data_EK1
#
_chem_comp.id EK1
_chem_comp.name "(2R)-2-benzyl-3-[4-propoxy-3-({[4-(pyrimidin-2-yl)benzoyl]amino}methyl)phenyl]propanoic acid"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C31 H31 N3 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2012-05-10
_chem_comp.pdbx_modified_date 2013-04-26
_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 509.596
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code EK1
_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 3VSO
_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.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
EK1 N81 N81 N 0 1 Y N N N N N 16.619 75.693 8.073 8.561 -1.370 -0.704 N81 EK1 1
EK1 C82 C82 C 0 1 Y N N N N N 17.129 74.471 7.898 7.596 -1.133 0.173 C82 EK1 2
EK1 N83 N83 N 0 1 Y N N N N N 18.152 74.231 7.060 7.826 -1.145 1.479 N83 EK1 3
EK1 C84 C84 C 0 1 Y N N N N N 18.714 75.234 6.382 9.036 -1.395 1.949 C84 EK1 4
EK1 C85 C85 C 0 1 Y N N N N N 18.227 76.524 6.537 10.069 -1.648 1.059 C85 EK1 5
EK1 C86 C86 C 0 1 Y N N N N N 17.153 76.727 7.413 9.793 -1.627 -0.300 C86 EK1 6
EK1 C99 C99 C 0 1 Y N N N N N 17.280 72.142 8.626 5.198 -0.597 0.591 C99 EK1 7
EK1 C98 C98 C 0 1 Y N N N N N 16.550 73.327 8.584 6.226 -0.848 -0.317 C98 EK1 8
EK1 C19 C19 C 0 1 Y N N N N N 15.282 73.395 9.144 5.965 -0.831 -1.688 C19 EK1 9
EK1 C17 C17 C 0 1 Y N N N N N 14.741 72.274 9.773 4.693 -0.566 -2.144 C17 EK1 10
EK1 C87 C87 C 0 1 Y N N N N N 15.479 71.095 9.817 3.664 -0.315 -1.235 C87 EK1 11
EK1 C22 C22 C 0 1 Y N N N N N 16.738 71.041 9.246 3.925 -0.333 0.137 C22 EK1 12
EK1 C97 C97 C 0 1 N N N N N N 14.941 69.878 10.473 2.298 -0.030 -1.724 C97 EK1 13
EK1 O99 O99 O 0 1 N N N N N N 13.897 69.419 10.072 2.071 -0.014 -2.918 O99 EK1 14
EK1 N99 N99 N 0 1 N N N N N N 15.760 69.282 11.613 1.304 0.212 -0.846 N99 EK1 15
EK1 C15 C15 C 0 1 N N N N N N 15.450 68.104 12.427 -0.049 0.494 -1.331 C15 EK1 16
EK1 C8 C8 C 0 1 Y N N N N N 16.578 67.574 13.298 -0.965 0.728 -0.157 C8 EK1 17
EK1 C9 C9 C 0 1 Y N N N N N 17.732 67.164 12.652 -0.978 1.961 0.478 C9 EK1 18
EK1 O3 O3 O 0 1 N N N N N N 17.776 67.254 11.245 -0.166 2.960 0.042 O3 EK1 19
EK1 C12 C12 C 0 1 N N N N N N 18.923 66.932 10.575 -0.233 4.203 0.744 C12 EK1 20
EK1 C13 C13 C 0 1 N N N N N N 19.443 67.952 9.592 0.744 5.198 0.114 C13 EK1 21
EK1 C14 C14 C 0 1 N N N N N N 18.842 69.270 9.622 0.673 6.529 0.865 C14 EK1 22
EK1 C10 C10 C 0 1 Y N N N N N 18.807 66.673 13.384 -1.822 2.173 1.559 C10 EK1 23
