data_SY2
#

_chem_comp.id                                   SY2
_chem_comp.name                                 "N-{[(1S)-2-methyl-1-{[(5S,8S)-5-(1-methylethyl)-2,7-dioxo-1,6-diazacyclododec-3-en-8-yl]carbamoyl}propyl]carbamoyl}-L-valine"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C24 H41 N5 O6"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "Syringolin B"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2009-03-30
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       495.612
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    SY2
_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       3GPJ
_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
SY2  C8    C8    C  0  1  N  N  N  58.408  -134.720  34.837   3.762  -0.063   0.208  C8    SY2   1  
SY2  C6    C6    C  0  1  N  N  N  53.499  -133.820  34.329   7.927  -1.756  -0.424  C6    SY2   2  
SY2  C5    C5    C  0  1  N  N  N  55.363  -132.471  35.403   5.503  -2.300  -0.686  C5    SY2   3  
SY2  C4    C4    C  0  1  N  N  N  55.012  -133.377  34.213   6.557  -1.200  -0.820  C4    SY2   4  
SY2  O2    O2    O  0  1  N  N  N  56.210  -135.321  31.864   6.913   2.155  -0.407  O2    SY2   5  
SY2  C1    C1    C  0  1  N  N  N  55.749  -135.525  32.999   7.235   1.052  -0.034  C1    SY2   6  
SY2  C3    C3    C  0  1  N  N  S  56.032  -134.580  34.177   6.196  -0.032   0.099  C3    SY2   7  
SY2  O35   O35   O  0  1  N  N  N  54.972  -136.598  33.282   8.517   0.791   0.263  O35   SY2   8  
SY2  N7    N7    N  0  1  N  N  N  57.430  -134.112  34.069   4.884   0.500  -0.281  N7    SY2   9  
SY2  N36   N36   N  0  1  N  N  N  59.720  -134.311  34.764   2.555   0.423  -0.146  N36   SY2  10  
SY2  C11   C11   C  0  1  N  N  S  60.808  -134.937  35.574   1.335  -0.193   0.381  C11   SY2  11  
SY2  C15   C15   C  0  1  N  N  N  60.525  -134.815  37.035   0.191   0.069  -0.565  C15   SY2  12  
SY2  N17   N17   N  0  1  N  N  N  60.882  -135.877  37.831  -0.824  -0.812  -0.656  N17   SY2  13  
SY2  C18   C18   C  0  1  N  N  S  60.649  -135.774  39.264  -1.879  -0.614  -1.652  C18   SY2  14  
SY2  C34   C34   C  0  1  N  N  N  59.580  -136.820  39.698  -2.524  -1.954  -1.997  C34   SY2  15  
SY2  C33   C33   C  0  1  N  N  N  59.726  -138.198  38.989  -3.742  -2.244  -1.121  C33   SY2  16  
SY2  C32   C32   C  0  1  N  N  N  59.164  -139.372  39.862  -3.307  -2.645   0.281  C32   SY2  17  
SY2  C31   C31   C  0  1  N  N  N  60.044  -139.658  41.119  -4.479  -2.990   1.185  C31   SY2  18  
SY2  N30   N30   N  0  1  N  N  N  59.616  -138.872  42.273  -5.771  -2.547   0.657  N30   SY2  19  
SY2  C28   C28   C  0  1  N  N  N  60.443  -138.220  43.158  -6.023  -1.221   0.524  C28   SY2  20  
SY2  O29   O29   O  0  1  N  N  N  59.930  -137.607  44.090  -7.129  -0.842   0.184  O29   SY2  21  
SY2  C27   C27   C  0  1  N  N  N  61.973  -138.196  43.093  -4.956  -0.249   0.775  C27   SY2  22  
SY2  C26   C26   C  0  1  N  N  N  62.599  -136.832  43.528  -5.066   1.020   0.395  C26   SY2  23  
SY2  C22   C22   C  0  1  N  N  R  63.054  -136.013  42.284  -3.830   1.888   0.500  C22   SY2  24  
SY2  C23   C23   C  0  1  N  N  N  63.639  -134.608  42.693  -4.009   3.171  -0.309  C23   SY2  25  
