data_H6M
#

_chem_comp.id                                   H6M
_chem_comp.name                                 "N-{6-[4-(hydroxyacetyl)-1,4-diazepan-1-yl]-2-(pyridin-2-yl)pyrimidin-4-yl}-beta-alanine"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C19 H24 N6 O4"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "hydrolysis product of 3-((6-(4-(2-cyano-3-methylbut-2-enoyl)-1,4-diazepan-1-yl)-2-(pyridin-2-yl)pyrimidin-4-yl)amino)propanoic acid"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-06-11
_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                       400.432
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    H6M
_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       6DQ7
_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
H6M  C02  C1   C  0  1  N  N  N  -22.672  19.118   7.991   5.128   3.758  -0.064  C02  H6M   1  
H6M  C04  C2   C  0  1  N  N  N  -22.675  19.078   6.436   5.025   2.268  -0.262  C04  H6M   2  
H6M  C05  C3   C  0  1  N  N  N  -24.050  18.702   5.863   3.588   1.816   0.006  C05  H6M   3  
H6M  C07  C4   C  0  1  Y  N  N  -24.537  20.271   3.826   2.274  -0.275   0.000  C07  H6M   4  
H6M  C08  C5   C  0  1  Y  N  N  -24.835  21.378   4.703   1.143   0.448   0.372  C08  H6M   5  
H6M  C09  C6   C  0  1  Y  N  N  -25.214  22.618   4.077  -0.055  -0.240   0.550  C09  H6M   6  
H6M  C11  C7   C  0  1  N  N  N  -25.934  23.500   6.370  -2.293  -0.494   1.209  C11  H6M   7  
H6M  C12  C8   C  0  1  N  N  N  -27.368  22.942   6.630  -3.131   0.059   2.341  C12  H6M   8  
H6M  C13  C9   C  0  1  N  N  N  -28.524  23.773   5.976  -4.295   0.884   1.768  C13  H6M   9  
H6M  C15  C10  C  0  1  N  N  N  -29.568  22.569   3.955  -4.673   1.772  -0.463  C15  H6M  10  
H6M  C16  C11  C  0  1  N  N  N  -29.723  22.303   2.436  -4.259   2.588  -1.660  C16  H6M  11  
H6M  C19  C12  C  0  1  N  N  N  -27.815  24.341   3.637  -2.599   2.399   0.584  C19  H6M  12  
H6M  C20  C13  C  0  1  N  N  N  -26.452  24.872   4.288  -1.497   1.479   0.005  C20  H6M  13  
H6M  C22  C14  C  0  1  Y  N  N  -24.960  21.628   1.928   1.016  -2.211   0.006  C22  H6M  14  
H6M  C23  C15  C  0  1  Y  N  N  -25.025  21.753   0.343   0.947  -3.681  -0.191  C23  H6M  15  
H6M  C24  C16  C  0  1  Y  N  N  -25.720  22.809  -0.318   2.094  -4.384  -0.552  C24  H6M  16  
H6M  C25  C17  C  0  1  Y  N  N  -25.759  22.890  -1.744   2.014  -5.755  -0.732  C25  H6M  17  
H6M  C26  C18  C  0  1  Y  N  N  -25.087  21.889  -2.500   0.788  -6.377  -0.544  C26  H6M  18  
H6M  C27  C19  C  0  1  Y  N  N  -24.410  20.858  -1.784  -0.310  -5.616  -0.185  C27  H6M  19  
H6M  N06  N1   N  0  1  N  N  N  -24.145  18.981   4.380   3.488   0.367  -0.187  N06  H6M  20  
H6M  N10  N2   N  0  1  N  N  N  -25.541  23.839   4.928  -1.206   0.439   0.919  N10  H6M  21  
H6M  N14  N3   N  0  1  N  N  N  -28.669  23.538   4.524  -3.862   1.691   0.610  N14  H6M  22  
H6M  N21  N4   N  0  1  Y  N  N  -25.262  22.729   2.698  -0.080  -1.556   0.359  N21  H6M  23  
H6M  N28  N5   N  0  1  Y  N  N  -24.399  20.819  -0.422  -0.205  -4.314  -0.016  N28  H6M  24  
