  0  1  N  N  R   2.393   -9.621  -0.554  -3.161   0.376   0.484  C5   Z5L  11  1  polymer  1  
SMD  C26   C26   C  0  1  N  N  N   2.071  -10.262  -1.885  -3.940   0.646   1.773  C6   Z5L  12  1  polymer  1  
SMD  O26   O26   O  0  1  N  N  N   3.033  -11.285  -2.161  -4.099   2.055   1.947  O6   Z5L  13  1  polymer  1  
SMD  C11   C11   C  0  1  N  N  R   1.967   -4.366   0.314   1.583  -0.576   0.029  C1   MAN  14  2  polymer  1  
SMD  C12   C12   C  0  1  N  N  S   1.425   -3.472  -0.762   2.691  -1.246   0.844  C2   MAN  15  2  polymer  1  
SMD  C13   C13   C  0  1  N  N  S   1.915   -2.055  -0.693   4.008  -0.500   0.605  C3   MAN  16  2  polymer  1  
SMD  C14   C14   C  0  1  N  N  S   3.407   -1.986  -0.468   3.789   0.988   0.905  C4   MAN  17  2  polymer  1  
SMD  C15   C15   C  0  1  N  N  R   3.757   -2.686   0.838   2.597   1.490   0.086  C5   MAN  18  2  polymer  1  
SMD  C16   C16   C  0  1  N  N  N   3.843   -1.644   1.953   2.876   1.273  -1.402  C6   MAN  19  2  polymer  1  
SMD  O12   O12   O  0  1  N  N  N  -0.004   -3.449  -0.670   2.831  -2.607   0.431  O2   MAN  20  2  polymer  1  
SMD  O13   O13   O  0  1  N  N  N   1.267   -1.342   0.398   4.416  -0.660  -0.755  O3   MAN  21  2  polymer  1  
SMD  O14   O14   O  0  1  N  N  N   4.093   -2.518  -1.627   3.520   1.162   2.297  O4   MAN  22  2  polymer  1  
SMD  O15   O15   O  0  1  N  N  N   2.779   -3.650   1.277   1.420   0.775   0.457  O5   MAN  23  2  polymer  1  
SMD  O16   O16   O  0  1  N  N  N   4.094   -2.242   3.206   1.803   1.818  -2.173  O6   MAN  24  2  polymer  1  
SMD  H22   H22   H  0  1  N  N  N   3.188   -6.534   1.720  -0.492  -0.770  -1.973  H2   Z5L  25  1  polymer  1  
SMD  H21   H21   H  0  1  N  N  N   4.941   -7.556   0.125  -0.243   1.292  -0.634  H1   Z5L  26  1  polymer  1  
SMD  H271  1H27  H  0  0  N  N  N   6.282   -9.113   1.250  -0.977   3.157  -1.498  H31  Z5L  27  1  polymer  1  
SMD  H272  2H27  H  0  0  N  N  N   5.546  -10.371   2.361  -2.624   3.305  -2.156  H32  Z5L  28  1  polymer  1  
SMD  H273  3H27  H  0  0  N  N  N   5.344  -10.347   0.539  -2.384   3.006  -0.418  H33  Z5L  29  1  polymer  1  
SMD  H23   H23   H  0  1  N  N  N   1.754   -8.522   1.923  -2.927  -0.993  -1.916  H3   Z5L  30  1  polymer  1  
SMD  H2    H2    H  0  1  N  N  N  -0.218   -7.372   1.503  -3.046  -3.197  -1.280  HO3  Z5L  31  1  polymer  1  
SMD  H24   H24   H  0  1  N  N  N   0.910   -8.099  -0.970  -2.585  -1.622   1.054  H4   Z5L  32  1  polymer  1  
SMD  H1    H1    H  0  1  N  N  N  -0.080  -10.209  -0.449  -4.873  -1.459   0.972  HO4  Z5L  33  1  polymer  1  
SMD  H25   H25   H  0  1  N  N  N   2.564  -10.389   0.236  -3.662   0.865  -0.351  H5   Z5L  34  1  polymer  1  
SMD  H261  1H26  H  0  0  N  N  N   2.001   -9.514  -2.709  -4.921   0.174   1.711  H61  Z5L  35  1  polymer  1  
SMD  H262  2H26  H  0  0  N  N  N   1.024  -10.643  -1.929  -3.393   0.235   2.621  H62  Z5L  36  1  polymer  1  
SMD  H26   H26   H  0  1  N  N  N   2.831  -11.688  -2.997  -4.594   2.181   2.768  HO6  Z5L  37  1  polymer  1  
SMD  H11   H11   H  0  1  N  N  N   1.147   -4.762   0.957   1.850  -0.591  -1.027  H1   MAN  38  2  polymer  1  
SMD  H12   H12   H  0  1  N  N  N   1.787   -3.897  -1.727   2.439  -1.211   1.904  H2   MAN  39  2  polymer  1  
SMD  H13   H13   H  0  1  N  N  N   1.667   -1.585  -1.673   4.778  -0.896   1.267  H3   MAN  40  2  polymer  1  
SMD  H14   H14   H  0  1  N  N  N   3.751   -0.931  -0.357   4.682   1.550   0.632  H4   MAN  41  2  polymer  1  
SMD  H15   H15   H  0  1  N  N  N   4.716   -3.218   0.640   2.450   2.553   0.276  H5   MAN  42  2  polymer  1  
SMD  H161  1H16  H  0  0  N  N  N   2.931   -1.004   1.983   3.808   1.770  -1.674  H61  MAN  43  2  polymer  1  
SMD  H162  2H16  H  0  0  N  N  N   4.599   -0.858   1.718   2.962   0.205  -1.604  H62  MAN  44  2  polymer  1  