SY2  C25   C25   C  0  1  N  N  N  64.551  -133.997  41.579  -5.181   3.973   0.259  C25   SY2  26  
SY2  C24   C24   C  0  1  N  N  N  62.515  -133.543  43.059  -2.731   4.008  -0.228  C24   SY2  27  
SY2  N21   N21   N  0  1  N  N  N  61.903  -135.863  41.392  -2.695   1.095  -0.025  N21   SY2  28  
SY2  C19   C19   C  0  1  N  N  N  61.961  -135.993  40.024  -2.895   0.370  -1.153  C19   SY2  29  
SY2  O20   O20   O  0  1  N  N  N  63.006  -136.254  39.387  -3.909   0.532  -1.807  O20   SY2  30  
SY2  O16   O16   O  0  1  N  N  N  60.011  -133.805  37.452   0.184   1.074  -1.244  O16   SY2  31  
SY2  C12   C12   C  0  1  N  N  N  62.235  -134.347  35.317   1.011   0.405   1.751  C12   SY2  32  
SY2  C14   C14   C  0  1  N  N  N  62.594  -134.531  33.833  -0.213  -0.299   2.339  C14   SY2  33  
SY2  C13   C13   C  0  1  N  N  N  62.301  -132.845  35.653   2.207   0.215   2.686  C13   SY2  34  
SY2  O9    O9    O  0  1  N  N  N  58.078  -135.631  35.582   3.837  -1.013   0.964  O9    SY2  35  
SY2  H6    H6    H  0  1  N  N  N  53.227  -133.923  35.390   8.185  -2.588  -1.078  H6    SY2  36  
SY2  H6A   H6A   H  0  1  N  N  N  52.858  -133.061  33.858   8.678  -0.972  -0.520  H6A   SY2  37  
SY2  H6B   H6B   H  0  1  N  N  N  53.360  -134.785  33.820   7.893  -2.102   0.609  H6B   SY2  38  
SY2  H5    H5    H  0  1  N  N  N  55.447  -133.079  36.316   5.469  -2.647   0.347  H5    SY2  39  
SY2  H5A   H5A   H  0  1  N  N  N  56.321  -131.967  35.209   4.527  -1.905  -0.968  H5A   SY2  40  
SY2  H5B   H5B   H  0  1  N  N  N  54.572  -131.718  35.536   5.760  -3.133  -1.340  H5B   SY2  41  
SY2  H4    H4    H  0  1  N  N  N  55.108  -132.850  33.252   6.591  -0.854  -1.853  H4    SY2  42  
SY2  H3    H3    H  0  1  N  N  N  55.898  -135.119  35.126   6.162  -0.379   1.132  H3    SY2  43  
SY2  HO35  HO35  H  0  0  N  N  N  54.859  -137.123  32.498   9.148   1.518   0.162  HO35  SY2  44  
SY2  HN7   HN7   H  0  1  N  N  N  57.667  -133.365  33.448   4.824   1.258  -0.884  HN7   SY2  45  
SY2  HN36  HN36  H  0  0  N  N  N  59.955  -133.563  34.143   2.495   1.180  -0.749  HN36  SY2  46  
SY2  H11   H11   H  0  1  N  N  N  60.815  -135.988  35.248   1.484  -1.269   0.480  H11   SY2  47  
SY2  HN17  HN17  H  0  0  N  N  N  61.291  -136.699  37.436  -0.856  -1.579  -0.063  HN17  SY2  48  
SY2  H18   H18   H  0  1  N  N  N  60.274  -134.768  39.502  -1.419  -0.204  -2.562  H18   SY2  49  
SY2  H34   H34   H  0  1  N  N  N  59.681  -136.982  40.781  -2.832  -1.944  -3.047  H34   SY2  50  
SY2  H34A  H34A  H  0  0  N  N  N  58.597  -136.414  39.416  -1.788  -2.752  -1.863  H34A  SY2  51  
SY2  H33   H33   H  0  1  N  N  N  59.168  -138.166  38.042  -4.393  -1.376  -1.085  H33   SY2  52  
SY2  H33A  H33A  H  0  0  N  N  N  60.797  -138.382  38.820  -4.305  -3.075  -1.566  H33A  SY2  53  
SY2  H32   H32   H  0  1  N  N  N  58.152  -139.102  40.199  -2.649  -3.517   0.211  H32   SY2  54  
SY2  H32A  H32A  H  0  0  N  N  N  59.161  -140.280  39.241  -2.741  -1.829   0.733  H32A  SY2  55  
SY2  H31   H31   H  0  1  N  N  N  59.963  -140.726  41.370  -4.508  -4.075   1.324  H31   SY2  56  
SY2  H31A  H31A  H  0  0  N  N  N  61.081  -139.380  40.881  -4.319  -2.529   2.163  H31A  SY2  57  
