data_R41
#

_chem_comp.id                                   R41
_chem_comp.name                                 "[(2R)-7-(2-aminopyridin-4-yl)-5-chloro-2,3-dihydro-1-benzofuran-2-yl](piperazin-1-yl)methanone"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C18 H19 Cl N4 O2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-01-29
_chem_comp.pdbx_modified_date                   2020-04-24
_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                       358.822
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    R41
_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       6VN5
_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
R41  C2    C1   C   0  1  Y  N  N  4.673   4.651  90.419   4.646   2.170   0.579  C2    R41   1  
R41  C4    C2   C   0  1  Y  N  N  6.812   5.532  90.266   3.257   3.021  -1.062  C4    R41   2  
R41  C5    C3   C   0  1  Y  N  N  7.271   4.766  91.320   2.480   1.883  -1.058  C5    R41   3  
R41  C6    C4   C   0  1  Y  N  N  6.376   3.893  91.965   2.804   0.838  -0.184  C6    R41   4  
R41  C7    C5   C   0  1  Y  N  N  5.051   3.844  91.493   3.915   0.991   0.645  C7    R41   5  
R41  C8    C6   C   0  1  Y  N  N  6.810   3.048  93.110   1.993  -0.403  -0.149  C8    R41   6  
R41  C12   C7   C   0  1  Y  N  N  7.567   1.405  95.233   0.487  -2.728  -0.084  C12   R41   7  
R41  C15   C8   C   0  1  N  N  R  8.541   5.025  95.696  -1.491   0.371   0.564  C15   R41   8  
R41  C17   C9   C   0  1  Y  N  N  7.596   3.571  94.162   0.596  -0.326  -0.042  C17   R41   9  
R41  C18   C10  C   0  1  N  N  N  7.486   5.812  96.449  -2.601   1.185  -0.051  C18   R41  10  
R41  C21   C11  C   0  1  N  N  N  7.577   7.715  94.802  -4.980   1.727  -0.294  C21   R41  11  
R41  C24   C12  C   0  1  N  N  N  4.858   8.116  95.755  -5.299  -1.005   0.655  C24   R41  12  
R41  N1    N1   N   0  1  N  N  N  3.372   4.624  89.928   5.757   2.337   1.398  N1    R41  13  
R41  N3    N2   N   0  1  Y  N  N  5.557   5.457  89.852   4.299   3.135  -0.260  N3    R41  14  
R41  C9    C13  C   0  1  Y  N  N  6.419   1.712  93.151   2.617  -1.644  -0.228  C9    R41  15  
R41  C10   C14  C   0  1  Y  N  N  6.791   0.891  94.196   1.866  -2.802  -0.198  C10   R41  16  
R41  CL11  CL1  CL  0  0  N  N  N  6.270  -0.765  94.176   2.648  -4.348  -0.301  CL11  R41  17  
R41  C13   C15  C   0  1  Y  N  N  7.968   2.733  95.212  -0.138  -1.502  -0.005  C13   R41  18  
R41  C14   C16  C   0  1  N  N  N  8.799   3.566  96.174  -1.597  -1.112   0.136  C14   R41  19  
R41  O16   O1   O   0  1  N  N  N  8.095   4.820  94.341  -0.215   0.765   0.030  O16   R41  20  
R41  O19   O2   O   0  1  N  N  N  7.014   5.341  97.462  -2.341   2.055  -0.854  O19   R41  21  
R41  N20   N3   N   0  1  N  N  N  7.069   7.041  96.018  -3.882   0.945   0.293  N20   R41  22  
R41  C22   C17  C   0  1  N  N  N  6.407   7.727  93.824  -6.030   0.756  -0.843  C22   R41  23  
R41  N23   N4   N   0  1  N  N  N  5.362   8.557  94.440  -6.431  -0.177   0.218  N23   R41  24  
R41  C25   C18  C   0  1  N  N  N  6.028   7.830  96.727  -4.219  -0.106   1.265  C25   R41  25  
R41  H1    H1   H   0  1  N  N  N  7.492   6.207  89.769   3.012   3.831  -1.733  H1    R41  26  
R41  H2    H2   H   0  1  N  N  N  8.299   4.836  91.643   1.631   1.799  -1.720  H2    R41  27  
R41  H3    H3   H   0  1  N  N  N  4.332   3.186  91.959   4.203   0.204   1.326  H3    R41  28  
R41  H4    H4   H   0  1  N  N  N  7.857   0.768  96.055  -0.101  -3.634  -0.060  H4    R41  29  
R41  H5    H5   H   0  1  N  N  N  9.491   5.579  95.710  -1.503   0.462   1.650  H5    R41  30  
R41  H6    H6   H   0  1  N  N  N  8.426   7.157  94.379  -5.430   2.359   0.471  H6    R41  31  
R41  H7    H7   H   0  1  N  N  N  7.893   8.742  95.036  -4.595   2.349  -1.103  H7    R41  32  
R41  H8    H8   H   0  1  N  N  N  4.221   8.906  96.180  -5.640  -1.722   1.402  H8    R41  33  
R41  H9    H9   H   0  1  N  N  N  4.266   7.198  95.624  -4.887  -1.539  -0.200  H9    R41  34  
