data_V5D
#

_chem_comp.id                                   V5D
_chem_comp.name                                 "7-{[3-({[4-(6-aminopyridin-2-yl)butyl]amino}methyl)phenoxy]methyl}quinolin-2-amine"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C26 H29 N5 O"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2020-06-26
_chem_comp.pdbx_modified_date                   2021-06-25
_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                       427.541
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    V5D
_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       6XK4
_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
V5D  C02  C1   C  0  1  Y  N  N  82.692  112.837  88.646   9.876   0.812  -0.398  C02  V5D   1  
V5D  C03  C2   C  0  1  Y  N  N  82.352  113.981  87.913  10.285   2.125  -0.606  C03  V5D   2  
V5D  C04  C3   C  0  1  Y  N  N  82.745  114.106  86.584   9.420   3.157  -0.290  C04  V5D   3  
V5D  C05  C4   C  0  1  Y  N  N  83.483  113.069  86.017   8.170   2.840   0.225  C05  V5D   4  
V5D  C06  C5   C  0  1  Y  N  N  83.813  111.941  86.793   7.830   1.514   0.406  C06  V5D   5  
V5D  C07  C6   C  0  1  N  N  N  84.611  110.795  86.188   6.475   1.163   0.964  C07  V5D   6  
V5D  C08  C7   C  0  1  N  N  N  85.935  111.208  85.448   5.762   0.204   0.009  C08  V5D   7  
V5D  C09  C8   C  0  1  N  N  N  87.081  110.172  85.707   4.386  -0.152   0.576  C09  V5D   8  
V5D  C10  C9   C  0  1  N  N  N  88.059  110.044  84.498   3.673  -1.111  -0.380  C10  V5D   9  
V5D  C12  C10  C  0  1  N  N  N  89.744  108.616  83.732   1.637  -2.374  -0.729  C12  V5D  10  
V5D  C13  C11  C  0  1  Y  N  N  90.116  107.152  83.484   0.290  -2.701  -0.139  C13  V5D  11  
V5D  C14  C12  C  0  1  Y  N  N  90.507  106.727  82.187   0.153  -3.781   0.714  C14  V5D  12  
V5D  C15  C13  C  0  1  Y  N  N  90.844  105.382  81.965  -1.082  -4.084   1.258  C15  V5D  13  
V5D  C16  C14  C  0  1  Y  N  N  90.795  104.449  83.039  -2.182  -3.308   0.948  C16  V5D  14  
V5D  C17  C15  C  0  1  Y  N  N  90.404  104.874  84.334  -2.048  -2.225   0.093  C17  V5D  15  
V5D  C19  C16  C  0  1  N  N  N  89.174  103.909  86.192  -4.374  -1.830   0.384  C19  V5D  16  
V5D  C20  C17  C  0  1  Y  N  N  88.177  102.877  85.581  -5.450  -0.876  -0.067  C20  V5D  17  
V5D  C21  C18  C  0  1  Y  N  N  86.808  103.092  85.694  -6.179  -1.160  -1.219  C21  V5D  18  
V5D  C22  C19  C  0  1  Y  N  N  85.898  102.159  85.141  -7.158  -0.317  -1.652  C22  V5D  19  
V5D  C23  C20  C  0  1  Y  N  N  86.390  100.993  84.467  -7.436   0.853  -0.929  C23  V5D  20  
V5D  C24  C21  C  0  1  Y  N  N  85.470  100.048  83.907  -8.441   1.750  -1.346  C24  V5D  21  
V5D  C25  C22  C  0  1  Y  N  N  85.972   98.929  83.262  -8.660   2.868  -0.598  C25  V5D  22  
V5D  C26  C23  C  0  1  Y  N  N  87.362   98.752  83.175  -7.893   3.099   0.553  C26  V5D  23  
V5D  C29  C24  C  0  1  Y  N  N  87.732  100.786  84.361  -6.696   1.144   0.243  C29  V5D  24  
V5D  C30  C25  C  0  1  Y  N  N  88.655  101.731  84.921  -5.697   0.248   0.661  C30  V5D  25  
V5D  C31  C26  C  0  1  Y  N  N  90.067  106.214  84.556  -0.806  -1.919  -0.446  C31  V5D  26  
V5D  N01  N1   N  0  1  N  N  N  82.290  112.700  90.010  10.736  -0.235  -0.711  N01  V5D  27  
V5D  N11  N2   N  0  1  N  N  N  88.493  108.677  84.370   2.352  -1.453   0.164  N11  V5D  28  