SY2  HN30  HN30  H  0  0  N  N  N  58.632  -138.801  42.435  -6.448  -3.199   0.401  HN30  SY2  58  
SY2  H22   H22   H  0  1  N  N  N  63.865  -136.550  41.769  -3.648   2.136   1.548  H22   SY2  59  
SY2  H23   H23   H  0  1  N  N  N  64.239  -134.812  43.592  -4.212   2.919  -1.350  H23   SY2  60  
SY2  H25   H25   H  0  1  N  N  N  63.963  -133.854  40.661  -4.952   4.276   1.281  H25   SY2  61  
SY2  H25A  H25A  H  0  0  N  N  N  64.944  -133.027  41.918  -5.346   4.859  -0.354  H25A  SY2  62  
SY2  H25B  H25B  H  0  0  N  N  N  65.388  -134.681  41.375  -6.079   3.356   0.256  H25B  SY2  63  
SY2  H24   H24   H  0  1  N  N  N  62.577  -133.297  44.129  -1.896   3.436  -0.633  H24   SY2  64  
SY2  H24A  H24A  H  0  0  N  N  N  62.667  -132.630  42.464  -2.858   4.923  -0.805  H24A  SY2  65  
SY2  H24B  H24B  H  0  0  N  N  N  61.524  -133.965  42.837  -2.527   4.260   0.813  H24B  SY2  66  
SY2  HN21  HN21  H  0  0  N  N  N  61.017  -135.652  41.804  -1.835   1.110   0.433  HN21  SY2  67  
SY2  H12   H12   H  0  1  N  N  N  62.944  -134.881  35.967   0.801   1.469   1.642  H12   SY2  68  
SY2  H14   H14   H  0  1  N  N  N  61.672  -134.575  33.235   0.016  -1.352   2.500  H14   SY2  69  
SY2  H14A  H14A  H  0  0  N  N  N  63.209  -133.683  33.497  -0.477   0.165   3.290  H14A  SY2  70  
SY2  H14B  H14B  H  0  0  N  N  N  63.158  -135.467  33.706  -1.051  -0.210   1.647  H14B  SY2  71  
SY2  H13   H13   H  0  1  N  N  N  62.317  -132.713  36.745   3.079   0.717   2.267  H13   SY2  72  
SY2  H13A  H13A  H  0  0  N  N  N  63.214  -132.412  35.218   1.977   0.642   3.662  H13A  SY2  73  
SY2  H13B  H13B  H  0  0  N  N  N  61.419  -132.337  35.235   2.417  -0.849   2.795  H13B  SY2  74  
SY2  H27   H27   H  0  1  N  N  N  62.564  -139.043  42.776  -4.055  -0.556   1.295  H27   SY2  75  
SY2  H26   H26   H  0  1  N  N  N  62.702  -136.502  44.551  -5.966   1.411  -0.034  H26   SY2  76  
#   #
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
SY2  C8   O9    DOUB  N  N   1  
SY2  C6   H6    SING  N  N   2  
SY2  C6   H6A   SING  N  N   3  
SY2  C6   H6B   SING  N  N   4  
SY2  C5   H5    SING  N  N   5  
SY2  C5   H5A   SING  N  N   6  
SY2  C5   H5B   SING  N  N   7  
SY2  C4   C6    SING  N  N   8  
SY2  C4   C5    SING  N  N   9  
SY2  C4   H4    SING  N  N  10  
SY2  O2   C1    DOUB  N  N  11  
SY2  C1   O35   SING  N  N  12  
SY2  C1   C3    SING  N  N  13  
SY2  C3   C4    SING  N  N  14  
SY2  C3   H3    SING  N  N  15  
SY2  O35  HO35  SING  N  N  16  
SY2  N7   C8    SING  N  N  17  
SY2  N7   C3    SING  N  N  18  
SY2  N7   HN7   SING  N  N  19  
SY2  N36  C8    SING  N  N  20  
SY2  N36  C11   SING  N  N  21  
SY2  N36  HN36  SING  N  N  22  
SY2  C11  C15   SING  N  N  23  
SY2  C11  H11   SING  N  N  24  
SY2  C15  O16   DOUB  N  N  25  
SY2  C15  N17   SING  N  N  26  
SY2  N17  C18   SING  N  N  27  
SY2  N17  HN17  SING  N  N  28  
SY2  C18  C34   SING  N  N  29  
SY2  C18  C19   SING  N  N  30  
SY2  C18  H18   SING  N  N  31  
SY2  C34  H34   SING  N  N  32  
SY2  C34  H34A  SING  N  N  33  
SY2  C33  C34   SING  N  N  34  
SY2  C33  C32   SING  N  N  35  
SY2  C33  H33   SING  N  N  36  