EK1 C11 C11 C 0 1 Y N N N N N 18.736 66.593 14.773 -2.647 1.156 1.999 C11 EK1 24
EK1 C6 C6 C 0 1 Y N N N N N 17.580 67.010 15.442 -2.631 -0.072 1.365 C6 EK1 25
EK1 C5 C5 C 0 1 N N N N N N 17.532 66.907 16.992 -3.531 -1.180 1.848 C5 EK1 26
EK1 C2 C2 C 0 1 N N R N N N 18.687 67.529 17.818 -4.919 -1.018 1.223 C2 EK1 27
EK1 C3 C3 C 0 1 N N N N N N 18.728 69.008 17.478 -4.825 -1.227 -0.289 C3 EK1 28
EK1 C4 C4 C 0 1 Y N N N N N 19.781 69.919 18.231 -6.165 -0.947 -0.919 C4 EK1 29
EK1 C51 C51 C 0 1 Y N N N N N 19.838 69.933 19.618 -6.474 0.330 -1.348 C51 EK1 30
EK1 C52 C52 C 0 1 Y N N N N N 20.754 70.721 20.284 -7.704 0.587 -1.926 C52 EK1 31
EK1 C53 C53 C 0 1 Y N N N N N 21.626 71.510 19.548 -8.624 -0.434 -2.075 C53 EK1 32
EK1 C54 C54 C 0 1 Y N N N N N 21.568 71.493 18.161 -8.314 -1.711 -1.646 C54 EK1 33
EK1 C55 C55 C 0 1 Y N N N N N 20.653 70.699 17.488 -7.083 -1.969 -1.074 C55 EK1 34
EK1 C7 C7 C 0 1 Y N N N N N 16.504 67.499 14.703 -1.795 -0.284 0.284 C7 EK1 35
EK1 C1 C1 C 0 1 N N N N N N 18.579 67.439 19.286 -5.858 -2.038 1.814 C1 EK1 36
EK1 O1 O1 O 0 1 N N N N N N 19.302 66.635 19.936 -5.453 -3.143 2.089 O1 EK1 37
EK1 O2 O2 O 0 1 N N N N N N 17.780 68.204 19.946 -7.143 -1.719 2.034 O2 EK1 38
EK1 H1 H1 H 0 1 N N N N N N 19.543 75.043 5.717 9.217 -1.403 3.014 H1 EK1 39
EK1 H2 H2 H 0 1 N N N N N N 18.665 77.350 5.996 11.067 -1.855 1.417 H2 EK1 40
EK1 H3 H3 H 0 1 N N N N N N 16.755 77.721 7.556 10.575 -1.820 -1.020 H3 EK1 41
EK1 H4 H4 H 0 1 N N N N N N 18.261 72.088 8.177 5.399 -0.615 1.652 H4 EK1 42
EK1 H5 H5 H 0 1 N N N N N N 14.716 74.313 9.093 6.762 -1.026 -2.391 H5 EK1 43
EK1 H6 H6 H 0 1 N N N N N N 13.760 72.320 10.221 4.492 -0.553 -3.205 H6 EK1 44
EK1 H7 H7 H 0 1 N N N N N N 17.303 70.121 9.288 3.128 -0.143 0.841 H7 EK1 45
EK1 H8 H8 H 0 1 N N N N N N 14.610 68.364 13.088 -0.031 1.384 -1.961 H8 EK1 46
EK1 H9 H9 H 0 1 N N N N N N 18.735 66.001 10.021 -1.246 4.601 0.682 H9 EK1 47
EK1 H10 H10 H 0 1 N N N N N N 19.293 67.544 8.582 1.757 4.800 0.176 H10 EK1 48
EK1 H11 H11 H 0 1 N N N N N N 19.314 69.906 8.858 0.938 6.371 1.911 H11 EK1 49
EK1 H12 H12 H 0 1 N N N N N N 17.765 69.186 9.415 1.369 7.237 0.417 H12 EK1 50
EK1 H13 H13 H 0 1 N N N N N N 18.991 69.718 10.615 -0.340 6.926 0.804 H13 EK1 51
EK1 H14 H14 H 0 1 N N N N N N 19.702 66.352 12.873 -1.834 3.132 2.055 H14 EK1 52
EK1 H15 H15 H 0 1 N N N N N N 19.575 66.208 15.334 -3.304 1.321 2.840 H15 EK1 53
