data_Y1M
#

_chem_comp.id                                   Y1M
_chem_comp.name                                 "N-[(3,4-dihydro-2H-1lambda~4~-thiophen-5-yl)methyl]-4-(furan-2-carbonyl)piperazine-1-carboxamide"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C15 H21 N3 O3 S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-01-26
_chem_comp.pdbx_modified_date                   2021-02-12
_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                       323.411
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    Y1M
_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       5S8Z
_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
Y1M  N1   N1   N  0  1  N  N  N  -17.593  15.622  26.301  -0.070  -0.689  -0.456  N1   Y1M   1  
Y1M  C4   C1   C  0  1  N  N  N  -16.870  21.916  25.168   6.970   0.486   0.479  C4   Y1M   2  
Y1M  C5   C2   C  0  1  N  N  N  -18.088  21.425  25.501   6.273   1.478  -0.493  C5   Y1M   3  
Y1M  C6   C3   C  0  1  N  N  N  -18.605  15.052  27.208  -1.329  -1.422  -0.651  C6   Y1M   4  
Y1M  C7   C4   C  0  1  N  N  N  -18.687  13.541  27.035  -2.352  -0.921   0.375  C7   Y1M   5  
Y1M  C8   C5   C  0  1  N  N  N  -19.991  12.638  25.060  -3.529   1.211   0.129  C8   Y1M   6  
Y1M  C10  C6   C  0  1  Y  N  N  -22.399  11.865  25.459  -6.013   0.998  -0.264  C10  Y1M   7  
Y1M  C13  C7   C  0  1  N  N  N  -17.796  13.680  24.827  -1.116   1.281   0.534  C13  Y1M   8  
Y1M  N    N2   N  0  1  N  N  N  -16.136  17.343  25.791   2.248  -0.674  -0.179  N    Y1M   9  
Y1M  C    C8   C  0  1  N  N  N  -16.864  16.693  26.717   1.085  -1.352  -0.251  C    Y1M  10  
Y1M  O    O1   O  0  1  N  N  N  -16.890  17.058  27.889   1.079  -2.562  -0.131  O    Y1M  11  
Y1M  C1   C9   C  0  1  N  N  N  -15.481  18.595  26.106   3.488  -1.380   0.155  C1   Y1M  12  
Y1M  C11  C10  C  0  1  Y  N  N  -23.370  12.203  26.416  -6.941  -0.052  -0.176  C11  Y1M  13  
Y1M  C12  C11  C  0  1  Y  N  N  -22.813  13.054  27.249  -6.261  -1.152   0.218  C12  Y1M  14  
Y1M  C14  C12  C  0  1  N  N  N  -17.716  15.185  24.905  -0.092   0.780  -0.493  C14  Y1M  15  
Y1M  C2   C13  C  0  1  N  N  N  -16.327  19.770  25.852   4.634  -0.402   0.170  C2   Y1M  16  
Y1M  C3   C14  C  0  1  N  N  N  -15.801  21.006  25.348   6.063  -0.754   0.472  C3   Y1M  17  
Y1M  C9   C15  C  0  1  Y  N  N  -21.278  12.543  25.785  -4.798   0.477   0.079  C9   Y1M  18  
Y1M  N2   N3   N  0  1  N  N  N  -18.929  13.221  25.625  -2.375   0.548   0.338  N2   Y1M  19  
Y1M  O1   O2   O  0  1  N  N  N  -19.926  12.213  23.917  -3.519   2.419  -0.020  O1   Y1M  20  
Y1M  O2   O3   O  0  1  Y  N  N  -21.504  13.289  26.905  -4.971  -0.828   0.374  O2   Y1M  21  
Y1M  S    S1   S  0  1  N  N  N  -18.066  19.826  26.076   4.511   1.128  -0.128  S    Y1M  22  
Y1M  H4   H1   H  0  1  N  N  N  -16.675  22.802  25.790   7.966   0.232   0.116  H4   Y1M  23  
Y1M  H17  H2   H  0  1  N  N  N  -16.896  22.210  24.108   7.029   0.912   1.481  H17  Y1M  24  
Y1M  H5   H3   H  0  1  N  N  N  -18.515  22.067  26.285   6.528   2.510  -0.252  H5   Y1M  25  
Y1M  H18  H4   H  0  1  N  N  N  -18.729  21.461  24.608   6.514   1.247  -1.530  H18  Y1M  26  
Y1M  H6   H5   H  0  1  N  N  N  -18.330  15.283  28.248  -1.704  -1.242  -1.659  H6   Y1M  27  
Y1M  H7   H6   H  0  1  N  N  N  -19.585  15.496  26.981  -1.157  -2.488  -0.507  H7   Y1M  28  
Y1M  H9   H7   H  0  1  N  N  N  -17.740  13.084  27.357  -3.340  -1.309   0.126  H9   Y1M  29  
Y1M  H8   H8   H  0  1  N  N  N  -19.512  13.146  27.647  -2.065  -1.258   1.372  H8   Y1M  30  
Y1M  H10  H9   H  0  1  N  N  N  -22.525  11.192  24.623  -6.219   2.018  -0.551  H10  Y1M  31  
Y1M  H13  H10  H  0  1  N  N  N  -16.867  13.241  25.219  -0.741   1.101   1.542  H13  Y1M  32  
Y1M  H14  H11  H  0  1  N  N  N  -17.934  13.372  23.780  -1.288   2.348   0.393  H14  Y1M  33  
