data_406
#
_chem_comp.id 406
_chem_comp.name
;N-[3-(4,5'-BIPYRIMIDIN-2-YLAMINO)-4-METHYLPHENYL]-4-{[(3S)-3-(DIMETHYLAMINO)PYRROLIDIN-1-YL]METHYL}-3-(TRIFLUOROMETHYL)
BENZAMIDE
;
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C30 H31 F3 N8 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms INNO-406
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2006-11-13
_chem_comp.pdbx_modified_date 2020-06-17
_chem_comp.pdbx_ambiguous_flag ?
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 576.615
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 406
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code ?
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
# #
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
406 C1 C1 C 0 1 Y N N 15.655 50.546 16.618 -4.068 -4.324 -0.451 C1 406 1
406 C2 C2 C 0 1 Y N N 16.772 49.680 16.841 -3.406 -3.111 -0.266 C2 406 2
406 C3 C3 C 0 1 Y N N 16.658 48.568 17.703 -2.020 -3.089 -0.110 C3 406 3
406 C4 C4 C 0 1 Y N N 15.408 48.274 18.395 -1.304 -4.281 -0.140 C4 406 4
406 C5 C5 C 0 1 Y N N 14.247 49.167 18.171 -1.958 -5.495 -0.325 C5 406 5
406 C6 C6 C 0 1 Y N N 14.422 50.263 17.290 -3.344 -5.516 -0.480 C6 406 6
406 C7 C7 C 0 1 N N N 12.832 49.003 18.836 -1.204 -6.784 -0.359 C7 406 7
406 F8 F8 F 0 1 N N N 12.946 49.165 20.183 -2.000 -7.876 -0.548 F8 406 8
406 F9 F9 F 0 1 N N N 12.319 47.772 18.583 -0.273 -6.843 -1.355 F9 406 9
406 F10 F10 F 0 1 N N N 11.942 49.965 18.430 -0.521 -7.021 0.798 F10 406 10
406 C11 C11 C 0 1 N N N 15.420 47.020 19.323 0.187 -4.233 0.029 C11 406 11
406 N12 N12 N 0 1 N N R 16.682 46.627 20.007 0.876 -4.093 -1.244 N12 406 12
406 C13 C13 C 0 1 N N N 16.677 45.304 20.662 2.334 -4.044 -1.097 C13 406 13
406 C14 C14 C 0 1 N N N 17.182 45.567 22.085 2.831 -3.277 -2.323 C14 406 14
406 C15 C15 C 0 1 N N S 18.092 46.795 21.839 1.560 -2.840 -3.051 C15 406 15
406 C16 C16 C 0 1 N N N 17.145 47.624 21.009 0.502 -2.869 -1.956 C16 406 16
406 N17 N17 N 0 1 N N N 18.628 47.508 23.083 1.686 -1.539 -3.684 N17 406 17
406 C18 C18 C 0 1 N N N 19.541 46.725 23.942 0.442 -1.170 -4.366 C18 406 18
406 C19 C19 C 0 1 N N N 19.254 48.823 22.689 2.802 -1.528 -4.634 C19 406 19
406 N20 N20 N 0 1 Y N N 11.545 62.016 12.162 -6.783 -10.328 -1.433 N20 406 20
406 C21 C21 C 0 1 Y N N 10.626 61.380 11.413 -6.002 -9.669 -2.311 C21 406 21
406 N22 N22 N 0 1 Y N N 10.670 60.101 11.016 -6.258 -8.480 -2.888 N22 406 22
406 C23 C23 C 0 1 Y N N 11.745 59.364 11.404 -7.429 -7.913 -2.529 C23 406 23
