data_XKN
#
_chem_comp.id XKN
_chem_comp.name
'3-ethynyl-5-{[(3R)-4-{1-[(2-methoxyphenyl)methyl]-1H-benzimidazole-5-carbonyl}-3-methylpiperazin-1-yl]methyl}benzene-1-sulfonyl fluoride'
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C30 H29 F N4 O4 S'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-11-23
_chem_comp.pdbx_modified_date 2024-09-27
_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 560.639
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code XKN
_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 8F93
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_chem_comp.pdbx_pcm Y
#
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.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_atom_flag
_chem_comp_atom.pdbx_c_terminal_atom_flag
_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
XKN C1 C1 C 0 1 N N N N N N 32.144 7.753 26.855 -4.074 3.256 -3.870 C1 XKN 1
XKN C10 C2 C 0 1 N N R N N N 25.753 3.650 25.530 -1.456 -3.414 1.122 C10 XKN 2
XKN C11 C3 C 0 1 N N N N N N 26.506 4.762 24.827 -0.932 -4.843 1.280 C11 XKN 3
XKN C12 C4 C 0 1 N N N N N N 24.067 2.315 24.473 0.876 -2.995 0.490 C12 XKN 4
XKN C13 C5 C 0 1 Y N N N N N 23.557 1.318 23.471 1.954 -2.071 0.085 C13 XKN 5
XKN C14 C6 C 0 1 Y N N N N N 23.028 0.096 23.886 3.079 -2.562 -0.571 C14 XKN 6
XKN C15 C7 C 0 1 Y N N N N N 22.481 -0.762 22.934 4.091 -1.682 -0.951 C15 XKN 7
XKN C16 C8 C 0 1 Y N N N N N 21.548 -2.358 21.867 5.870 -0.690 -1.706 C16 XKN 8
XKN C17 C9 C 0 1 N N N N N N 21.476 -1.500 19.483 5.426 1.716 -1.093 C17 XKN 9
XKN C18 C10 C 0 1 Y N N N N N 22.574 -1.973 18.559 6.071 2.027 0.233 C18 XKN 10
XKN C19 C11 C 0 1 Y N N N N N 22.836 -3.340 18.465 7.437 1.845 0.401 C19 XKN 11
XKN C2 C12 C 0 1 N N N N N N 31.504 6.819 27.182 -4.423 2.519 -3.025 C2 XKN 12
XKN C20 C13 C 0 1 N N N N N N 22.143 -5.524 19.108 9.592 1.223 -0.385 C20 XKN 13
XKN C21 C14 C 0 1 Y N N N N N 23.836 -3.818 17.635 8.027 2.133 1.623 C21 XKN 14
XKN C22 C15 C 0 1 Y N N N N N 24.575 -2.933 16.878 7.255 2.600 2.669 C22 XKN 15
XKN C23 C16 C 0 1 Y N N N N N 24.318 -1.584 16.937 5.895 2.780 2.499 C23 XKN 16
XKN C24 C17 C 0 1 Y N N N N N 23.316 -1.104 17.763 5.305 2.499 1.280 C24 XKN 17
XKN C25 C18 C 0 1 Y N N N N N 22.418 -0.371 21.594 3.961 -0.311 -0.665 C25 XKN 18
XKN C26 C19 C 0 1 Y N N N N N 22.902 0.859 21.161 2.831 0.162 -0.008 C26 XKN 19
XKN C27 C20 C 0 1 Y N N N N N 23.451 1.690 22.123 1.839 -0.701 0.356 C27 XKN 20
XKN C28 C21 C 0 1 N N N N N N 26.498 1.884 24.001 -0.747 -1.183 0.177 C28 XKN 21