SMD  H5    H5    H  0  1  N  N  N  -0.314   -4.346  -0.714   1.982  -3.039   0.598  HO2  MAN  45  2  polymer  1  
SMD  H4    H4    H  0  1  N  N  N   1.577   -0.445   0.442   4.542  -1.608  -0.899  HO3  MAN  46  2  polymer  1  
SMD  H3    H3    H  0  1  N  N  N   5.031   -2.475  -1.485   4.294   0.834   2.775  HO4  MAN  47  2  polymer  1  
SMD  H16   H16   H  0  1  N  N  N   4.147   -1.594   3.899   2.018   1.660  -3.102  HO6  MAN  48  2  polymer  1  
#   #
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
SMD  O12  C12   SING  N  N   1  
SMD  O12  H5    SING  N  N   2  
SMD  C12  C13   SING  N  N   3  
SMD  C12  C11   SING  N  N   4  
SMD  C12  H12   SING  N  N   5  
SMD  C13  O13   SING  N  N   6  
SMD  C13  C14   SING  N  N   7  
SMD  C13  H13   SING  N  N   8  
SMD  O13  H4    SING  N  N   9  
SMD  C14  O14   SING  N  N  10  
SMD  C14  C15   SING  N  N  11  
SMD  C14  H14   SING  N  N  12  
SMD  O14  H3    SING  N  N  13  
SMD  C15  C16   SING  N  N  14  
SMD  C15  O15   SING  N  N  15  
SMD  C15  H15   SING  N  N  16  
SMD  C16  O16   SING  N  N  17  
SMD  C16  H161  SING  N  N  18  
SMD  C16  H162  SING  N  N  19  
SMD  O16  H16   SING  N  N  20  
SMD  O15  C11   SING  N  N  21  
SMD  C11  S22   SING  N  N  22  
SMD  C11  H11   SING  N  N  23  
SMD  S22  C22   SING  N  N  24  
SMD  C22  C21   SING  N  N  25  
SMD  C22  C23   SING  N  N  26  
SMD  C22  H22   SING  N  N  27  
SMD  C21  O21   SING  N  N  28  
SMD  C21  O25   SING  N  N  29  
SMD  C21  H21   SING  N  N  30  
SMD  O21  C27   SING  N  N  31  
SMD  C27  H271  SING  N  N  32  
SMD  C27  H272  SING  N  N  33  
SMD  C27  H273  SING  N  N  34  
SMD  O25  C25   SING  N  N  35  
SMD  C23  O23   SING  N  N  36  
SMD  C23  C24   SING  N  N  37  
SMD  C23  H23   SING  N  N  38  
SMD  O23  H2    SING  N  N  39  
SMD  C24  O24   SING  N  N  40  
SMD  C24  C25   SING  N  N  41  
SMD  C24  H24   SING  N  N  42  
SMD  O24  H1    SING  N  N  43  
SMD  C25  C26   SING  N  N  44  
SMD  C25  H25   SING  N  N  45  
SMD  C26  O26   SING  N  N  46  
SMD  C26  H261  SING  N  N  47  
SMD  C26  H262  SING  N  N  48  
SMD  O26  H26   SING  N  N  49  
#   #
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
SMD  SMILES            ACDLabs               10.04  "S(C1C(OC)OC(CO)C(O)C1O)C2OC(C(O)C(O)C2O)CO"  
SMD  SMILES_CANONICAL  CACTVS                3.341  "CO[C@H]1O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]1S[C@H]2O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]2O"  
SMD  SMILES            CACTVS                3.341  "CO[CH]1O[CH](CO)[CH](O)[CH](O)[CH]1S[CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O"  
SMD  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "CO[C@@H]1[C@H]([C@H]([C@@H]([C@H](O1)CO)O)O)S[C@@H]2[C@H]([C@H]([C@@H]([C@H](O2)CO)O)O)O"  
SMD  SMILES            "OpenEye OEToolkits"  1.5.0  "COC1C(C(C(C(O1)CO)O)O)SC2C(C(C(C(O2)CO)O)O)O"  
SMD  InChI             InChI                 1.03   "InChI=1S/C13H24O10S/c1-21-12-11(9(19)7(17)4(2-14)22-12)24-13-10(20)8(18)6(16)5(3-15)23-13/h4-20H,2-3H2,1H3/t4-,5-,6-,7-,8+,9+,10+,11+,12+,13-/m1/s1"  
SMD  InChIKey          InChI                 1.03   WAYOKHSZGNFKSX-ZEEOCKJESA-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
SMD  "SYSTEMATIC NAME"  ACDLabs               10.04  "methyl 2-S-alpha-D-mannopyranosyl-2-thio-alpha-D-mannopyranoside"  
SMD  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(2R,3S,4S,5S,6R)-2-[(2S,3S,4S,5S,6R)-4,5-dihydroxy-6-(hydroxymethyl)-2-methoxy-oxan-3-yl]sulfanyl-6-(hydroxymethyl)oxane-3,4,5-triol"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
SMD  "Create component"    2004-09-03  RCSB  
SMD  "Modify descriptor"   2011-06-04  RCSB  
SMD  "Other modification"  2020-07-03  RCSB  
SMD  "Obsolete component"  2020-07-17  RCSB  
##