V5D  N27  N3   N  0  1  N  N  N  87.883   97.623  82.523  -8.128   4.241   1.304  N27  V5D  29  
V5D  N28  N4   N  0  1  Y  N  N  88.199   99.663  83.714  -6.956   2.257   0.938  N28  V5D  30  
V5D  N32  N5   N  0  1  Y  N  N  83.412  111.847  88.061   8.678   0.550   0.101  N32  V5D  31  
V5D  O18  O1   O  0  1  N  N  N  90.361  103.911  85.425  -3.129  -1.460  -0.212  O18  V5D  32  
V5D  H1   H1   H  0  1  N  N  N  81.782  114.770  88.381  11.265   2.336  -1.009  H1   V5D  33  
V5D  H2   H2   H  0  1  N  N  N  82.485  114.982  86.008   9.710   4.186  -0.440  H2   V5D  34  
V5D  H3   H3   H  0  1  N  N  N  83.801  113.130  84.987   7.471   3.622   0.482  H3   V5D  35  
V5D  H4   H4   H  0  1  N  N  N  83.965  110.278  85.463   6.595   0.684   1.936  H4   V5D  36  
V5D  H5   H5   H  0  1  N  N  N  84.879  110.103  87.000   5.882   2.071   1.077  H5   V5D  37  
V5D  H6   H6   H  0  1  N  N  N  86.256  112.195  85.812   5.642   0.683  -0.963  H6   V5D  38  
V5D  H7   H7   H  0  1  N  N  N  85.739  111.262  84.367   6.354  -0.704  -0.104  H7   V5D  39  
V5D  H8   H8   H  0  1  N  N  N  86.629  109.188  85.900   4.507  -0.631   1.548  H8   V5D  40  
V5D  H9   H9   H  0  1  N  N  N  87.653  110.493  86.590   3.794   0.756   0.689  H9   V5D  41  
V5D  H10  H10  H  0  1  N  N  N  88.933  110.691  84.664   3.553  -0.632  -1.352  H10  V5D  42  
V5D  H11  H11  H  0  1  N  N  N  87.544  110.352  83.576   4.266  -2.019  -0.493  H11  V5D  43  
V5D  H12  H12  H  0  1  N  N  N  90.506  109.085  84.372   2.216  -3.290  -0.844  H12  V5D  44  
V5D  H13  H13  H  0  1  N  N  N  89.693  109.150  82.771   1.503  -1.904  -1.703  H13  V5D  45  
V5D  H14  H14  H  0  1  N  N  N  90.545  107.436  81.373   1.012  -4.389   0.957  H14  V5D  46  
V5D  H15  H15  H  0  1  N  N  N  91.140  105.055  80.979  -1.186  -4.927   1.923  H15  V5D  47  
V5D  H16  H16  H  0  1  N  N  N  91.056  103.415  82.867  -3.147  -3.546   1.372  H16  V5D  48  
V5D  H17  H17  H  0  1  N  N  N  89.406  103.628  87.230  -4.284  -1.789   1.469  H17  V5D  49  
V5D  H18  H18  H  0  1  N  N  N  88.723  104.912  86.176  -4.636  -2.843   0.079  H18  V5D  50  
V5D  H19  H19  H  0  1  N  N  N  86.439  103.970  86.203  -5.966  -2.059  -1.777  H19  V5D  51  
V5D  H20  H20  H  0  1  N  N  N  84.834  102.325  85.227  -7.716  -0.547  -2.548  H20  V5D  52  
V5D  H21  H21  H  0  1  N  N  N  84.404  100.205  83.986  -9.022   1.556  -2.235  H21  V5D  53  
V5D  H22  H22  H  0  1  N  N  N  85.301   98.201  82.831  -9.422   3.574  -0.891  H22  V5D  54  
V5D  H23  H23  H  0  1  N  N  N  89.718  101.562  84.836  -5.123   0.453   1.552  H23  V5D  55  
V5D  H24  H24  H  0  1  N  N  N  89.769  106.538  85.542  -0.698  -1.073  -1.109  H24  V5D  56  
V5D  H25  H25  H  0  1  N  N  N  82.621  111.827  90.369  11.616  -0.048  -1.073  H25  V5D  57  
V5D  H26  H26  H  0  1  N  N  N  82.676  113.450  90.548  10.455  -1.152  -0.568  H26  V5D  58  
V5D  H27  H27  H  0  1  N  N  N  87.823  108.168  83.830   1.807  -0.622   0.339  H27  V5D  59  
V5D  H29  H29  H  0  1  N  N  N  88.882   97.653  82.551  -8.815   4.869   1.031  H29  V5D  60  
V5D  H30  H30  H  0  1  N  N  N  87.562   96.795  82.982  -7.604   4.413   2.103  H30  V5D  61  
#   #
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
V5D  C15  C14  DOUB  Y  N   1  
V5D  C15  C16  SING  Y  N   2  