406 C24 C24 C 0 1 Y N N 12.852 59.902 12.229 -8.314 -8.485 -1.641 C24 406 24
406 C25 C25 C 0 1 Y N N 12.629 61.315 12.563 -7.937 -9.704 -1.118 C25 406 25
406 C26 C26 C 0 1 Y N N 13.947 59.119 12.615 -9.558 -7.847 -1.280 C26 406 26
406 N27 N27 N 0 1 Y N N 13.994 57.803 12.215 -9.541 -6.498 -1.315 N27 406 27
406 C28 C28 C 0 1 Y N N 15.014 57.032 12.558 -10.703 -5.902 -0.978 C28 406 28
406 N29 N29 N 0 1 Y N N 16.061 57.422 13.272 -11.849 -6.518 -0.621 N29 406 29
406 C30 C30 C 0 1 Y N N 16.106 58.723 13.721 -11.795 -7.866 -0.608 C30 406 30
406 C31 C31 C 0 1 Y N N 15.070 59.649 13.425 -10.666 -8.591 -0.931 C31 406 31
406 N32 N32 N 0 1 N N N 14.948 55.725 12.093 -10.722 -4.495 -1.002 N32 406 32
406 C33 C33 C 0 1 Y N N 15.700 53.849 13.382 -8.396 -3.824 -1.081 C33 406 33
406 C34 C34 C 0 1 Y N N 16.638 52.771 13.625 -7.435 -2.879 -1.392 C34 406 34
406 C35 C35 C 0 1 Y N N 17.725 52.587 12.739 -7.772 -1.652 -1.934 C35 406 35
406 C36 C36 C 0 1 Y N N 17.895 53.459 11.612 -9.115 -1.359 -2.173 C36 406 36
406 C37 C37 C 0 1 Y N N 16.964 54.520 11.380 -10.099 -2.299 -1.865 C37 406 37
406 C38 C38 C 0 1 Y N N 15.875 54.697 12.275 -9.739 -3.532 -1.319 C38 406 38
406 C39 C39 C 0 1 N N N 17.237 55.392 10.156 -11.529 -1.960 -2.130 C39 406 39
406 N40 N40 N 0 1 N N N 16.533 51.861 14.735 -6.069 -3.176 -1.150 N40 406 40
406 C41 C41 C 0 1 N N N 15.660 51.753 15.737 -5.513 -4.347 -0.613 C41 406 41
406 O42 O42 O 0 1 N N N 14.855 52.655 15.971 -6.192 -5.322 -0.264 O42 406 42
406 H391 1H39 H 0 0 N N N 17.303 56.446 10.463 -12.083 -2.858 -2.427 H391 406 43
406 H392 2H39 H 0 0 N N N 18.186 55.086 9.692 -12.007 -1.532 -1.240 H392 406 44
406 H393 3H39 H 0 0 N N N 16.419 55.272 9.431 -11.617 -1.214 -2.930 H393 406 45
406 H36 H36 H 0 1 N N N 18.727 53.314 10.938 -9.385 -0.396 -2.598 H36 406 46
406 H35 H35 H 0 1 N N N 18.430 51.787 12.911 -7.014 -0.912 -2.178 H35 406 47
406 H33 H33 H 0 1 N N N 14.866 54.001 14.052 -8.116 -4.785 -0.656 H33 406 48
406 H32 H32 H 0 1 N N N 14.134 55.491 11.561 -11.616 -4.091 -0.742 H32 406 49
406 H30 H30 H 0 1 N N N 16.949 59.047 14.313 -12.715 -8.364 -0.321 H30 406 50
406 H31 H31 H 0 1 N N N 15.099 60.673 13.768 -10.666 -9.674 -0.909 H31 406 51
406 H25 H25 H 0 1 N N N 13.372 61.821 13.162 -8.563 -10.239 -0.410 H25 406 52
406 H21 H21 H 0 1 N N N 9.768 61.957 11.101 -5.068 -10.147 -2.581 H21 406 53
406 H23 H23 H 0 1 N N N 11.795 58.331 11.094 -7.629 -6.954 -2.998 H23 406 54
406 H40 H40 H 0 1 N N N 17.259 51.173 14.760 -5.407 -2.445 -1.398 H40 406 55