H6M  N29  N6   N  0  1  Y  N  N  -24.599  20.418   2.463   2.174  -1.591  -0.167  N29  H6M  25  
H6M  O01  O1   O  0  1  N  N  N  -21.706  18.566   8.686   6.303   4.380  -0.251  O01  H6M  26  
H6M  O03  O2   O  0  1  N  N  N  -23.635  19.696   8.663   4.153   4.393   0.259  O03  H6M  27  
H6M  O17  O3   O  0  1  N  N  N  -28.635  21.438   1.994  -5.278   2.518  -2.660  O17  H6M  28  
H6M  O18  O4   O  0  1  N  N  N  -30.273  21.901   4.770  -5.736   1.188  -0.465  O18  H6M  29  
H6M  H1   H1   H  0  1  N  N  N  -21.937  18.335   6.100   5.300   2.018  -1.287  H1   H6M  30  
H6M  H2   H2   H  0  1  N  N  N  -22.394  20.071   6.056   5.700   1.762   0.428  H2   H6M  31  
H6M  H3   H3   H  0  1  N  N  N  -24.823  19.286   6.384   3.314   2.065   1.031  H3   H6M  32  
H6M  H4   H4   H  0  1  N  N  N  -24.224  17.629   6.034   2.914   2.322  -0.685  H4   H6M  33  
H6M  H5   H5   H  0  1  N  N  N  -24.777  21.281   5.777   1.195   1.517   0.520  H5   H6M  34  
H6M  H6   H6   H  0  1  N  N  N  -25.220  22.747   6.735  -1.878  -1.459   1.500  H6   H6M  35  
H6M  H7   H7   H  0  1  N  N  N  -25.830  24.421   6.962  -2.915  -0.617   0.322  H7   H6M  36  
H6M  H8   H8   H  0  1  N  N  N  -27.535  22.920   7.717  -3.527  -0.765   2.935  H8   H6M  37  
H6M  H9   H9   H  0  1  N  N  N  -27.414  21.918   6.231  -2.512   0.696   2.973  H9   H6M  38  
H6M  H10  H10  H  0  1  N  N  N  -28.319  24.842   6.137  -5.091   0.208   1.454  H10  H6M  39  
H6M  H11  H11  H  0  1  N  N  N  -29.469  23.502   6.469  -4.677   1.549   2.543  H11  H6M  40  
H6M  H12  H12  H  0  1  N  N  N  -29.683  23.256   1.888  -4.115   3.626  -1.360  H12  H6M  41  
H6M  H13  H13  H  0  1  N  N  N  -30.688  21.810   2.244  -3.326   2.193  -2.064  H13  H6M  42  
H6M  H14  H14  H  0  1  N  N  N  -28.396  25.215   3.307  -2.328   2.695   1.598  H14  H6M  43  
H6M  H15  H15  H  0  1  N  N  N  -27.556  23.723   2.765  -2.694   3.287  -0.040  H15  H6M  44  
H6M  H16  H16  H  0  1  N  N  N  -25.879  25.372   3.494  -1.842   1.048  -0.934  H16  H6M  45  
H6M  H17  H17  H  0  1  N  N  N  -26.719  25.604   5.064  -0.595   2.064  -0.176  H17  H6M  46  
H6M  H18  H18  H  0  1  N  N  N  -26.226  23.561   0.270   3.032  -3.867  -0.691  H18  H6M  47  
H6M  H19  H19  H  0  1  N  N  N  -26.287  23.693  -2.237   2.886  -6.326  -1.013  H19  H6M  48  
H6M  H20  H20  H  0  1  N  N  N  -25.090  21.909  -3.580   0.692  -7.444  -0.682  H20  H6M  49  
H6M  H21  H21  H  0  1  N  N  N  -23.892  20.088  -2.336  -1.266  -6.097  -0.038  H21  H6M  50  
H6M  H22  H22  H  0  1  N  N  N  -24.801  18.318   4.019   4.271  -0.143  -0.446  H22  H6M  51  
H6M  H23  H23  H  0  1  N  N  N  -21.875  18.684   9.613   6.319   5.338  -0.116  H23  H6M  52  
H6M  H24  H24  H  0  1  N  N  N  -28.722  21.269   1.063  -5.078   3.022  -3.461  H24  H6M  53  
#   #
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
H6M  C26  C27  DOUB  Y  N   1  
H6M  C26  C25  SING  Y  N   2  
H6M  C27  N28  SING  Y  N   3  
H6M  C25  C24  DOUB  Y  N   4  
H6M  N28  C23  DOUB  Y  N   5  
H6M  C24  C23  SING  Y  N   6  
H6M  C23  C22  SING  N  N   7  
H6M  C22  N29  DOUB  Y  N   8  
H6M  C22  N21  SING  Y  N   9  
H6M  O17  C16  SING  N  N  10  