V5D  C14  C13  SING  Y  N   3  
V5D  N27  C26  SING  N  N   4  
V5D  C16  C17  DOUB  Y  N   5  
V5D  C26  C25  DOUB  Y  N   6  
V5D  C26  N28  SING  Y  N   7  
V5D  C25  C24  SING  Y  N   8  
V5D  C13  C12  SING  N  N   9  
V5D  C13  C31  DOUB  Y  N  10  
V5D  N28  C29  DOUB  Y  N  11  
V5D  C12  N11  SING  N  N  12  
V5D  C24  C23  DOUB  Y  N  13  
V5D  C17  C31  SING  Y  N  14  
V5D  C17  O18  SING  N  N  15  
V5D  C29  C23  SING  Y  N  16  
V5D  C29  C30  SING  Y  N  17  
V5D  N11  C10  SING  N  N  18  
V5D  C23  C22  SING  Y  N  19  
V5D  C10  C09  SING  N  N  20  
V5D  C30  C20  DOUB  Y  N  21  
V5D  C22  C21  DOUB  Y  N  22  
V5D  O18  C19  SING  N  N  23  
V5D  C08  C09  SING  N  N  24  
V5D  C08  C07  SING  N  N  25  
V5D  C20  C21  SING  Y  N  26  
V5D  C20  C19  SING  N  N  27  
V5D  C05  C04  DOUB  Y  N  28  
V5D  C05  C06  SING  Y  N  29  
V5D  C07  C06  SING  N  N  30  
V5D  C04  C03  SING  Y  N  31  
V5D  C06  N32  DOUB  Y  N  32  
V5D  C03  C02  DOUB  Y  N  33  
V5D  N32  C02  SING  Y  N  34  
V5D  C02  N01  SING  N  N  35  
V5D  C03  H1   SING  N  N  36  
V5D  C04  H2   SING  N  N  37  
V5D  C05  H3   SING  N  N  38  
V5D  C07  H4   SING  N  N  39  
V5D  C07  H5   SING  N  N  40  
V5D  C08  H6   SING  N  N  41  
V5D  C08  H7   SING  N  N  42  
V5D  C09  H8   SING  N  N  43  
V5D  C09  H9   SING  N  N  44  
V5D  C10  H10  SING  N  N  45  
V5D  C10  H11  SING  N  N  46  
V5D  C12  H12  SING  N  N  47  
V5D  C12  H13  SING  N  N  48  
V5D  C14  H14  SING  N  N  49  
V5D  C15  H15  SING  N  N  50  
V5D  C16  H16  SING  N  N  51  
V5D  C19  H17  SING  N  N  52  
V5D  C19  H18  SING  N  N  53  
V5D  C21  H19  SING  N  N  54  
V5D  C22  H20  SING  N  N  55  
V5D  C24  H21  SING  N  N  56  
V5D  C25  H22  SING  N  N  57  
V5D  C30  H23  SING  N  N  58  
V5D  C31  H24  SING  N  N  59  
V5D  N01  H25  SING  N  N  60  
V5D  N01  H26  SING  N  N  61  
V5D  N11  H27  SING  N  N  62  
V5D  N27  H29  SING  N  N  63  
V5D  N27  H30  SING  N  N  64  
#   #
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
V5D  SMILES            ACDLabs               12.01  "c1(N)cccc(n1)CCCCNCc2cc(ccc2)OCc4ccc3ccc(nc3c4)N"  
V5D  InChI             InChI                 1.03   "InChI=1S/C26H29N5O/c27-25-9-4-7-22(30-25)6-1-2-14-29-17-19-5-3-8-23(15-19)32-18-20-10-11-21-12-13-26(28)31-24(21)16-20/h3-5,7-13,15-16,29H,1-2,6,14,17-18H2,(H2,27,30)(H2,28,31)"  
V5D  InChIKey          InChI                 1.03   QYKBESYQSCLLGR-UHFFFAOYSA-N  
V5D  SMILES_CANONICAL  CACTVS                3.385  "Nc1cccc(CCCCNCc2cccc(OCc3ccc4ccc(N)nc4c3)c2)n1"  
V5D  SMILES            CACTVS                3.385  "Nc1cccc(CCCCNCc2cccc(OCc3ccc4ccc(N)nc4c3)c2)n1"  
V5D  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "c1cc(cc(c1)OCc2ccc3ccc(nc3c2)N)CNCCCCc4cccc(n4)N"  
V5D  SMILES            "OpenEye OEToolkits"  2.0.7  "c1cc(cc(c1)OCc2ccc3ccc(nc3c2)N)CNCCCCc4cccc(n4)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
V5D  "SYSTEMATIC NAME"  ACDLabs               12.01  "7-{[3-({[4-(6-aminopyridin-2-yl)butyl]amino}methyl)phenoxy]methyl}quinolin-2-amine"  
V5D  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "7-[[3-[[4-(6-azanylpyridin-2-yl)butylamino]methyl]phenoxy]methyl]quinolin-2-amine"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
V5D  "Create component"  2020-06-26  RCSB  
V5D  "Initial release"   2021-06-30  RCSB  
##