406 H2 H2 H 0 1 N N N 17.711 49.879 16.345 -3.960 -2.176 -0.241 H2 406 56
406 H3 H3 H 0 1 N N N 17.511 47.923 17.853 -1.513 -2.138 0.033 H3 406 57
406 H111 1H11 H 0 0 N N N 14.687 47.219 20.119 0.476 -3.388 0.664 H111 406 58
406 H112 2H11 H 0 0 N N N 15.218 46.183 18.639 0.558 -5.143 0.512 H112 406 59
406 H131 1H13 H 0 0 N N N 15.665 44.874 20.676 2.758 -5.052 -1.057 H131 406 60
406 H132 2H13 H 0 0 N N N 17.308 44.577 20.128 2.639 -3.507 -0.189 H132 406 61
406 H141 1H14 H 0 0 N N N 16.365 45.781 22.790 3.432 -2.418 -2.001 H141 406 62
406 H142 2H14 H 0 0 N N N 17.690 44.711 22.553 3.458 -3.899 -2.971 H142 406 63
406 H15 H15 H 0 1 N N N 19.056 46.547 21.370 1.313 -3.587 -3.818 H15 406 64
406 H161 1H16 H 0 0 N N N 17.646 48.484 20.540 0.572 -1.986 -1.308 H161 406 65
406 H162 2H16 H 0 0 N N N 16.332 48.086 21.588 -0.510 -2.926 -2.370 H162 406 66
406 H181 1H18 H 0 0 N N N 20.478 46.530 23.400 -0.400 -1.231 -3.671 H181 406 67
406 H182 2H18 H 0 0 N N N 19.759 47.293 24.859 0.255 -1.845 -5.205 H182 406 68
406 H183 3H18 H 0 0 N N N 19.065 45.769 24.206 0.509 -0.147 -4.748 H183 406 69
406 H191 1H19 H 0 0 N N N 19.406 49.441 23.586 3.745 -1.370 -4.104 H191 406 70
406 H192 2H19 H 0 0 N N N 20.223 48.637 22.203 2.670 -0.725 -5.364 H192 406 71
406 H193 3H19 H 0 0 N N N 18.589 49.351 21.990 2.854 -2.481 -5.168 H193 406 72
406 H6 H6 H 0 1 N N N 13.582 50.919 17.116 -3.859 -6.463 -0.624 H6 406 73
# #
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
406 C1 C41 SING N N 1
406 C1 C2 SING Y N 2
406 C1 C6 DOUB Y N 3
406 C2 C3 DOUB Y N 4
406 C2 H2 SING N N 5
406 C3 C4 SING Y N 6
406 C3 H3 SING N N 7
406 C4 C11 SING N N 8
406 C4 C5 DOUB Y N 9
406 C5 C6 SING Y N 10
406 C5 C7 SING N N 11
406 C6 H6 SING N N 12
406 C7 F8 SING N N 13
406 C7 F9 SING N N 14
406 C7 F10 SING N N 15
406 C11 N12 SING N N 16
406 C11 H111 SING N N 17
406 C11 H112 SING N N 18
406 N12 C13 SING N N 19
406 N12 C16 SING N N 20
406 C13 C14 SING N N 21
406 C13 H131 SING N N 22
406 C13 H132 SING N N 23
406 C14 C15 SING N N 24
406 C14 H141 SING N N 25
406 C14 H142 SING N N 26
406 C15 C16 SING N N 27
406 C15 N17 SING N N 28
406 C15 H15 SING N N 29
406 C16 H161 SING N N 30
406 C16 H162 SING N N 31
406 N17 C18 SING N N 32
406 N17 C19 SING N N 33
406 C18 H181 SING N N 34
406 C18 H182 SING N N 35
406 C18 H183 SING N N 36
406 C19 H191 SING N N 37
406 C19 H192 SING N N 38
406 C19 H193 SING N N 39
406 N20 C25 SING Y N 40
406 N20 C21 DOUB Y N 41
406 C21 N22 SING Y N 42
406 C21 H21 SING N N 43
406 N22 C23 DOUB Y N 44