H6M  C16  C15  SING  N  N  11  
H6M  N29  C07  SING  Y  N  12  
H6M  N21  C09  DOUB  Y  N  13  
H6M  C19  C20  SING  N  N  14  
H6M  C19  N14  SING  N  N  15  
H6M  C07  N06  SING  N  N  16  
H6M  C07  C08  DOUB  Y  N  17  
H6M  C15  N14  SING  N  N  18  
H6M  C15  O18  DOUB  N  N  19  
H6M  C09  C08  SING  Y  N  20  
H6M  C09  N10  SING  N  N  21  
H6M  C20  N10  SING  N  N  22  
H6M  N06  C05  SING  N  N  23  
H6M  N14  C13  SING  N  N  24  
H6M  N10  C11  SING  N  N  25  
H6M  C05  C04  SING  N  N  26  
H6M  C13  C12  SING  N  N  27  
H6M  C11  C12  SING  N  N  28  
H6M  C04  C02  SING  N  N  29  
H6M  C02  O03  DOUB  N  N  30  
H6M  C02  O01  SING  N  N  31  
H6M  C04  H1   SING  N  N  32  
H6M  C04  H2   SING  N  N  33  
H6M  C05  H3   SING  N  N  34  
H6M  C05  H4   SING  N  N  35  
H6M  C08  H5   SING  N  N  36  
H6M  C11  H6   SING  N  N  37  
H6M  C11  H7   SING  N  N  38  
H6M  C12  H8   SING  N  N  39  
H6M  C12  H9   SING  N  N  40  
H6M  C13  H10  SING  N  N  41  
H6M  C13  H11  SING  N  N  42  
H6M  C16  H12  SING  N  N  43  
H6M  C16  H13  SING  N  N  44  
H6M  C19  H14  SING  N  N  45  
H6M  C19  H15  SING  N  N  46  
H6M  C20  H16  SING  N  N  47  
H6M  C20  H17  SING  N  N  48  
H6M  C24  H18  SING  N  N  49  
H6M  C25  H19  SING  N  N  50  
H6M  C26  H20  SING  N  N  51  
H6M  C27  H21  SING  N  N  52  
H6M  N06  H22  SING  N  N  53  
H6M  O01  H23  SING  N  N  54  
H6M  O17  H24  SING  N  N  55  
#   #
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
H6M  SMILES            ACDLabs               12.01  "C(=O)(O)CCNc2cc(N1CCCN(C(=O)CO)CC1)nc(n2)c3ccccn3"  
H6M  InChI             InChI                 1.03   "InChI=1S/C19H24N6O4/c26-13-17(27)25-9-3-8-24(10-11-25)16-12-15(21-7-5-18(28)29)22-19(23-16)14-4-1-2-6-20-14/h1-2,4,6,12,26H,3,5,7-11,13H2,(H,28,29)(H,21,22,23)"  
H6M  InChIKey          InChI                 1.03   BFXYLSMGFITUJF-UHFFFAOYSA-N  
H6M  SMILES_CANONICAL  CACTVS                3.385  "OCC(=O)N1CCCN(CC1)c2cc(NCCC(O)=O)nc(n2)c3ccccn3"  
H6M  SMILES            CACTVS                3.385  "OCC(=O)N1CCCN(CC1)c2cc(NCCC(O)=O)nc(n2)c3ccccn3"  
H6M  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "c1ccnc(c1)c2nc(cc(n2)N3CCCN(CC3)C(=O)CO)NCCC(=O)O"  
H6M  SMILES            "OpenEye OEToolkits"  2.0.6  "c1ccnc(c1)c2nc(cc(n2)N3CCCN(CC3)C(=O)CO)NCCC(=O)O"  
#   #
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
H6M  "SYSTEMATIC NAME"  ACDLabs               12.01  "N-{6-[4-(hydroxyacetyl)-1,4-diazepan-1-yl]-2-(pyridin-2-yl)pyrimidin-4-yl}-beta-alanine"  
H6M  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "3-[[6-[4-(2-oxidanylethanoyl)-1,4-diazepan-1-yl]-2-pyridin-2-yl-pyrimidin-4-yl]amino]propanoic 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
H6M  "Create component"  2018-06-11  RCSB  
H6M  "Initial release"   2019-06-12  RCSB  
H6M  "Modify synonyms"   2021-03-13  RCSB  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     H6M
_pdbx_chem_comp_synonyms.name        "hydrolysis product of 3-((6-(4-(2-cyano-3-methylbut-2-enoyl)-1,4-diazepan-1-yl)-2-(pyridin-2-yl)pyrimidin-4-yl)amino)propanoic acid"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
##