EK1 H16 H16 H 0 1 N N N N N N 16.602 67.394 17.320 -3.112 -2.143 1.556 H16 EK1 54
EK1 H17 H17 H 0 1 N N N N N N 17.494 65.837 17.244 -3.614 -1.134 2.934 H17 EK1 55
EK1 H18 H18 H 0 1 N N N N N N 19.631 67.066 17.494 -5.295 -0.016 1.429 H18 EK1 56
EK1 H19 H19 H 0 1 N N N N N N 18.937 69.090 16.401 -4.080 -0.548 -0.704 H19 EK1 57
EK1 H20 H20 H 0 1 N N N N N N 17.730 69.419 17.690 -4.534 -2.257 -0.497 H20 EK1 58
EK1 H21 H21 H 0 1 N N N N N N 19.155 69.318 20.184 -5.756 1.128 -1.231 H21 EK1 59
EK1 H22 H22 H 0 1 N N N N N N 20.792 70.724 21.363 -7.945 1.585 -2.260 H22 EK1 60
EK1 H23 H23 H 0 1 N N N N N N 22.348 72.135 20.052 -9.584 -0.234 -2.526 H23 EK1 61
EK1 H24 H24 H 0 1 N N N N N N 22.250 72.111 17.595 -9.033 -2.509 -1.762 H24 EK1 62
EK1 H25 H25 H 0 1 N N N N N N 20.620 70.688 16.409 -6.841 -2.967 -0.739 H25 EK1 63
EK1 H26 H26 H 0 1 N N N N N N 15.607 67.823 15.211 -1.788 -1.243 -0.213 H26 EK1 64
EK1 H27 H27 H 0 1 N N N N N N 17.869 68.029 20.875 -7.707 -2.407 2.415 H27 EK1 65
EK1 H28 H28 H 0 1 N N N N N N 16.614 69.754 11.832 1.485 0.199 0.106 H28 EK1 66
EK1 H29 H29 H 0 1 N N N N N N 15.144 67.296 11.746 -0.411 -0.354 -1.911 H29 EK1 67
EK1 H30 H30 H 0 1 N N N N N N 19.710 66.760 11.324 0.032 4.045 1.789 H30 EK1 68
EK1 H31 H31 H 0 1 N N N N N N 20.519 68.075 9.782 0.479 5.356 -0.931 H31 EK1 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
EK1 C84 C85 DOUB Y N 1
EK1 C84 N83 SING Y N 2
EK1 C85 C86 SING Y N 3
EK1 N83 C82 DOUB Y N 4
EK1 C86 N81 DOUB Y N 5
EK1 C82 N81 SING Y N 6
EK1 C82 C98 SING N N 7
EK1 C98 C99 DOUB Y N 8
EK1 C98 C19 SING Y N 9
EK1 C99 C22 SING Y N 10
EK1 C19 C17 DOUB Y N 11
EK1 C22 C87 DOUB Y N 12
EK1 C13 C14 SING N N 13
EK1 C13 C12 SING N N 14
EK1 C17 C87 SING Y N 15
EK1 C87 C97 SING N N 16
EK1 O99 C97 DOUB N N 17
EK1 C97 N99 SING N N 18
EK1 C12 O3 SING N N 19
EK1 O3 C9 SING N N 20
EK1 N99 C15 SING N N 21
EK1 C15 C8 SING N N 22
EK1 C9 C8 DOUB Y N 23
EK1 C9 C10 SING Y N 24
EK1 C8 C7 SING Y N 25
EK1 C10 C11 DOUB Y N 26
EK1 C7 C6 DOUB Y N 27
EK1 C11 C6 SING Y N 28
EK1 C6 C5 SING N N 29
EK1 C5 C2 SING N N 30
EK1 C3 C2 SING N N 31
EK1 C3 C4 SING N N 32
EK1 C55 C54 DOUB Y N 33
EK1 C55 C4 SING Y N 34
EK1 C2 C1 SING N N 35
EK1 C54 C53 SING Y N 36
EK1 C4 C51 DOUB Y N 37
EK1 C1 O1 DOUB N N 38
EK1 C1 O2 SING N N 39
EK1 C53 C52 DOUB Y N 40
EK1 C51 C52 SING Y N 41
EK1 C84 H1 SING N N 42
EK1 C85 H2 SING N N 43
EK1 C86 H3 SING N N 44
EK1 C99 H4 SING N N 45
EK1 C19 H5 SING N N 46
EK1 C17 H6 SING N N 47