XKN C29 C22 C 0 1 N N N N N N 27.247 1.218 25.136 -1.947 -1.259 -0.772 C29 XKN 22
XKN C3 C23 C 0 1 Y N N N N N 30.741 5.669 27.574 -4.847 1.620 -1.994 C3 XKN 23
XKN C30 C24 C 0 1 Y N N N N N 30.187 4.855 26.591 -4.365 0.311 -1.963 C30 XKN 24
XKN C4 C25 C 0 1 Y N N N N N 30.558 5.331 28.911 -5.741 2.051 -1.013 C4 XKN 25
XKN C5 C26 C 0 1 Y N N N N N 29.820 4.206 29.246 -6.147 1.180 -0.023 C5 XKN 26
XKN C6 C27 C 0 1 Y N N N N N 29.269 3.412 28.249 -5.669 -0.118 -0.001 C6 XKN 27
XKN C7 C28 C 0 1 Y N N N N N 29.445 3.734 26.911 -4.778 -0.550 -0.967 C7 XKN 28
XKN C8 C29 C 0 1 N N N N N N 28.849 2.912 25.795 -4.258 -1.964 -0.932 C8 XKN 29
XKN C9 C30 C 0 1 N N N N N N 26.550 3.016 26.646 -2.629 -3.402 0.135 C9 XKN 30
XKN N1 N1 N 0 1 N N N N N N 27.656 2.159 26.190 -3.030 -2.014 -0.127 N1 XKN 31
XKN N2 N2 N 0 1 N N N N N N 25.367 2.579 24.597 -0.391 -2.549 0.592 N2 XKN 32
XKN N3 N3 N 0 1 Y N N N N N 21.920 -2.026 23.079 5.281 -1.843 -1.587 N3 XKN 33
XKN N4 N4 N 0 1 Y N N N N N 21.816 -1.422 20.914 5.102 0.288 -1.155 N4 XKN 34
XKN O1 O1 O 0 1 N N N N N N 30.407 4.712 31.699 -6.848 3.021 1.607 O1 XKN 35
XKN O2 O2 O 0 1 N N N N N N 29.991 2.448 31.097 -8.578 1.449 0.721 O2 XKN 36
XKN O3 O3 O 0 1 N N N N N N 22.058 -4.111 19.274 8.194 1.386 -0.630 O3 XKN 37
XKN O4 O4 O 0 1 N N N N N N 23.245 2.938 25.148 1.132 -4.159 0.732 O4 XKN 38
XKN S1 S1 S 0 1 N N N N N N 29.553 3.817 30.947 -7.275 1.723 1.217 S1 XKN 39
XKN F1 F1 F 0 1 N Y N N N N 28.015 4.115 31.250 -7.067 0.772 2.500 F1 XKN 40
XKN H1 H1 H 0 1 N N N N N N 32.720 8.593 26.561 -3.763 3.914 -4.626 H1 XKN 41
XKN H2 H2 H 0 1 N N N N N N 24.839 4.081 25.966 -1.788 -3.037 2.089 H2 XKN 42
XKN H3 H3 H 0 1 N N N N N N 26.776 5.540 25.556 -0.512 -5.183 0.333 H3 XKN 43
XKN H4 H4 H 0 1 N N N N N N 27.420 4.354 24.371 -0.159 -4.863 2.048 H4 XKN 44
XKN H5 H5 H 0 1 N N N N N N 25.869 5.198 24.044 -1.751 -5.501 1.571 H5 XKN 45
XKN H6 H6 H 0 1 N N N N N N 23.042 -0.181 24.930 3.167 -3.617 -0.785 H6 XKN 46
XKN H7 H7 H 0 1 N N N N N N 21.067 -3.299 21.642 6.831 -0.532 -2.173 H7 XKN 47
XKN H8 H8 H 0 1 N N N N N N 21.172 -0.495 19.155 4.513 2.301 -1.200 H8 XKN 48
XKN H9 H9 H 0 1 N N N N N N 20.628 -2.192 19.377 6.115 1.967 -1.900 H9 XKN 49
XKN H10 H10 H 0 1 N N N N N N 21.467 -6.019 19.820 10.027 2.183 -0.108 H10 XKN 50
XKN H11 H11 H 0 1 N N N N N N 21.852 -5.791 18.081 9.738 0.510 0.427 H11 XKN 51
XKN H12 H12 H 0 1 N N N N N N 23.176 -5.853 19.294 10.078 0.851 -1.287 H12 XKN 52
XKN H13 H13 H 0 1 N N N N N N 24.036 -4.878 17.581 9.089 1.992 1.756 H13 XKN 53