Y1M  H    H12  H  0  1  N  N  N  -16.046  16.956  24.873   2.264   0.280  -0.349  H    Y1M  34  
Y1M  H1   H13  H  0  1  N  N  N  -15.204  18.587  27.171   3.390  -1.840   1.138  H1   Y1M  35  
Y1M  H2   H14  H  0  1  N  N  N  -14.572  18.679  25.492   3.679  -2.152  -0.590  H2   Y1M  36  
Y1M  H11  H15  H  0  1  N  N  N  -24.384  11.833  26.459  -7.999   0.008  -0.383  H11  Y1M  37  
Y1M  H12  H16  H  0  1  N  N  N  -23.317  13.507  28.090  -6.688  -2.130   0.380  H12  Y1M  38  
Y1M  H16  H17  H  0  1  N  N  N  -16.838  15.531  24.339   0.895   1.168  -0.243  H16  Y1M  39  
Y1M  H15  H18  H  0  1  N  N  N  -18.628  15.619  24.469  -0.379   1.117  -1.489  H15  Y1M  40  
Y1M  H3   H19  H  0  1  N  N  N  -15.079  21.421  26.067   6.424  -1.453  -0.283  H3   Y1M  41  
Y1M  H19  H20  H  0  1  N  N  N  -15.300  20.829  24.385   6.111  -1.235   1.449  H19  Y1M  42  
Y1M  H20  H21  H  0  1  N  N  N  -18.446  19.701  27.313   4.343   1.662   1.095  H20  Y1M  43  
#   #
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
Y1M  O    C    DOUB  N  N   1  
Y1M  N    C    SING  N  N   2  
Y1M  C1   N    SING  N  N   3  
Y1M  C2   C1   SING  N  N   4  
Y1M  C2   C3   SING  N  N   5  
Y1M  C3   C4   SING  N  N   6  
Y1M  C4   C5   SING  N  N   7  
Y1M  C5   S    SING  N  N   8  
Y1M  S    C2   DOUB  N  N   9  
Y1M  C    N1   SING  N  N  10  
Y1M  N1   C6   SING  N  N  11  
Y1M  C6   C7   SING  N  N  12  
Y1M  C7   N2   SING  N  N  13  
Y1M  N2   C8   SING  N  N  14  
Y1M  C8   O1   DOUB  N  N  15  
Y1M  C9   C8   SING  N  N  16  
Y1M  C9   C10  DOUB  Y  N  17  
Y1M  C10  C11  SING  Y  N  18  
Y1M  C11  C12  DOUB  Y  N  19  
Y1M  C12  O2   SING  Y  N  20  
Y1M  O2   C9   SING  Y  N  21  
Y1M  C13  N2   SING  N  N  22  
Y1M  C14  C13  SING  N  N  23  
Y1M  N1   C14  SING  N  N  24  
Y1M  C4   H4   SING  N  N  25  
Y1M  C4   H17  SING  N  N  26  
Y1M  C5   H5   SING  N  N  27  
Y1M  C5   H18  SING  N  N  28  
Y1M  C6   H6   SING  N  N  29  
Y1M  C6   H7   SING  N  N  30  
Y1M  C7   H9   SING  N  N  31  
Y1M  C7   H8   SING  N  N  32  
Y1M  C10  H10  SING  N  N  33  
Y1M  C13  H13  SING  N  N  34  
Y1M  C13  H14  SING  N  N  35  
Y1M  N    H    SING  N  N  36  
Y1M  C1   H1   SING  N  N  37  
Y1M  C1   H2   SING  N  N  38  
Y1M  C11  H11  SING  N  N  39  
Y1M  C12  H12  SING  N  N  40  
Y1M  C14  H16  SING  N  N  41  
Y1M  C14  H15  SING  N  N  42  
Y1M  C3   H3   SING  N  N  43  
Y1M  C3   H19  SING  N  N  44  
Y1M  S    H20  SING  N  N  45  
#   #
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
Y1M  SMILES            ACDLabs               12.01  "N2(CCN(C(=O)c1ccco1)CC2)C(NCC=3CCCS=3)=O"  
Y1M  InChI             InChI                 1.03   "InChI=1S/C15H21N3O3S/c19-14(13-4-1-9-21-13)17-5-7-18(8-6-17)15(20)16-11-12-3-2-10-22-12/h1,4,9,22H,2-3,5-8,10-11H2,(H,16,20)"  
Y1M  InChIKey          InChI                 1.03   NPFSQHMDDIVZSU-UHFFFAOYSA-N  
Y1M  SMILES_CANONICAL  CACTVS                3.385  "O=C(NCC1=[SH]CCC1)N2CCN(CC2)C(=O)c3occc3"  
Y1M  SMILES            CACTVS                3.385  "O=C(NCC1=[SH]CCC1)N2CCN(CC2)C(=O)c3occc3"  
Y1M  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cc(oc1)C(=O)N2CCN(CC2)C(=O)NCC3=SCCC3"  
Y1M  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cc(oc1)C(=O)N2CCN(CC2)C(=O)NCC3=SCCC3"  
#   #
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
Y1M  "SYSTEMATIC NAME"  ACDLabs               12.01  "N-[(3,4-dihydro-2H-1lambda~4~-thiophen-5-yl)methyl]-4-(furan-2-carbonyl)piperazine-1-carboxamide"  
Y1M  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "~{N}-(3,4-dihydro-2~{H}-thiophen-5-ylmethyl)-4-(furan-2-ylcarbonyl)piperazine-1-carboxamide"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
Y1M  "Create component"  2021-01-26  RCSB  
Y1M  "Initial release"   2021-02-17  RCSB  
##