EK1 C22 H7 SING N N 48
EK1 C15 H8 SING N N 49
EK1 C12 H9 SING N N 50
EK1 C13 H10 SING N N 51
EK1 C14 H11 SING N N 52
EK1 C14 H12 SING N N 53
EK1 C14 H13 SING N N 54
EK1 C10 H14 SING N N 55
EK1 C11 H15 SING N N 56
EK1 C5 H16 SING N N 57
EK1 C5 H17 SING N N 58
EK1 C2 H18 SING N N 59
EK1 C3 H19 SING N N 60
EK1 C3 H20 SING N N 61
EK1 C51 H21 SING N N 62
EK1 C52 H22 SING N N 63
EK1 C53 H23 SING N N 64
EK1 C54 H24 SING N N 65
EK1 C55 H25 SING N N 66
EK1 C7 H26 SING N N 67
EK1 O2 H27 SING N N 68
EK1 N99 H28 SING N N 69
EK1 C15 H29 SING N N 70
EK1 C12 H30 SING N N 71
EK1 C13 H31 SING N N 72
#
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
EK1 SMILES ACDLabs 12.01 O=C(O)C(Cc1ccccc1)Cc2cc(c(OCCC)cc2)CNC(=O)c4ccc(c3ncccn3)cc4
EK1 InChI InChI 1.03 InChI=1S/C31H31N3O4/c1-2-17-38-28-14-9-23(19-26(31(36)37)18-22-7-4-3-5-8-22)20-27(28)21-34-30(35)25-12-10-24(11-13-25)29-32-15-6-16-33-29/h3-16,20,26H,2,17-19,21H2,1H3,(H,34,35)(H,36,37)/t26-/m1/s1
EK1 InChIKey InChI 1.03 DEAVJKJURZRSJV-AREMUKBSSA-N
EK1 SMILES_CANONICAL CACTVS 3.370 CCCOc1ccc(C[C@@H](Cc2ccccc2)C(O)=O)cc1CNC(=O)c3ccc(cc3)c4ncccn4
EK1 SMILES CACTVS 3.370 CCCOc1ccc(C[CH](Cc2ccccc2)C(O)=O)cc1CNC(=O)c3ccc(cc3)c4ncccn4
EK1 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 CCCOc1ccc(cc1CNC(=O)c2ccc(cc2)c3ncccn3)C[C@@H](Cc4ccccc4)C(=O)O
EK1 SMILES "OpenEye OEToolkits" 1.7.6 CCCOc1ccc(cc1CNC(=O)c2ccc(cc2)c3ncccn3)CC(Cc4ccccc4)C(=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
EK1 "SYSTEMATIC NAME" ACDLabs 12.01 "(2R)-2-benzyl-3-[4-propoxy-3-({[4-(pyrimidin-2-yl)benzoyl]amino}methyl)phenyl]propanoic acid"
EK1 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(2R)-2-(phenylmethyl)-3-[4-propoxy-3-[[(4-pyrimidin-2-ylphenyl)carbonylamino]methyl]phenyl]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
EK1 'Create component' 2012-05-10 PDBJ
EK1 'Initial release' 2013-05-01 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 '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
EK1 N81 N 17.290 6.375 1
EK1 C82 C 15.990 7.125 2
EK1 N83 N 15.990 8.625 3
EK1 C84 C 17.290 9.375 4
EK1 C85 C 18.588 8.625 5
EK1 C86 C 18.588 7.125 6
EK1 C99 C 14.691 4.875 7
EK1 C98 C 14.691 6.375 8
EK1 C19 C 13.392 7.125 9
EK1 C17 C 12.093 6.375 10
EK1 C87 C 12.093 4.875 11
EK1 C22 C 13.392 4.125 12
EK1 C97 C 10.794 4.125 13
EK1 O99 O 9.495 4.875 14
EK1 N99 N 10.794 2.625 15
EK1 C15 C 9.495 1.875 16
EK1 C8 C 9.495 0.375 17