XKN H14 H14 H 0 1 N N N N N N 25.360 -3.302 16.235 7.713 2.820 3.622 H14 XKN 54
XKN H15 H15 H 0 1 N N N N N N 24.898 -0.898 16.338 5.293 3.145 3.318 H15 XKN 55
XKN H16 H16 H 0 1 N N N N N N 23.108 -0.045 17.790 4.242 2.641 1.150 H16 XKN 56
XKN H17 H17 H 0 1 N N N N N N 22.852 1.152 20.123 2.735 1.215 0.209 H17 XKN 57
XKN H18 H18 H 0 1 N N N N N N 23.812 2.663 21.823 0.963 -0.328 0.866 H18 XKN 58
XKN H19 H19 H 0 1 N N N N N N 26.144 1.128 23.285 0.099 -0.725 -0.337 H19 XKN 59
XKN H20 H20 H 0 1 N N N N N N 27.153 2.600 23.483 -1.010 -0.591 1.054 H20 XKN 60
XKN H21 H21 H 0 1 N N N N N N 26.596 0.453 25.584 -2.293 -0.252 -1.002 H21 XKN 61
XKN H22 H22 H 0 1 N N N N N N 28.148 0.738 24.726 -1.651 -1.762 -1.693 H22 XKN 62
XKN H23 H23 H 0 1 N N N N N N 30.341 5.106 25.552 -3.670 -0.027 -2.717 H23 XKN 63
XKN H24 H24 H 0 1 N N N N N N 30.990 5.944 29.688 -6.114 3.065 -1.029 H24 XKN 64
XKN H25 H25 H 0 1 N N N N N N 28.698 2.536 28.518 -5.990 -0.796 0.776 H25 XKN 65
XKN H26 H26 H 0 1 N N N N N N 29.610 2.199 25.445 -5.010 -2.616 -0.489 H26 XKN 66
XKN H27 H27 H 0 1 N N N N N N 28.575 3.589 24.973 -4.041 -2.296 -1.947 H27 XKN 67
XKN H28 H28 H 0 1 N N N N N N 26.971 3.820 27.268 -2.323 -3.875 -0.799 H28 XKN 68
XKN H29 H29 H 0 1 N N N N N N 25.867 2.403 27.252 -3.469 -3.950 0.562 H29 XKN 69
#
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
XKN C22 C23 DOUB Y N 1
XKN C22 C21 SING Y N 2
XKN C23 C24 SING Y N 3
XKN C21 C19 DOUB Y N 4
XKN C24 C18 DOUB Y N 5
XKN C19 C18 SING Y N 6
XKN C19 O3 SING N N 7
XKN C18 C17 SING N N 8
XKN C20 O3 SING N N 9
XKN C17 N4 SING N N 10
XKN N4 C25 SING Y N 11
XKN N4 C16 SING Y N 12
XKN C26 C25 DOUB Y N 13
XKN C26 C27 SING Y N 14
XKN C25 C15 SING Y N 15
XKN C16 N3 DOUB Y N 16
XKN C27 C13 DOUB Y N 17
XKN C15 N3 SING Y N 18
XKN C15 C14 DOUB Y N 19
XKN C13 C14 SING Y N 20
XKN C13 C12 SING N N 21
XKN C28 N2 SING N N 22
XKN C28 C29 SING N N 23
XKN C12 N2 SING N N 24
XKN C12 O4 DOUB N N 25
XKN N2 C10 SING N N 26
XKN C11 C10 SING N N 27
XKN C29 N1 SING N N 28
XKN C10 C9 SING N N 29
XKN C8 N1 SING N N 30
XKN C8 C7 SING N N 31
XKN N1 C9 SING N N 32
XKN C30 C7 DOUB Y N 33
XKN C30 C3 SING Y N 34
XKN C1 C2 TRIP N N 35
XKN C7 C6 SING Y N 36
XKN C2 C3 SING N N 37
XKN C3 C4 DOUB Y N 38
XKN C6 C5 DOUB Y N 39
XKN C4 C5 SING Y N 40
XKN C5 S1 SING N N 41
XKN S1 O2 DOUB N N 42
XKN S1 O1 DOUB N N 43
XKN S1 F1 SING N N 44
XKN C1 H1 SING N N 45
XKN C10 H2 SING N N 46
XKN C11 H3 SING N N 47
XKN C11 H4 SING N N 48
XKN C11 H5 SING N N 49
XKN C14 H6 SING N N 50