406 C23 C24 SING Y N 45
406 C23 H23 SING N N 46
406 C24 C26 SING Y N 47
406 C24 C25 DOUB Y N 48
406 C25 H25 SING N N 49
406 C26 C31 DOUB Y N 50
406 C26 N27 SING Y N 51
406 N27 C28 DOUB Y N 52
406 C28 N32 SING N N 53
406 C28 N29 SING Y N 54
406 N29 C30 DOUB Y N 55
406 C30 C31 SING Y N 56
406 C30 H30 SING N N 57
406 C31 H31 SING N N 58
406 N32 C38 SING N N 59
406 N32 H32 SING N N 60
406 C33 C34 SING Y N 61
406 C33 C38 DOUB Y N 62
406 C33 H33 SING N N 63
406 C34 C35 DOUB Y N 64
406 C34 N40 SING N N 65
406 C35 C36 SING Y N 66
406 C35 H35 SING N N 67
406 C36 C37 DOUB Y N 68
406 C36 H36 SING N N 69
406 C37 C39 SING N N 70
406 C37 C38 SING Y N 71
406 C39 H391 SING N N 72
406 C39 H392 SING N N 73
406 C39 H393 SING N N 74
406 N40 C41 SING N N 75
406 N40 H40 SING N N 76
406 C41 O42 DOUB N N 77
# #
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
406 SMILES ACDLabs 10.04 "FC(F)(F)c4cc(C(=O)Nc3ccc(c(Nc2nc(c1cncnc1)ccn2)c3)C)ccc4CN5CCC(N(C)C)C5"
406 SMILES_CANONICAL CACTVS 3.341 "CN(C)[C@H]1CCN(C1)Cc2ccc(cc2C(F)(F)F)C(=O)Nc3ccc(C)c(Nc4nccc(n4)c5cncnc5)c3"
406 SMILES CACTVS 3.341 "CN(C)[CH]1CCN(C1)Cc2ccc(cc2C(F)(F)F)C(=O)Nc3ccc(C)c(Nc4nccc(n4)c5cncnc5)c3"
406 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1ccc(cc1Nc2nccc(n2)c3cncnc3)NC(=O)c4ccc(c(c4)C(F)(F)F)C[N@@]5CC[C@@H](C5)N(C)C"
406 SMILES "OpenEye OEToolkits" 1.5.0 "Cc1ccc(cc1Nc2nccc(n2)c3cncnc3)NC(=O)c4ccc(c(c4)C(F)(F)F)CN5CCC(C5)N(C)C"
406 InChI InChI 1.03 "InChI=1S/C30H31F3N8O/c1-19-4-7-23(13-27(19)39-29-36-10-8-26(38-29)22-14-34-18-35-15-22)37-28(42)20-5-6-21(25(12-20)30(31,32)33)16-41-11-9-24(17-41)40(2)3/h4-8,10,12-15,18,24H,9,11,16-17H2,1-3H3,(H,37,42)(H,36,38,39)/t24-/m0/s1"
406 InChIKey InChI 1.03 ZGBAJMQHJDFTQJ-DEOSSOPVSA-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
406 "SYSTEMATIC NAME" ACDLabs 10.04 "N-[3-(4,5'-bipyrimidin-2-ylamino)-4-methylphenyl]-4-{[(3S)-3-(dimethylamino)pyrrolidin-1-yl]methyl}-3-(trifluoromethyl)benzamide"
406 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "4-[[(1S,3S)-3-dimethylaminopyrrolidin-1-yl]methyl]-N-[4-methyl-3-[(4-pyrimidin-5-ylpyrimidin-2-yl)amino]phenyl]-3-(trifluoromethyl)benzamide"
# #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
406 "Create component" 2006-11-13 PDBJ
406 "Modify aromatic_flag" 2011-06-04 RCSB
406 "Modify descriptor" 2011-06-04 RCSB
406 "Modify synonyms" 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id 406
_pdbx_chem_comp_synonyms.name INNO-406
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
##