EK1 C9 C 8.196 -0.375 18
EK1 O3 O 6.897 0.375 19
EK1 C12 C 5.598 -0.375 20
EK1 C13 C 4.299 0.375 21
EK1 C14 C 3.000 -0.375 22
EK1 C10 C 8.196 -1.875 23
EK1 C11 C 9.495 -2.625 24
EK1 C6 C 10.794 -1.875 25
EK1 C5 C 12.093 -2.625 26
EK1 C2 C 12.093 -4.125 27
EK1 C3 C 13.392 -4.875 28
EK1 C4 C 13.392 -6.375 29
EK1 C51 C 14.691 -7.125 30
EK1 C52 C 14.691 -8.625 31
EK1 C53 C 13.392 -9.375 32
EK1 C54 C 12.093 -8.625 33
EK1 C55 C 12.093 -7.125 34
EK1 C7 C 10.794 -0.375 35
EK1 C1 C 10.794 -4.875 36
EK1 O1 O 10.794 -6.375 37
EK1 O2 O 9.495 -4.125 38
#
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
EK1 C84 C85 DOUBLE NONE 1
EK1 C84 N83 SINGLE NONE 2
EK1 C85 C86 SINGLE NONE 3
EK1 N83 C82 DOUBLE NONE 4
EK1 C86 N81 DOUBLE NONE 5
EK1 C82 N81 SINGLE NONE 6
EK1 C82 C98 SINGLE NONE 7
EK1 C98 C99 DOUBLE NONE 8
EK1 C98 C19 SINGLE NONE 9
EK1 C99 C22 SINGLE NONE 10
EK1 C19 C17 DOUBLE NONE 11
EK1 C22 C87 DOUBLE NONE 12
EK1 C13 C14 SINGLE NONE 13
EK1 C13 C12 SINGLE NONE 14
EK1 C17 C87 SINGLE NONE 15
EK1 C87 C97 SINGLE NONE 16
EK1 O99 C97 DOUBLE NONE 17
EK1 C97 N99 SINGLE NONE 18
EK1 C12 O3 SINGLE NONE 19
EK1 O3 C9 SINGLE NONE 20
EK1 N99 C15 SINGLE NONE 21
EK1 C15 C8 SINGLE NONE 22
EK1 C9 C8 DOUBLE NONE 23
EK1 C9 C10 SINGLE NONE 24
EK1 C8 C7 SINGLE NONE 25
EK1 C10 C11 DOUBLE NONE 26
EK1 C7 C6 DOUBLE NONE 27
EK1 C11 C6 SINGLE NONE 28
EK1 C6 C5 SINGLE NONE 29
EK1 C2 C5 SINGLE BEGINWEDGE 30
EK1 C3 C2 SINGLE NONE 31
EK1 C3 C4 SINGLE NONE 32
EK1 C55 C54 DOUBLE NONE 33
EK1 C55 C4 SINGLE NONE 34
EK1 C2 C1 SINGLE NONE 35
EK1 C54 C53 SINGLE NONE 36
EK1 C4 C51 DOUBLE NONE 37
EK1 C1 O1 DOUBLE NONE 38
EK1 C1 O2 SINGLE NONE 39
EK1 C53 C52 DOUBLE NONE 40
EK1 C51 C52 SINGLE NONE 41
#
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
EK1 MurckoScaffold S1 scaffold O=C(NCc1cccc(CCCc2ccccc2)c1)c1ccc(-c2ncccn2)cc1 InChI=1S/C27H25N3O/c31-27(25-15-13-24(14-16-25)26-28-17-6-18-29-26)30-20-23-12-5-11-22(19-23)10-4-9-21-7-2-1-3-8-21/h1-3,5-8,11-19H,4,9-10,20H2,(H,30,31) VPZXCCMHYXMUGA-UHFFFAOYSA-N
EK1 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
EK1 phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
EK1 pyrimidine F3 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-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
EK1 N81 S1 1
EK1 C82 S1 1
EK1 N83 S1 1
EK1 C84 S1 1
EK1 C85 S1 1
EK1 C86 S1 1
EK1 C99 S1 1
EK1 C98 S1 1
EK1 C19 S1 1
EK1 C17 S1 1
EK1 C87 S1 1
EK1 C22 S1 1
EK1 C97 S1 1
EK1 O99 S1 1
EK1 N99 S1 1