XKN C16 H7 SING N N 51
XKN C17 H8 SING N N 52
XKN C17 H9 SING N N 53
XKN C20 H10 SING N N 54
XKN C20 H11 SING N N 55
XKN C20 H12 SING N N 56
XKN C21 H13 SING N N 57
XKN C22 H14 SING N N 58
XKN C23 H15 SING N N 59
XKN C24 H16 SING N N 60
XKN C26 H17 SING N N 61
XKN C27 H18 SING N N 62
XKN C28 H19 SING N N 63
XKN C28 H20 SING N N 64
XKN C29 H21 SING N N 65
XKN C29 H22 SING N N 66
XKN C30 H23 SING N N 67
XKN C4 H24 SING N N 68
XKN C6 H25 SING N N 69
XKN C8 H26 SING N N 70
XKN C8 H27 SING N N 71
XKN C9 H28 SING N N 72
XKN C9 H29 SING N N 73
#
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
XKN SMILES ACDLabs 12.01 'COc1ccccc1Cn1cnc2cc(ccc12)C(=O)N1CCN(Cc2cc(cc(C#C)c2)S(F)(=O)=O)CC1C'
XKN InChI InChI 1.06 'InChI=1S/C30H29FN4O4S/c1-4-22-13-23(15-26(14-22)40(31,37)38)18-33-11-12-35(21(2)17-33)30(36)24-9-10-28-27(16-24)32-20-34(28)19-25-7-5-6-8-29(25)39-3/h1,5-10,13-16,20-21H,11-12,17-19H2,2-3H3/t21-/m1/s1'
XKN InChIKey InChI 1.06 ADWDKRWBNOJKEH-OAQYLSRUSA-N
XKN SMILES_CANONICAL CACTVS 3.385 'COc1ccccc1Cn2cnc3cc(ccc23)C(=O)N4CCN(C[C@H]4C)Cc5cc(cc(c5)[S](F)(=O)=O)C#C'
XKN SMILES CACTVS 3.385 'COc1ccccc1Cn2cnc3cc(ccc23)C(=O)N4CCN(C[CH]4C)Cc5cc(cc(c5)[S](F)(=O)=O)C#C'
XKN SMILES_CANONICAL 'OpenEye OEToolkits' 2.0.7 'C[C@@H]1CN(CCN1C(=O)c2ccc3c(c2)ncn3Cc4ccccc4OC)Cc5cc(cc(c5)S(=O)(=O)F)C#C'
XKN SMILES 'OpenEye OEToolkits' 2.0.7 'CC1CN(CCN1C(=O)c2ccc3c(c2)ncn3Cc4ccccc4OC)Cc5cc(cc(c5)S(=O)(=O)F)C#C'
#
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
XKN 'SYSTEMATIC NAME' ACDLabs 12.01 '3-ethynyl-5-{[(3R)-4-{1-[(2-methoxyphenyl)methyl]-1H-benzimidazole-5-carbonyl}-3-methylpiperazin-1-yl]methyl}benzene-1-sulfonyl fluoride'
XKN 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 2.0.7 '3-ethynyl-5-[[(3~{R})-4-[1-[(2-methoxyphenyl)methyl]benzimidazol-5-yl]carbonyl-3-methyl-piperazin-1-yl]methyl]benzenesulfonyl fluoride'
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
XKN 'Create component' 2022-11-23 RCSB
XKN 'Initial release' 2023-05-31 RCSB
XKN 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id XKN
_pdbx_chem_comp_pcm.modified_residue_id TYR
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Covalent chemical modification'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain'
_pdbx_chem_comp_pcm.polypeptide_position 'Any position'
_pdbx_chem_comp_pcm.comp_id_linking_atom S1
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom OH
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ?
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ?