R41  H10   H10  H   0  1  N  N  N  3.290   5.264  89.164   6.018   1.632   2.011  H10   R41  35  
R41  H11   H11  H   0  1  N  N  N  3.153   3.700  89.614   6.271   3.158   1.356  H11   R41  36  
R41  H12   H12  H   0  1  N  N  N  5.814   1.311  92.351   3.692  -1.701  -0.313  H12   R41  37  
R41  H13   H13  H   0  1  N  N  N  8.461   3.425  97.211  -2.086  -1.706   0.909  H13   R41  38  
R41  H14   H14  H   0  1  N  N  N  9.866   3.309  96.098  -2.120  -1.207  -0.815  H14   R41  39  
R41  H15   H15  H   0  1  N  N  N  6.035   6.704  93.663  -6.901   1.316  -1.183  H15   R41  40  
R41  H16   H16  H   0  1  N  N  N  6.719   8.160  92.862  -5.608   0.197  -1.678  H16   R41  41  
R41  H17   H17  H   0  1  N  N  N  5.733   9.479  94.551  -6.841   0.316   0.997  H17   R41  42  
R41  H19   H19  H   0  1  N  N  N  6.459   8.781  97.074  -4.595   0.350   2.181  H19   R41  43  
R41  H20   H20  H   0  1  N  N  N  5.658   7.259  97.591  -3.331  -0.698   1.487  H20   R41  44  
#   #
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
R41  N3    C4   DOUB  Y  N   1  
R41  N3    C2   SING  Y  N   2  
R41  N1    C2   SING  N  N   3  
R41  C4    C5   SING  Y  N   4  
R41  C2    C7   DOUB  Y  N   5  
R41  C5    C6   DOUB  Y  N   6  
R41  C7    C6   SING  Y  N   7  
R41  C6    C8   SING  N  N   8  
R41  C8    C9   DOUB  Y  N   9  
R41  C8    C17  SING  Y  N  10  
R41  C9    C10  SING  Y  N  11  
R41  C22   N23  SING  N  N  12  
R41  C22   C21  SING  N  N  13  
R41  C17   O16  SING  N  N  14  
R41  C17   C13  DOUB  Y  N  15  
R41  CL11  C10  SING  N  N  16  
R41  C10   C12  DOUB  Y  N  17  
R41  O16   C15  SING  N  N  18  
R41  N23   C24  SING  N  N  19  
R41  C21   N20  SING  N  N  20  
R41  C13   C12  SING  Y  N  21  
R41  C13   C14  SING  N  N  22  
R41  C15   C14  SING  N  N  23  
R41  C15   C18  SING  N  N  24  
R41  C24   C25  SING  N  N  25  
R41  N20   C18  SING  N  N  26  
R41  N20   C25  SING  N  N  27  
R41  C18   O19  DOUB  N  N  28  
R41  C4    H1   SING  N  N  29  
R41  C5    H2   SING  N  N  30  
R41  C7    H3   SING  N  N  31  
R41  C12   H4   SING  N  N  32  
R41  C15   H5   SING  N  N  33  
R41  C21   H6   SING  N  N  34  
R41  C21   H7   SING  N  N  35  
R41  C24   H8   SING  N  N  36  
R41  C24   H9   SING  N  N  37  
R41  N1    H10  SING  N  N  38  
R41  N1    H11  SING  N  N  39  
R41  C9    H12  SING  N  N  40  
R41  C14   H13  SING  N  N  41  
R41  C14   H14  SING  N  N  42  
R41  C22   H15  SING  N  N  43  
R41  C22   H16  SING  N  N  44  
R41  N23   H17  SING  N  N  45  
R41  C25   H19  SING  N  N  46  
R41  C25   H20  SING  N  N  47  
#   #
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
R41  SMILES            ACDLabs               12.01  "c1(cc(ccn1)c2cc(cc3c2OC(C3)C(=O)N4CCNCC4)Cl)N"  
R41  InChI             InChI                 1.03   "InChI=1S/C18H19ClN4O2/c19-13-7-12-8-15(18(24)23-5-3-21-4-6-23)25-17(12)14(10-13)11-1-2-22-16(20)9-11/h1-2,7,9-10,15,21H,3-6,8H2,(H2,20,22)/t15-/m1/s1"  
R41  InChIKey          InChI                 1.03   JGHCITCCEQEXTL-OAHLLOKOSA-N  
R41  SMILES_CANONICAL  CACTVS                3.385  "Nc1cc(ccn1)c2cc(Cl)cc3C[C@@H](Oc23)C(=O)N4CCNCC4"  
R41  SMILES            CACTVS                3.385  "Nc1cc(ccn1)c2cc(Cl)cc3C[CH](Oc23)C(=O)N4CCNCC4"  
R41  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cnc(cc1c2cc(cc3c2O[C@H](C3)C(=O)N4CCNCC4)Cl)N"  
R41  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cnc(cc1c2cc(cc3c2OC(C3)C(=O)N4CCNCC4)Cl)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
R41  "SYSTEMATIC NAME"  ACDLabs               12.01  "[(2R)-7-(2-aminopyridin-4-yl)-5-chloro-2,3-dihydro-1-benzofuran-2-yl](piperazin-1-yl)methanone"  
R41  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[(2~{R})-7-(2-azanylpyridin-4-yl)-5-chloranyl-2,3-dihydro-1-benzofuran-2-yl]-piperazin-1-yl-methanone"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
R41  "Create component"  2020-01-29  RCSB  
R41  "Initial release"   2020-04-29  RCSB  
##