EK1 C15 S1 1
EK1 C8 S1 1
EK1 C9 S1 1
EK1 C10 S1 1
EK1 C11 S1 1
EK1 C6 S1 1
EK1 C5 S1 1
EK1 C2 S1 1
EK1 C3 S1 1
EK1 C4 S1 1
EK1 C51 S1 1
EK1 C52 S1 1
EK1 C53 S1 1
EK1 C54 S1 1
EK1 C55 S1 1
EK1 C7 S1 1
EK1 N99 F1 1
EK1 C97 F1 1
EK1 O99 F1 1
EK1 C87 F1 1
EK1 C99 F2 1
EK1 C98 F2 1
EK1 C19 F2 1
EK1 C17 F2 1
EK1 C87 F2 1
EK1 C22 F2 1
EK1 C8 F2 2
EK1 C9 F2 2
EK1 C10 F2 2
EK1 C11 F2 2
EK1 C6 F2 2
EK1 C7 F2 2
EK1 C4 F2 3
EK1 C55 F2 3
EK1 C54 F2 3
EK1 C53 F2 3
EK1 C52 F2 3
EK1 C51 F2 3
EK1 C85 F3 1
EK1 C84 F3 1
EK1 N83 F3 1
EK1 C82 F3 1
EK1 N81 F3 1
EK1 C86 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id EK1
_pdbe_chem_comp_rdkit_properties.exactmw 509.231
_pdbe_chem_comp_rdkit_properties.amw 509.606
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 13
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 38
_pdbe_chem_comp_rdkit_properties.NumAtoms 69
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.226
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_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 265.806
_pdbe_chem_comp_rdkit_properties.tpsa 101.410
_pdbe_chem_comp_rdkit_properties.CrippenClogP 4.287
_pdbe_chem_comp_rdkit_properties.CrippenMR 142.846
_pdbe_chem_comp_rdkit_properties.chi0v 18.475
_pdbe_chem_comp_rdkit_properties.chi1v 9.862
_pdbe_chem_comp_rdkit_properties.chi2v 3.953
_pdbe_chem_comp_rdkit_properties.chi3v 3.953
_pdbe_chem_comp_rdkit_properties.chi4v 2.402
_pdbe_chem_comp_rdkit_properties.chi0n 49.475
_pdbe_chem_comp_rdkit_properties.chi1n 25.218
_pdbe_chem_comp_rdkit_properties.chi2n 3.953
_pdbe_chem_comp_rdkit_properties.chi3n 3.953
_pdbe_chem_comp_rdkit_properties.chi4n 2.402
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -4.520
_pdbe_chem_comp_rdkit_properties.kappa1 7.757
_pdbe_chem_comp_rdkit_properties.kappa2 13.147
_pdbe_chem_comp_rdkit_properties.kappa3 7.258
_pdbe_chem_comp_rdkit_properties.Phi 2.684
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
EK1 UniChem ChEMBL CHEMBL2377530
EK1 UniChem PDBe EK1
EK1 UniChem ZINC ZINC000096909580
EK1 UniChem 'PubChem TPHARMA' 135628327
EK1 UniChem PubChem 56929500
EK1 UniChem Nikkaji J3.074.740B
EK1 UniChem BindingDb 50491026
#
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
EK1 N81 5.290 3.273 3.104 ETKDGv3 1
EK1 C82 5.671 2.263 2.150 ETKDGv3 2
EK1 N83 6.906 1.840 2.128 ETKDGv3 3
EK1 C84 7.890 2.361 3.035 ETKDGv3 4
EK1 C85 7.548 3.298 3.922 ETKDGv3 5
EK1 C86 6.153 3.769 3.941 ETKDGv3 6