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
XKN C1 C 3.805 2.161 1
XKN C10 C 14.198 0.661 2
XKN C11 C 15.497 1.411 3
XKN C12 C 15.497 -1.589 4
XKN C13 C 16.796 -0.839 5
XKN C14 C 18.095 -1.589 6
XKN C15 C 19.394 -0.839 7
XKN C16 C 21.689 -0.089 8
XKN C17 C 21.279 2.544 9
XKN C18 C 22.747 2.854 10
XKN C19 C 23.749 1.737 11
XKN C2 C 5.104 1.411 12
XKN C20 C 24.285 -0.805 13
XKN C21 C 25.216 2.046 14
XKN C22 C 25.682 3.472 15
XKN C23 C 24.681 4.589 16
XKN C24 C 23.213 4.279 17
XKN C25 C 19.394 0.661 18
XKN C26 C 18.095 1.411 19
XKN C27 C 16.796 0.661 20
XKN C28 C 12.899 -1.589 21
XKN C29 C 11.600 -0.839 22
XKN C3 C 6.404 0.661 23
XKN C30 C 7.702 1.411 24
XKN C4 C 6.404 -0.839 25
XKN C5 C 7.702 -1.589 26
XKN C6 C 9.002 -0.839 27
XKN C7 C 9.002 0.661 28
XKN C8 C 10.301 1.411 29
XKN C9 C 12.899 1.411 30
XKN N1 N 11.600 0.661 31
XKN N2 N 14.198 -0.839 32
XKN N3 N 20.813 -1.296 33
XKN N4 N 20.813 1.118 34
XKN O1 O 6.202 -3.089 35
XKN O2 O 7.702 -4.589 36
XKN O3 O 23.283 0.311 37
XKN O4 O 15.497 -3.089 38
XKN S1 S 7.702 -3.089 39
XKN F1 F 9.203 -3.089 40
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
XKN C22 C23 DOUBLE NONE 1
XKN C22 C21 SINGLE NONE 2
XKN C23 C24 SINGLE NONE 3
XKN C21 C19 DOUBLE NONE 4
XKN C24 C18 DOUBLE NONE 5
XKN C19 C18 SINGLE NONE 6
XKN C19 O3 SINGLE NONE 7
XKN C18 C17 SINGLE NONE 8
XKN C20 O3 SINGLE NONE 9
XKN C17 N4 SINGLE NONE 10
XKN N4 C25 SINGLE NONE 11
XKN N4 C16 SINGLE NONE 12
XKN C26 C25 DOUBLE NONE 13
XKN C26 C27 SINGLE NONE 14
XKN C25 C15 SINGLE NONE 15
XKN C16 N3 DOUBLE NONE 16
XKN C27 C13 DOUBLE NONE 17
XKN C15 N3 SINGLE NONE 18
XKN C15 C14 DOUBLE NONE 19
XKN C13 C14 SINGLE NONE 20
XKN C13 C12 SINGLE NONE 21
XKN C28 N2 SINGLE NONE 22
XKN C28 C29 SINGLE NONE 23
XKN C12 N2 SINGLE NONE 24
XKN C12 O4 DOUBLE NONE 25
XKN N2 C10 SINGLE NONE 26
XKN C10 C11 SINGLE BEGINWEDGE 27
XKN C29 N1 SINGLE NONE 28
XKN C10 C9 SINGLE NONE 29
XKN C8 N1 SINGLE NONE 30
XKN C8 C7 SINGLE NONE 31
XKN N1 C9 SINGLE NONE 32
XKN C30 C7 SINGLE NONE 33
XKN C30 C3 DOUBLE NONE 34
XKN C1 C2 TRIPLE NONE 35
XKN C7 C6 DOUBLE NONE 36
XKN C2 C3 SINGLE NONE 37
XKN C3 C4 SINGLE NONE 38
XKN C6 C5 SINGLE NONE 39
XKN C4 C5 DOUBLE NONE 40
XKN C5 S1 SINGLE NONE 41
XKN S1 O2 DOUBLE NONE 42
XKN S1 O1 DOUBLE NONE 43
XKN S1 F1 SINGLE NONE 44
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
XKN MurckoScaffold S1 scaffold O=C(c1ccc2c(c1)ncn2Cc1ccccc1)N1CCN(Cc2ccccc2)CC1 InChI=1S/C26H26N4O/c31-26(29-15-13-28(14-16-29)18-21-7-3-1-4-8-21)23-11-12-25-24(17-23)27-20-30(25)19-22-9-5-2-6-10-22/h1-12,17,20H,13-16,18-19H2 QPACIRJHKQVGPO-UHFFFAOYSA-N
XKN amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
XKN benzimidazole F2 fragment 'c1ccc2[nH]cnc2c1' InChI=1S/C7H6N2/c1-2-4-7-6(3-1)8-5-9-7/h1-5H,(H,8,9) HYZJCKYKOHLVJF-UHFFFAOYSA-N