SY2  C33  H33A  SING  N  N  37  
SY2  C32  C31   SING  N  N  38  
SY2  C32  H32   SING  N  N  39  
SY2  C32  H32A  SING  N  N  40  
SY2  C31  N30   SING  N  N  41  
SY2  C31  H31   SING  N  N  42  
SY2  C31  H31A  SING  N  N  43  
SY2  N30  C28   SING  N  N  44  
SY2  N30  HN30  SING  N  N  45  
SY2  C28  O29   DOUB  N  N  46  
SY2  C27  C28   SING  N  N  47  
SY2  C27  C26   DOUB  N  E  48  
SY2  C22  C26   SING  N  N  49  
SY2  C22  C23   SING  N  N  50  
SY2  C22  H22   SING  N  N  51  
SY2  C23  C24   SING  N  N  52  
SY2  C23  H23   SING  N  N  53  
SY2  C25  C23   SING  N  N  54  
SY2  C25  H25   SING  N  N  55  
SY2  C25  H25A  SING  N  N  56  
SY2  C25  H25B  SING  N  N  57  
SY2  C24  H24   SING  N  N  58  
SY2  C24  H24A  SING  N  N  59  
SY2  C24  H24B  SING  N  N  60  
SY2  N21  C22   SING  N  N  61  
SY2  N21  HN21  SING  N  N  62  
SY2  C19  N21   SING  N  N  63  
SY2  O20  C19   DOUB  N  N  64  
SY2  C12  C11   SING  N  N  65  
SY2  C12  C13   SING  N  N  66  
SY2  C12  H12   SING  N  N  67  
SY2  C14  C12   SING  N  N  68  
SY2  C14  H14   SING  N  N  69  
SY2  C14  H14A  SING  N  N  70  
SY2  C14  H14B  SING  N  N  71  
SY2  C13  H13   SING  N  N  72  
SY2  C13  H13A  SING  N  N  73  
SY2  C13  H13B  SING  N  N  74  
SY2  C27  H27   SING  N  N  75  
SY2  C26  H26   SING  N  N  76  
#   #
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
SY2  SMILES            ACDLabs               10.04  "O=C(O)C(NC(=O)NC(C(=O)NC1C(=O)NC(C=CC(=O)NCCCC1)C(C)C)C(C)C)C(C)C"  
SY2  SMILES_CANONICAL  CACTVS                3.341  "CC(C)[C@@H]/1NC(=O)[C@H](CCCCNC(=O)\C=C/1)NC(=O)[C@@H](NC(=O)N[C@@H](C(C)C)C(O)=O)C(C)C"  
SY2  SMILES            CACTVS                3.341  "CC(C)[CH]1NC(=O)[CH](CCCCNC(=O)C=C1)NC(=O)[CH](NC(=O)N[CH](C(C)C)C(O)=O)C(C)C"  
SY2  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "CC(C)[C@H]1C=CC(=O)NCCCC[C@@H](C(=O)N1)NC(=O)[C@H](C(C)C)NC(=O)N[C@@H](C(C)C)C(=O)O"  
SY2  SMILES            "OpenEye OEToolkits"  1.5.0  "CC(C)C1C=CC(=O)NCCCCC(C(=O)N1)NC(=O)C(C(C)C)NC(=O)NC(C(C)C)C(=O)O"  
SY2  InChI             InChI                 1.03   "InChI=1S/C24H41N5O6/c1-13(2)16-10-11-18(30)25-12-8-7-9-17(21(31)26-16)27-22(32)19(14(3)4)28-24(35)29-20(15(5)6)23(33)34/h10-11,13-17,19-20H,7-9,12H2,1-6H3,(H,25,30)(H,26,31)(H,27,32)(H,33,34)(H2,28,29,35)/t16-,17+,19+,20+/m1/s1"  
SY2  InChIKey          InChI                 1.03   AIMDTYKFJMYVNG-UMGGQSCQSA-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
SY2  "SYSTEMATIC NAME"  ACDLabs               10.04  "N-{[(1S)-2-methyl-1-{[(3E,5S,8S)-5-(1-methylethyl)-2,7-dioxo-1,6-diazacyclododec-3-en-8-yl]carbamoyl}propyl]carbamoyl}-L-valine"  
SY2  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(2S)-2-[[(2S)-1-[[(5S,8S)-2,7-dioxo-5-propan-2-yl-1,6-diazacyclododec-3-en-8-yl]amino]-3-methyl-1-oxo-butan-2-yl]carbamoylamino]-3-methyl-butanoic 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
SY2  "Create component"   2009-03-30  RCSB  
SY2  "Modify descriptor"  2011-06-04  RCSB  
SY2  "Modify synonyms"    2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     SY2
_pdbx_chem_comp_synonyms.name        "Syringolin B"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