EK1 C99 4.993 0.771 0.304 ETKDGv3 7
EK1 C98 4.665 1.714 1.208 ETKDGv3 8
EK1 C19 3.265 2.209 1.249 ETKDGv3 9
EK1 C17 2.347 1.722 0.406 ETKDGv3 10
EK1 C87 2.707 0.675 -0.583 ETKDGv3 11
EK1 C22 3.978 0.235 -0.628 ETKDGv3 12
EK1 C97 1.672 0.163 -1.510 ETKDGv3 13
EK1 O99 0.680 0.894 -1.780 ETKDGv3 14
EK1 N99 1.762 -1.153 -2.084 ETKDGv3 15
EK1 C15 0.745 -1.681 -2.990 ETKDGv3 16
EK1 C8 -0.508 -2.025 -2.224 ETKDGv3 17
EK1 C9 -0.552 -3.100 -1.408 ETKDGv3 18
EK1 O3 0.577 -3.933 -1.314 ETKDGv3 19
EK1 C12 0.649 -5.147 -0.569 ETKDGv3 20
EK1 C13 -0.083 -6.274 -1.304 ETKDGv3 21
EK1 C14 -0.006 -7.582 -0.523 ETKDGv3 22
EK1 C10 -1.788 -3.360 -0.618 ETKDGv3 23
EK1 C11 -2.834 -2.532 -0.702 ETKDGv3 24
EK1 C6 -2.784 -1.349 -1.589 ETKDGv3 25
EK1 C5 -3.934 -0.375 -1.615 ETKDGv3 26
EK1 C2 -3.639 0.874 -0.759 ETKDGv3 27
EK1 C3 -4.770 1.911 -0.910 ETKDGv3 28
EK1 C4 -4.428 3.210 -0.225 ETKDGv3 29
EK1 C51 -4.901 3.489 1.004 ETKDGv3 30
EK1 C52 -4.525 4.750 1.677 ETKDGv3 31
EK1 C53 -3.703 5.615 1.071 ETKDGv3 32
EK1 C54 -3.170 5.311 -0.272 ETKDGv3 33
EK1 C55 -3.512 4.172 -0.887 ETKDGv3 34
EK1 C7 -1.678 -1.117 -2.314 ETKDGv3 35
EK1 C1 -3.453 0.495 0.689 ETKDGv3 36
EK1 O1 -2.351 0.712 1.260 ETKDGv3 37
EK1 O2 -4.495 -0.097 1.396 ETKDGv3 38
EK1 H1 8.907 1.994 2.995 ETKDGv3 39
EK1 H2 8.277 3.702 4.613 ETKDGv3 40
EK1 H3 5.845 4.527 4.649 ETKDGv3 41
EK1 H4 6.002 0.386 0.236 ETKDGv3 42
EK1 H5 2.972 2.968 1.962 ETKDGv3 43
EK1 H6 1.331 2.094 0.458 ETKDGv3 44
EK1 H7 4.297 -0.494 -1.361 ETKDGv3 45
EK1 H8 0.535 -0.940 -3.792 ETKDGv3 46
EK1 H9 1.720 -5.423 -0.467 ETKDGv3 47
EK1 H10 0.380 -6.419 -2.304 ETKDGv3 48
EK1 H11 -0.539 -8.380 -1.082 ETKDGv3 49
EK1 H12 -0.485 -7.465 0.472 ETKDGv3 50
EK1 H13 1.053 -7.890 -0.388 ETKDGv3 51
EK1 H14 -1.856 -4.211 0.045 ETKDGv3 52
EK1 H15 -3.719 -2.727 -0.109 ETKDGv3 53
EK1 H16 -4.863 -0.871 -1.257 ETKDGv3 54
EK1 H17 -4.121 -0.069 -2.669 ETKDGv3 55
EK1 H18 -2.698 1.336 -1.137 ETKDGv3 56
EK1 H19 -5.725 1.497 -0.516 ETKDGv3 57
EK1 H20 -4.936 2.122 -1.990 ETKDGv3 58
EK1 H21 -5.555 2.795 1.517 ETKDGv3 59
EK1 H22 -4.914 4.970 2.663 ETKDGv3 60
EK1 H23 -3.426 6.538 1.565 ETKDGv3 61
EK1 H24 -2.501 6.011 -0.757 ETKDGv3 62
EK1 H25 -3.114 3.953 -1.870 ETKDGv3 63
EK1 H26 -1.625 -0.243 -2.953 ETKDGv3 64
EK1 H27 -4.381 -0.357 2.368 ETKDGv3 65
EK1 H28 2.527 -1.800 -1.790 ETKDGv3 66
EK1 H29 1.133 -2.593 -3.494 ETKDGv3 67
EK1 H30 0.246 -5.001 0.457 ETKDGv3 68
EK1 H31 -1.150 -6.006 -1.453 ETKDGv3 69
#