XKN imidazole F3 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
XKN phenyl F4 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
XKN piperazine F5 fragment C1CNCCN1 InChI=1S/C4H10N2/c1-2-6-4-3-5-1/h5-6H,1-4H2 GLUUGHFHXGJENI-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
XKN C10 S1 1
XKN C12 S1 1
XKN C13 S1 1
XKN C14 S1 1
XKN C15 S1 1
XKN C16 S1 1
XKN C17 S1 1
XKN C18 S1 1
XKN C19 S1 1
XKN C21 S1 1
XKN C22 S1 1
XKN C23 S1 1
XKN C24 S1 1
XKN C25 S1 1
XKN C26 S1 1
XKN C27 S1 1
XKN C28 S1 1
XKN C29 S1 1
XKN C3 S1 1
XKN C30 S1 1
XKN C4 S1 1
XKN C5 S1 1
XKN C6 S1 1
XKN C7 S1 1
XKN C8 S1 1
XKN C9 S1 1
XKN N1 S1 1
XKN N2 S1 1
XKN N3 S1 1
XKN N4 S1 1
XKN O4 S1 1
XKN N2 F1 1
XKN C12 F1 1
XKN O4 F1 1
XKN C13 F1 1
XKN C15 F2 1
XKN N3 F2 1
XKN C16 F2 1
XKN N4 F2 1
XKN C25 F2 1
XKN C26 F2 1
XKN C27 F2 1
XKN C13 F2 1
XKN C14 F2 1
XKN C15 F3 1
XKN C25 F3 1
XKN N4 F3 1
XKN C16 F3 1
XKN N3 F3 1
XKN C13 F4 1
XKN C27 F4 1
XKN C26 F4 1
XKN C25 F4 1
XKN C15 F4 1
XKN C14 F4 1
XKN C18 F4 2
XKN C24 F4 2
XKN C23 F4 2
XKN C22 F4 2
XKN C21 F4 2
XKN C19 F4 2
XKN C3 F4 3
XKN C30 F4 3
XKN C7 F4 3
XKN C6 F4 3
XKN C5 F4 3
XKN C4 F4 3
XKN N1 F5 1
XKN C29 F5 1
XKN C28 F5 1
XKN N2 F5 1
XKN C10 F5 1
XKN C9 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id XKN
_pdbe_chem_comp_rdkit_properties.exactmw 560.189
_pdbe_chem_comp_rdkit_properties.amw 560.651
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 8
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 9
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 7
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 40
_pdbe_chem_comp_rdkit_properties.NumAtoms 69
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 10
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.267
_pdbe_chem_comp_rdkit_properties.NumRings 5
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 273.499
_pdbe_chem_comp_rdkit_properties.tpsa 84.740
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.862
_pdbe_chem_comp_rdkit_properties.CrippenMR 146.965
_pdbe_chem_comp_rdkit_properties.chi0v 20.025
_pdbe_chem_comp_rdkit_properties.chi1v 11.647
_pdbe_chem_comp_rdkit_properties.chi2v 5.381
_pdbe_chem_comp_rdkit_properties.chi3v 5.381
_pdbe_chem_comp_rdkit_properties.chi4v 3.444
_pdbe_chem_comp_rdkit_properties.chi0n 48.208
_pdbe_chem_comp_rdkit_properties.chi1n 24.764
_pdbe_chem_comp_rdkit_properties.chi2n 4.689
_pdbe_chem_comp_rdkit_properties.chi3n 4.689
_pdbe_chem_comp_rdkit_properties.chi4n 2.996
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -4.200
_pdbe_chem_comp_rdkit_properties.kappa1 9.159
_pdbe_chem_comp_rdkit_properties.kappa2 11.118
_pdbe_chem_comp_rdkit_properties.kappa3 5.710
_pdbe_chem_comp_rdkit_properties.Phi 2.546
#
_pdbe_chem_comp_external_mappings.comp_id XKN
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 168451739
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
XKN C1 8.846 1.353 2.884 ETKDGv3 1
XKN C10 1.934 2.067 0.727 ETKDGv3 2
XKN C11 1.194 3.318 0.243 ETKDGv3 3
XKN C12 0.348 0.134 1.054 ETKDGv3 4
XKN C13 -0.954 -0.348 0.544 ETKDGv3 5
XKN C14 -1.562 -1.583 1.130 ETKDGv3 6
XKN C15 -2.744 -1.976 0.656 ETKDGv3 7
XKN C16 -4.609 -3.035 0.322 ETKDGv3 8
XKN C17 -5.856 -1.400 -1.242 ETKDGv3 9
XKN C18 -6.608 -0.524 -0.272 ETKDGv3 10
XKN C19 -7.578 -1.124 0.689 ETKDGv3 11
XKN C2 8.257 1.044 1.878 ETKDGv3 12
XKN C20 -8.692 -3.222 1.496 ETKDGv3 13
XKN C21 -8.200 -0.327 1.583 ETKDGv3 14
XKN C22 -7.926 1.123 1.610 ETKDGv3 15
XKN C23 -7.056 1.658 0.749 ETKDGv3 16
XKN C24 -6.363 0.799 -0.229 ETKDGv3 17
XKN C25 -3.436 -1.255 -0.362 ETKDGv3 18
XKN C26 -2.948 -0.142 -0.912 ETKDGv3 19
XKN C27 -1.628 0.338 -0.418 ETKDGv3 20
XKN C28 1.487 0.454 -1.182 ETKDGv3 21
XKN C29 2.977 0.512 -1.517 ETKDGv3 22
XKN C3 7.554 0.675 0.678 ETKDGv3 23
XKN C30 6.651 1.507 0.139 ETKDGv3 24
XKN C4 7.831 -0.630 0.038 ETKDGv3 25
XKN C5 7.187 -0.979 -1.085 ETKDGv3 26
XKN C6 6.187 -0.061 -1.676 ETKDGv3 27
XKN C7 5.919 1.122 -1.094 ETKDGv3 28
XKN C8 4.884 2.058 -1.682 ETKDGv3 29
XKN C9 3.409 2.078 0.289 ETKDGv3 30
XKN N1 3.515 1.838 -1.163 ETKDGv3 31
XKN N2 1.270 0.857 0.215 ETKDGv3 32
XKN N3 -3.530 -3.090 1.055 ETKDGv3 33
XKN N4 -4.653 -1.939 -0.613 ETKDGv3 34
XKN O1 7.513 -2.370 -3.340 ETKDGv3 35
XKN O2 6.428 -3.509 -1.455 ETKDGv3 36
XKN O3 -7.816 -2.507 0.630 ETKDGv3 37
XKN O4 0.661 -0.102 2.252 ETKDGv3 38
XKN S1 7.500 -2.532 -1.846 ETKDGv3 39
XKN F1 8.991 -3.119 -1.361 ETKDGv3 40
XKN H1 9.363 1.625 3.766 ETKDGv3 41
XKN H2 1.915 2.074 1.839 ETKDGv3 42
XKN H3 1.654 4.229 0.682 ETKDGv3 43
XKN H4 0.132 3.274 0.565 ETKDGv3 44
XKN H5 1.228 3.398 -0.864 ETKDGv3 45
XKN H6 -1.065 -2.146 1.910 ETKDGv3 46
XKN H7 -5.410 -3.754 0.424 ETKDGv3 47
XKN H8 -6.502 -2.238 -1.580 ETKDGv3 48
XKN H9 -5.577 -0.830 -2.155 ETKDGv3 49
XKN H10 -8.672 -4.297 1.224 ETKDGv3 50
XKN H11 -9.730 -2.846 1.384 ETKDGv3 51
XKN H12 -8.357 -3.116 2.550 ETKDGv3 52
XKN H13 -8.910 -0.724 2.295 ETKDGv3 53
XKN H14 -8.433 1.752 2.330 ETKDGv3 54
XKN H15 -6.854 2.721 0.771 ETKDGv3 55
XKN H16 -5.654 1.255 -0.909 ETKDGv3 56
XKN H17 -3.481 0.392 -1.686 ETKDGv3 57
XKN H18 -1.232 1.260 -0.824 ETKDGv3 58
XKN H19 1.121 -0.582 -1.354 ETKDGv3 59
XKN H20 0.932 1.138 -1.859 ETKDGv3 60
XKN H21 3.504 -0.294 -0.959 ETKDGv3 61
XKN H22 3.098 0.325 -2.607 ETKDGv3 62
XKN H23 6.446 2.465 0.603 ETKDGv3 63
XKN H24 8.556 -1.299 0.485 ETKDGv3 64
XKN H25 5.667 -0.357 -2.578 ETKDGv3 65
XKN H26 5.186 3.109 -1.482 ETKDGv3 66
XKN H27 4.877 1.965 -2.791 ETKDGv3 67
XKN H28 3.951 1.288 0.856 ETKDGv3 68
XKN H29 3.863 3.059 0.554 ETKDGv3 69
#